code stringlengths 1 1.49M | vector listlengths 0 7.38k | snippet listlengths 0 7.38k |
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# -*- coding: utf-8 -*-
"""
markupsafe._constants
~~~~~~~~~~~~~~~~~~~~~
Highlevel implementation of the Markup string.
:copyright: (c) 2010 by Armin Ronacher.
:license: BSD, see LICENSE for more details.
"""
HTML_ENTITIES = {
'AElig': 198,
'Aacute': 193,
'Acirc': 194,
'Agrave': 192,
'Alpha': 913,
'Aring': 197,
'Atilde': 195,
'Auml': 196,
'Beta': 914,
'Ccedil': 199,
'Chi': 935,
'Dagger': 8225,
'Delta': 916,
'ETH': 208,
'Eacute': 201,
'Ecirc': 202,
'Egrave': 200,
'Epsilon': 917,
'Eta': 919,
'Euml': 203,
'Gamma': 915,
'Iacute': 205,
'Icirc': 206,
'Igrave': 204,
'Iota': 921,
'Iuml': 207,
'Kappa': 922,
'Lambda': 923,
'Mu': 924,
'Ntilde': 209,
'Nu': 925,
'OElig': 338,
'Oacute': 211,
'Ocirc': 212,
'Ograve': 210,
'Omega': 937,
'Omicron': 927,
'Oslash': 216,
'Otilde': 213,
'Ouml': 214,
'Phi': 934,
'Pi': 928,
'Prime': 8243,
'Psi': 936,
'Rho': 929,
'Scaron': 352,
'Sigma': 931,
'THORN': 222,
'Tau': 932,
'Theta': 920,
'Uacute': 218,
'Ucirc': 219,
'Ugrave': 217,
'Upsilon': 933,
'Uuml': 220,
'Xi': 926,
'Yacute': 221,
'Yuml': 376,
'Zeta': 918,
'aacute': 225,
'acirc': 226,
'acute': 180,
'aelig': 230,
'agrave': 224,
'alefsym': 8501,
'alpha': 945,
'amp': 38,
'and': 8743,
'ang': 8736,
'apos': 39,
'aring': 229,
'asymp': 8776,
'atilde': 227,
'auml': 228,
'bdquo': 8222,
'beta': 946,
'brvbar': 166,
'bull': 8226,
'cap': 8745,
'ccedil': 231,
'cedil': 184,
'cent': 162,
'chi': 967,
'circ': 710,
'clubs': 9827,
'cong': 8773,
'copy': 169,
'crarr': 8629,
'cup': 8746,
'curren': 164,
'dArr': 8659,
'dagger': 8224,
'darr': 8595,
'deg': 176,
'delta': 948,
'diams': 9830,
'divide': 247,
'eacute': 233,
'ecirc': 234,
'egrave': 232,
'empty': 8709,
'emsp': 8195,
'ensp': 8194,
'epsilon': 949,
'equiv': 8801,
'eta': 951,
'eth': 240,
'euml': 235,
'euro': 8364,
'exist': 8707,
'fnof': 402,
'forall': 8704,
'frac12': 189,
'frac14': 188,
'frac34': 190,
'frasl': 8260,
'gamma': 947,
'ge': 8805,
'gt': 62,
'hArr': 8660,
'harr': 8596,
'hearts': 9829,
'hellip': 8230,
'iacute': 237,
'icirc': 238,
'iexcl': 161,
'igrave': 236,
'image': 8465,
'infin': 8734,
'int': 8747,
'iota': 953,
'iquest': 191,
'isin': 8712,
'iuml': 239,
'kappa': 954,
'lArr': 8656,
'lambda': 955,
'lang': 9001,
'laquo': 171,
'larr': 8592,
'lceil': 8968,
'ldquo': 8220,
'le': 8804,
'lfloor': 8970,
'lowast': 8727,
'loz': 9674,
'lrm': 8206,
'lsaquo': 8249,
'lsquo': 8216,
'lt': 60,
'macr': 175,
'mdash': 8212,
'micro': 181,
'middot': 183,
'minus': 8722,
'mu': 956,
'nabla': 8711,
'nbsp': 160,
'ndash': 8211,
'ne': 8800,
'ni': 8715,
'not': 172,
'notin': 8713,
'nsub': 8836,
'ntilde': 241,
'nu': 957,
'oacute': 243,
'ocirc': 244,
'oelig': 339,
'ograve': 242,
'oline': 8254,
'omega': 969,
'omicron': 959,
'oplus': 8853,
'or': 8744,
'ordf': 170,
'ordm': 186,
'oslash': 248,
'otilde': 245,
'otimes': 8855,
'ouml': 246,
'para': 182,
'part': 8706,
'permil': 8240,
'perp': 8869,
'phi': 966,
'pi': 960,
'piv': 982,
'plusmn': 177,
'pound': 163,
'prime': 8242,
'prod': 8719,
'prop': 8733,
'psi': 968,
'quot': 34,
'rArr': 8658,
'radic': 8730,
'rang': 9002,
'raquo': 187,
'rarr': 8594,
'rceil': 8969,
'rdquo': 8221,
'real': 8476,
'reg': 174,
'rfloor': 8971,
'rho': 961,
'rlm': 8207,
'rsaquo': 8250,
'rsquo': 8217,
'sbquo': 8218,
'scaron': 353,
'sdot': 8901,
'sect': 167,
'shy': 173,
'sigma': 963,
'sigmaf': 962,
'sim': 8764,
'spades': 9824,
'sub': 8834,
'sube': 8838,
'sum': 8721,
'sup': 8835,
'sup1': 185,
'sup2': 178,
'sup3': 179,
'supe': 8839,
'szlig': 223,
'tau': 964,
'there4': 8756,
'theta': 952,
'thetasym': 977,
'thinsp': 8201,
'thorn': 254,
'tilde': 732,
'times': 215,
'trade': 8482,
'uArr': 8657,
'uacute': 250,
'uarr': 8593,
'ucirc': 251,
'ugrave': 249,
'uml': 168,
'upsih': 978,
'upsilon': 965,
'uuml': 252,
'weierp': 8472,
'xi': 958,
'yacute': 253,
'yen': 165,
'yuml': 255,
'zeta': 950,
'zwj': 8205,
'zwnj': 8204
}
| [
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"\"\"\"\n markupsafe._constants\n ~~~~~~~~~~~~~~~~~~~~~\n\n Highlevel implementation of the Markup string.\n\n :copyright: (c) 2010 by Armin Ronacher.\n :license: BSD, see LICENSE for more details.",
"HTML_ENTITIES = {\n 'AElig': 198,\n 'Aacute': 193,\n 'Acirc': 194,\n 'Agrave': 192,\n ... |
# -*- coding: utf-8 -*-
"""
jinja2.exceptions
~~~~~~~~~~~~~~~~~
Jinja exceptions.
:copyright: (c) 2010 by the Jinja Team.
:license: BSD, see LICENSE for more details.
"""
class TemplateError(Exception):
"""Baseclass for all template errors."""
def __init__(self, message=None):
if message is not None:
message = unicode(message).encode('utf-8')
Exception.__init__(self, message)
@property
def message(self):
if self.args:
message = self.args[0]
if message is not None:
return message.decode('utf-8', 'replace')
class TemplateNotFound(IOError, LookupError, TemplateError):
"""Raised if a template does not exist."""
# looks weird, but removes the warning descriptor that just
# bogusly warns us about message being deprecated
message = None
def __init__(self, name, message=None):
IOError.__init__(self)
if message is None:
message = name
self.message = message
self.name = name
self.templates = [name]
def __str__(self):
return self.message.encode('utf-8')
# unicode goes after __str__ because we configured 2to3 to rename
# __unicode__ to __str__. because the 2to3 tree is not designed to
# remove nodes from it, we leave the above __str__ around and let
# it override at runtime.
def __unicode__(self):
return self.message
class TemplatesNotFound(TemplateNotFound):
"""Like :class:`TemplateNotFound` but raised if multiple templates
are selected. This is a subclass of :class:`TemplateNotFound`
exception, so just catching the base exception will catch both.
.. versionadded:: 2.2
"""
def __init__(self, names=(), message=None):
if message is None:
message = u'non of the templates given were found: ' + \
u', '.join(map(unicode, names))
TemplateNotFound.__init__(self, names and names[-1] or None, message)
self.templates = list(names)
class TemplateSyntaxError(TemplateError):
"""Raised to tell the user that there is a problem with the template."""
def __init__(self, message, lineno, name=None, filename=None):
TemplateError.__init__(self, message)
self.lineno = lineno
self.name = name
self.filename = filename
self.source = None
# this is set to True if the debug.translate_syntax_error
# function translated the syntax error into a new traceback
self.translated = False
def __str__(self):
return unicode(self).encode('utf-8')
# unicode goes after __str__ because we configured 2to3 to rename
# __unicode__ to __str__. because the 2to3 tree is not designed to
# remove nodes from it, we leave the above __str__ around and let
# it override at runtime.
def __unicode__(self):
# for translated errors we only return the message
if self.translated:
return self.message
# otherwise attach some stuff
location = 'line %d' % self.lineno
name = self.filename or self.name
if name:
location = 'File "%s", %s' % (name, location)
lines = [self.message, ' ' + location]
# if the source is set, add the line to the output
if self.source is not None:
try:
line = self.source.splitlines()[self.lineno - 1]
except IndexError:
line = None
if line:
lines.append(' ' + line.strip())
return u'\n'.join(lines)
class TemplateAssertionError(TemplateSyntaxError):
"""Like a template syntax error, but covers cases where something in the
template caused an error at compile time that wasn't necessarily caused
by a syntax error. However it's a direct subclass of
:exc:`TemplateSyntaxError` and has the same attributes.
"""
class TemplateRuntimeError(TemplateError):
"""A generic runtime error in the template engine. Under some situations
Jinja may raise this exception.
"""
class UndefinedError(TemplateRuntimeError):
"""Raised if a template tries to operate on :class:`Undefined`."""
class SecurityError(TemplateRuntimeError):
"""Raised if a template tries to do something insecure if the
sandbox is enabled.
"""
class FilterArgumentError(TemplateRuntimeError):
"""This error is raised if a filter was called with inappropriate
arguments
"""
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"\"\"\"\n jinja2.exceptions\n ~~~~~~~~~~~~~~~~~\n\n Jinja exceptions.\n\n :copyright: (c) 2010 by the Jinja Team.\n :license: BSD, see LICENSE for more details.",
"class TemplateError(Exception):\n \"\"\"Baseclass for all template errors.\"\"\"\n\n def __init__(self, message=None):\n i... |
# -*- coding: utf-8 -*-
"""
jinja2.sandbox
~~~~~~~~~~~~~~
Adds a sandbox layer to Jinja as it was the default behavior in the old
Jinja 1 releases. This sandbox is slightly different from Jinja 1 as the
default behavior is easier to use.
The behavior can be changed by subclassing the environment.
:copyright: (c) 2010 by the Jinja Team.
:license: BSD.
"""
import operator
from jinja2.runtime import Undefined
from jinja2.environment import Environment
from jinja2.exceptions import SecurityError
from jinja2.utils import FunctionType, MethodType, TracebackType, CodeType, \
FrameType, GeneratorType
#: maximum number of items a range may produce
MAX_RANGE = 100000
#: attributes of function objects that are considered unsafe.
UNSAFE_FUNCTION_ATTRIBUTES = set(['func_closure', 'func_code', 'func_dict',
'func_defaults', 'func_globals'])
#: unsafe method attributes. function attributes are unsafe for methods too
UNSAFE_METHOD_ATTRIBUTES = set(['im_class', 'im_func', 'im_self'])
import warnings
# make sure we don't warn in python 2.6 about stuff we don't care about
warnings.filterwarnings('ignore', 'the sets module', DeprecationWarning,
module='jinja2.sandbox')
from collections import deque
_mutable_set_types = (set,)
_mutable_mapping_types = (dict,)
_mutable_sequence_types = (list,)
# on python 2.x we can register the user collection types
try:
from UserDict import UserDict, DictMixin
from UserList import UserList
_mutable_mapping_types += (UserDict, DictMixin)
_mutable_set_types += (UserList,)
except ImportError:
pass
# if sets is still available, register the mutable set from there as well
try:
from sets import Set
_mutable_set_types += (Set,)
except ImportError:
pass
#: register Python 2.6 abstract base classes
try:
from collections import MutableSet, MutableMapping, MutableSequence
_mutable_set_types += (MutableSet,)
_mutable_mapping_types += (MutableMapping,)
_mutable_sequence_types += (MutableSequence,)
except ImportError:
pass
_mutable_spec = (
(_mutable_set_types, frozenset([
'add', 'clear', 'difference_update', 'discard', 'pop', 'remove',
'symmetric_difference_update', 'update'
])),
(_mutable_mapping_types, frozenset([
'clear', 'pop', 'popitem', 'setdefault', 'update'
])),
(_mutable_sequence_types, frozenset([
'append', 'reverse', 'insert', 'sort', 'extend', 'remove'
])),
(deque, frozenset([
'append', 'appendleft', 'clear', 'extend', 'extendleft', 'pop',
'popleft', 'remove', 'rotate'
]))
)
def safe_range(*args):
"""A range that can't generate ranges with a length of more than
MAX_RANGE items.
"""
rng = xrange(*args)
if len(rng) > MAX_RANGE:
raise OverflowError('range too big, maximum size for range is %d' %
MAX_RANGE)
return rng
def unsafe(f):
"""
Mark a function or method as unsafe::
@unsafe
def delete(self):
pass
"""
f.unsafe_callable = True
return f
def is_internal_attribute(obj, attr):
"""Test if the attribute given is an internal python attribute. For
example this function returns `True` for the `func_code` attribute of
python objects. This is useful if the environment method
:meth:`~SandboxedEnvironment.is_safe_attribute` is overriden.
>>> from jinja2.sandbox import is_internal_attribute
>>> is_internal_attribute(lambda: None, "func_code")
True
>>> is_internal_attribute((lambda x:x).func_code, 'co_code')
True
>>> is_internal_attribute(str, "upper")
False
"""
if isinstance(obj, FunctionType):
if attr in UNSAFE_FUNCTION_ATTRIBUTES:
return True
elif isinstance(obj, MethodType):
if attr in UNSAFE_FUNCTION_ATTRIBUTES or \
attr in UNSAFE_METHOD_ATTRIBUTES:
return True
elif isinstance(obj, type):
if attr == 'mro':
return True
elif isinstance(obj, (CodeType, TracebackType, FrameType)):
return True
elif isinstance(obj, GeneratorType):
if attr == 'gi_frame':
return True
return attr.startswith('__')
def modifies_known_mutable(obj, attr):
"""This function checks if an attribute on a builtin mutable object
(list, dict, set or deque) would modify it if called. It also supports
the "user"-versions of the objects (`sets.Set`, `UserDict.*` etc.) and
with Python 2.6 onwards the abstract base classes `MutableSet`,
`MutableMapping`, and `MutableSequence`.
>>> modifies_known_mutable({}, "clear")
True
>>> modifies_known_mutable({}, "keys")
False
>>> modifies_known_mutable([], "append")
True
>>> modifies_known_mutable([], "index")
False
If called with an unsupported object (such as unicode) `False` is
returned.
>>> modifies_known_mutable("foo", "upper")
False
"""
for typespec, unsafe in _mutable_spec:
if isinstance(obj, typespec):
return attr in unsafe
return False
class SandboxedEnvironment(Environment):
"""The sandboxed environment. It works like the regular environment but
tells the compiler to generate sandboxed code. Additionally subclasses of
this environment may override the methods that tell the runtime what
attributes or functions are safe to access.
If the template tries to access insecure code a :exc:`SecurityError` is
raised. However also other exceptions may occour during the rendering so
the caller has to ensure that all exceptions are catched.
"""
sandboxed = True
def __init__(self, *args, **kwargs):
Environment.__init__(self, *args, **kwargs)
self.globals['range'] = safe_range
def is_safe_attribute(self, obj, attr, value):
"""The sandboxed environment will call this method to check if the
attribute of an object is safe to access. Per default all attributes
starting with an underscore are considered private as well as the
special attributes of internal python objects as returned by the
:func:`is_internal_attribute` function.
"""
return not (attr.startswith('_') or is_internal_attribute(obj, attr))
def is_safe_callable(self, obj):
"""Check if an object is safely callable. Per default a function is
considered safe unless the `unsafe_callable` attribute exists and is
True. Override this method to alter the behavior, but this won't
affect the `unsafe` decorator from this module.
"""
return not (getattr(obj, 'unsafe_callable', False) or \
getattr(obj, 'alters_data', False))
def getitem(self, obj, argument):
"""Subscribe an object from sandboxed code."""
try:
return obj[argument]
except (TypeError, LookupError):
if isinstance(argument, basestring):
try:
attr = str(argument)
except:
pass
else:
try:
value = getattr(obj, attr)
except AttributeError:
pass
else:
if self.is_safe_attribute(obj, argument, value):
return value
return self.unsafe_undefined(obj, argument)
return self.undefined(obj=obj, name=argument)
def getattr(self, obj, attribute):
"""Subscribe an object from sandboxed code and prefer the
attribute. The attribute passed *must* be a bytestring.
"""
try:
value = getattr(obj, attribute)
except AttributeError:
try:
return obj[attribute]
except (TypeError, LookupError):
pass
else:
if self.is_safe_attribute(obj, attribute, value):
return value
return self.unsafe_undefined(obj, attribute)
return self.undefined(obj=obj, name=attribute)
def unsafe_undefined(self, obj, attribute):
"""Return an undefined object for unsafe attributes."""
return self.undefined('access to attribute %r of %r '
'object is unsafe.' % (
attribute,
obj.__class__.__name__
), name=attribute, obj=obj, exc=SecurityError)
def call(__self, __context, __obj, *args, **kwargs):
"""Call an object from sandboxed code."""
# the double prefixes are to avoid double keyword argument
# errors when proxying the call.
if not __self.is_safe_callable(__obj):
raise SecurityError('%r is not safely callable' % (__obj,))
return __context.call(__obj, *args, **kwargs)
class ImmutableSandboxedEnvironment(SandboxedEnvironment):
"""Works exactly like the regular `SandboxedEnvironment` but does not
permit modifications on the builtin mutable objects `list`, `set`, and
`dict` by using the :func:`modifies_known_mutable` function.
"""
def is_safe_attribute(self, obj, attr, value):
if not SandboxedEnvironment.is_safe_attribute(self, obj, attr, value):
return False
return not modifies_known_mutable(obj, attr)
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"import operator",
"from jinja2.runtime import Undefined",
"fr... |
# -*- coding: utf-8 -*-
"""
jinja2.meta
~~~~~~~~~~~
This module implements various functions that exposes information about
templates that might be interesting for various kinds of applications.
:copyright: (c) 2010 by the Jinja Team, see AUTHORS for more details.
:license: BSD, see LICENSE for more details.
"""
from jinja2 import nodes
from jinja2.compiler import CodeGenerator
class TrackingCodeGenerator(CodeGenerator):
"""We abuse the code generator for introspection."""
def __init__(self, environment):
CodeGenerator.__init__(self, environment, '<introspection>',
'<introspection>')
self.undeclared_identifiers = set()
def write(self, x):
"""Don't write."""
def pull_locals(self, frame):
"""Remember all undeclared identifiers."""
self.undeclared_identifiers.update(frame.identifiers.undeclared)
def find_undeclared_variables(ast):
"""Returns a set of all variables in the AST that will be looked up from
the context at runtime. Because at compile time it's not known which
variables will be used depending on the path the execution takes at
runtime, all variables are returned.
>>> from jinja2 import Environment, meta
>>> env = Environment()
>>> ast = env.parse('{% set foo = 42 %}{{ bar + foo }}')
>>> meta.find_undeclared_variables(ast)
set(['bar'])
.. admonition:: Implementation
Internally the code generator is used for finding undeclared variables.
This is good to know because the code generator might raise a
:exc:`TemplateAssertionError` during compilation and as a matter of
fact this function can currently raise that exception as well.
"""
codegen = TrackingCodeGenerator(ast.environment)
codegen.visit(ast)
return codegen.undeclared_identifiers
def find_referenced_templates(ast):
"""Finds all the referenced templates from the AST. This will return an
iterator over all the hardcoded template extensions, inclusions and
imports. If dynamic inheritance or inclusion is used, `None` will be
yielded.
>>> from jinja2 import Environment, meta
>>> env = Environment()
>>> ast = env.parse('{% extends "layout.html" %}{% include helper %}')
>>> list(meta.find_referenced_templates(ast))
['layout.html', None]
This function is useful for dependency tracking. For example if you want
to rebuild parts of the website after a layout template has changed.
"""
for node in ast.find_all((nodes.Extends, nodes.FromImport, nodes.Import,
nodes.Include)):
if not isinstance(node.template, nodes.Const):
# a tuple with some non consts in there
if isinstance(node.template, (nodes.Tuple, nodes.List)):
for template_name in node.template.items:
# something const, only yield the strings and ignore
# non-string consts that really just make no sense
if isinstance(template_name, nodes.Const):
if isinstance(template_name.value, basestring):
yield template_name.value
# something dynamic in there
else:
yield None
# something dynamic we don't know about here
else:
yield None
continue
# constant is a basestring, direct template name
if isinstance(node.template.value, basestring):
yield node.template.value
# a tuple or list (latter *should* not happen) made of consts,
# yield the consts that are strings. We could warn here for
# non string values
elif isinstance(node, nodes.Include) and \
isinstance(node.template.value, (tuple, list)):
for template_name in node.template.value:
if isinstance(template_name, basestring):
yield template_name
# something else we don't care about, we could warn here
else:
yield None
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"\"\"\"\n jinja2.meta\n ~~~~~~~~~~~\n\n This module implements various functions that exposes information about\n templates that might be interesting for various kinds of applications.\n\n :copyright: (c) 2010 by the Jinja Team, see AUTHORS for more details.",
"from jinja2 import nodes",
"from ji... |
# -*- coding: utf-8 -*-
"""
jinja2.defaults
~~~~~~~~~~~~~~~
Jinja default filters and tags.
:copyright: (c) 2010 by the Jinja Team.
:license: BSD, see LICENSE for more details.
"""
from jinja2.utils import generate_lorem_ipsum, Cycler, Joiner
from gettext import gettext as _ ##ADDD
# defaults for the parser / lexer
BLOCK_START_STRING = '{%'
BLOCK_END_STRING = '%}'
VARIABLE_START_STRING = '{{'
VARIABLE_END_STRING = '}}'
COMMENT_START_STRING = '{#'
COMMENT_END_STRING = '#}'
LINE_STATEMENT_PREFIX = None
LINE_COMMENT_PREFIX = None
TRIM_BLOCKS = False
NEWLINE_SEQUENCE = '\n'
# default filters, tests and namespace
from jinja2.filters import FILTERS as DEFAULT_FILTERS
from jinja2.tests import TESTS as DEFAULT_TESTS
DEFAULT_NAMESPACE = {
'range': xrange,
'dict': lambda **kw: kw,
'lipsum': generate_lorem_ipsum,
'cycler': Cycler,
'joiner': Joiner,
'_' : _ ##ADDD
}
# export all constants
__all__ = tuple(x for x in locals().keys() if x.isupper())
| [
[
8,
0,
0.1463,
0.2195,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.2683,
0.0244,
0,
0.66,
0.0625,
677,
0,
3,
0,
0,
677,
0,
0
],
[
1,
0,
0.2927,
0.0244,
0,
0.66... | [
"\"\"\"\n jinja2.defaults\n ~~~~~~~~~~~~~~~\n\n Jinja default filters and tags.\n\n :copyright: (c) 2010 by the Jinja Team.\n :license: BSD, see LICENSE for more details.",
"from jinja2.utils import generate_lorem_ipsum, Cycler, Joiner",
"from gettext import gettext as _ ##ADDD",
"BLOCK_START_S... |
# -*- coding: utf-8 -*-
"""
jinja2._stringdefs
~~~~~~~~~~~~~~~~~~
Strings of all Unicode characters of a certain category.
Used for matching in Unicode-aware languages. Run to regenerate.
Inspired by chartypes_create.py from the MoinMoin project, original
implementation from Pygments.
:copyright: Copyright 2006-2009 by the Jinja team, see AUTHORS.
:license: BSD, see LICENSE for details.
"""
Cc = u'\x00\x01\x02\x03\x04\x05\x06\x07\x08\t\n\x0b\x0c\r\x0e\x0f\x10\x11\x12\x13\x14\x15\x16\x17\x18\x19\x1a\x1b\x1c\x1d\x1e\x1f\x7f\x80\x81\x82\x83\x84\x85\x86\x87\x88\x89\x8a\x8b\x8c\x8d\x8e\x8f\x90\x91\x92\x93\x94\x95\x96\x97\x98\x99\x9a\x9b\x9c\x9d\x9e\x9f'
Cf = u'\xad\u0600\u0601\u0602\u0603\u06dd\u070f\u17b4\u17b5\u200b\u200c\u200d\u200e\u200f\u202a\u202b\u202c\u202d\u202e\u2060\u2061\u2062\u2063\u206a\u206b\u206c\u206d\u206e\u206f\ufeff\ufff9\ufffa\ufffb'
Cn = 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d4\uabd5\uabd6\uabd7\uabd8\uabd9\uabda\uabdb\uabdc\uabdd\uabde\uabdf\uabe0\uabe1\uabe2\uabe3\uabe4\uabe5\uabe6\uabe7\uabe8\uabe9\uabea\uabeb\uabec\uabed\uabee\uabef\uabf0\uabf1\uabf2\uabf3\uabf4\uabf5\uabf6\uabf7\uabf8\uabf9\uabfa\uabfb\uabfc\uabfd\uabfe\uabff\ud7a4\ud7a5\ud7a6\ud7a7\ud7a8\ud7a9\ud7aa\ud7ab\ud7ac\ud7ad\ud7ae\ud7af\ud7b0\ud7b1\ud7b2\ud7b3\ud7b4\ud7b5\ud7b6\ud7b7\ud7b8\ud7b9\ud7ba\ud7bb\ud7bc\ud7bd\ud7be\ud7bf\ud7c0\ud7c1\ud7c2\ud7c3\ud7c4\ud7c5\ud7c6\ud7c7\ud7c8\ud7c9\ud7ca\ud7cb\ud7cc\ud7cd\ud7ce\ud7cf\ud7d0\ud7d1\ud7d2\ud7d3\ud7d4\ud7d5\ud7d6\ud7d7\ud7d8\ud7d9\ud7da\ud7db\ud7dc\ud7dd\ud7de\ud7df\ud7e0\ud7e1\ud7e2\ud7e3\ud7e4\ud7e5\ud7e6\ud7e7\ud7e8\ud7e9\ud7ea\ud7eb\ud7ec\ud7ed\ud7ee\ud7ef\ud7f0\ud7f1\ud7f2\ud7f3\ud7f4\ud7f5\ud7f6\ud7f7\ud7f8\ud7f9\ud7fa\ud7fb\ud7fc\ud7fd\ud7fe\ud7ff\ufa2e\ufa2f\ufa6b\ufa6c\ufa6d\ufa6e\ufa6f\ufada\ufadb\ufadc\ufadd\ufade\ufadf\ufae0\ufae1\ufae2\ufae3\ufae4\ufae5\ufae6\ufae7\ufae8\ufae9\ufaea\ufaeb\ufaec\ufaed\ufaee\ufaef\ufaf0\ufaf1\ufaf2\ufaf3\ufaf4\ufaf5\ufaf6\ufaf7\ufaf8\ufaf9\ufafa\ufafb\ufafc\ufafd\ufafe\ufaff\ufb07\ufb08\ufb09\ufb0a\ufb0b\ufb0c\ufb0d\ufb0e\ufb0f\ufb10\ufb11\ufb12\ufb18\ufb19\ufb1a\ufb1b\ufb1c\ufb37\ufb3d\ufb3f\ufb42\ufb45\ufbb2\ufbb3\ufbb4\ufbb5\ufbb6\ufbb7\ufbb8\ufbb9\ufbba\ufbbb\ufbbc\ufbbd\ufbbe\ufbbf\ufbc0\ufbc1\ufbc2\ufbc3\ufbc4\ufbc5\ufbc6\ufbc7\ufbc8\ufbc9\ufbca\ufbcb\ufbcc\ufbcd\ufbce\ufbcf\ufbd0\ufbd1\ufbd2\ufd40\ufd41\ufd42\ufd43\ufd44\ufd45\ufd46\ufd47\ufd48\ufd49\ufd4a\ufd4b\ufd4c\ufd4d\ufd4e\ufd4f\ufd90\ufd91\ufdc8\ufdc9\ufdca\ufdcb\ufdcc\ufdcd\ufdce\ufdcf\ufdd0\ufdd1\ufdd2\ufdd3\ufdd4\ufdd5\ufdd6\ufdd7\ufdd8\ufdd9\ufdda\ufddb\ufddc\ufddd\ufdde\ufddf\ufde0\ufde1\ufde2\ufde3\ufde4\ufde5\ufde6\ufde7\ufde8\ufde9\ufdea\ufdeb\ufdec\ufded\ufdee\ufdef\ufdfe\ufdff\ufe1a\ufe1b\ufe1c\ufe1d\ufe1e\ufe1f\ufe24\ufe25\ufe26\ufe27\ufe28\ufe29\ufe2a\ufe2b\ufe2c\ufe2d\ufe2e\ufe2f\ufe53\ufe67\ufe6c\ufe6d\ufe6e\ufe6f\ufe75\ufefd\ufefe\uff00\uffbf\uffc0\uffc1\uffc8\uffc9\uffd0\uffd1\uffd8\uffd9\uffdd\uffde\uffdf\uffe7\uffef\ufff0\ufff1\ufff2\ufff3\ufff4\ufff5\ufff6\ufff7\ufff8\ufffe'
Co = 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try:
Cs = eval(r"'\ud800\ud801\ud802\ud803\ud804\ud805\ud806\ud807\ud808\ud809\ud80a\ud80b\ud80c\ud80d\ud80e\ud80f\ud810\ud811\ud812\ud813\ud814\ud815\ud816\ud817\ud818\ud819\ud81a\ud81b\ud81c\ud81d\ud81e\ud81f\ud820\ud821\ud822\ud823\ud824\ud825\ud826\ud827\ud828\ud829\ud82a\ud82b\ud82c\ud82d\ud82e\ud82f\ud830\ud831\ud832\ud833\ud834\ud835\ud836\ud837\ud838\ud839\ud83a\ud83b\ud83c\ud83d\ud83e\ud83f\ud840\ud841\ud842\ud843\ud844\ud845\ud846\ud847\ud848\ud849\ud84a\ud84b\ud84c\ud84d\ud84e\ud84f\ud850\ud851\ud852\ud853\ud854\ud855\ud856\ud857\ud858\ud859\ud85a\ud85b\ud85c\ud85d\ud85e\ud85f\ud860\ud861\ud862\ud863\ud864\ud865\ud866\ud867\ud868\ud869\ud86a\ud86b\ud86c\ud86d\ud86e\ud86f\ud870\ud871\ud872\ud873\ud874\ud875\ud876\ud877\ud878\ud879\ud87a\ud87b\ud87c\ud87d\ud87e\ud87f\ud880\ud881\ud882\ud883\ud884\ud885\ud886\ud887\ud888\ud889\ud88a\ud88b\ud88c\ud88d\ud88e\ud88f\ud890\ud891\ud892\ud893\ud894\ud895\ud896\ud897\ud898\ud899\ud89a\ud89b\ud89c\ud89d\ud89e\ud89f\ud8a0\ud8a1\ud8a2\ud8a3\ud8a4\ud8a5\ud8a6\ud8a7\ud8a8\ud8a9\ud8aa\ud8ab\ud8ac\ud8ad\ud8ae\ud8af\ud8b0\ud8b1\ud8b2\ud8b3\ud8b4\ud8b5\ud8b6\ud8b7\ud8b8\ud8b9\ud8ba\ud8bb\ud8bc\ud8bd\ud8be\ud8bf\ud8c0\ud8c1\ud8c2\ud8c3\ud8c4\ud8c5\ud8c6\ud8c7\ud8c8\ud8c9\ud8ca\ud8cb\ud8cc\ud8cd\ud8ce\ud8cf\ud8d0\ud8d1\ud8d2\ud8d3\ud8d4\ud8d5\ud8d6\ud8d7\ud8d8\ud8d9\ud8da\ud8db\ud8dc\ud8dd\ud8de\ud8df\ud8e0\ud8e1\ud8e2\ud8e3\ud8e4\ud8e5\ud8e6\ud8e7\ud8e8\ud8e9\ud8ea\ud8eb\ud8ec\ud8ed\ud8ee\ud8ef\ud8f0\ud8f1\ud8f2\ud8f3\ud8f4\ud8f5\ud8f6\ud8f7\ud8f8\ud8f9\ud8fa\ud8fb\ud8fc\ud8fd\ud8fe\ud8ff\ud900\ud901\ud902\ud903\ud904\ud905\ud906\ud907\ud908\ud909\ud90a\ud90b\ud90c\ud90d\ud90e\ud90f\ud910\ud911\ud912\ud913\ud914\ud915\ud916\ud917\ud918\ud919\ud91a\ud91b\ud91c\ud91d\ud91e\ud91f\ud920\ud921\ud922\ud923\ud924\ud925\ud926\ud927\ud928\ud929\ud92a\ud92b\ud92c\ud92d\ud92e\ud92f\ud930\ud931\ud932\ud933\ud934\ud935\ud936\ud937\ud938\ud939\ud93a\ud93b\ud93c\ud93d\ud93e\ud93f\ud940\ud941\ud942\ud943\ud944\ud945\ud946\ud947\ud948\ud949\ud94a\ud94b\ud94c\ud94d\ud94e\ud94f\ud950\ud951\ud952\ud953\ud954\ud955\ud956\ud957\ud958\ud959\ud95a\ud95b\ud95c\ud95d\ud95e\ud95f\ud960\ud961\ud962\ud963\ud964\ud965\ud966\ud967\ud968\ud969\ud96a\ud96b\ud96c\ud96d\ud96e\ud96f\ud970\ud971\ud972\ud973\ud974\ud975\ud976\ud977\ud978\ud979\ud97a\ud97b\ud97c\ud97d\ud97e\ud97f\ud980\ud981\ud982\ud983\ud984\ud985\ud986\ud987\ud988\ud989\ud98a\ud98b\ud98c\ud98d\ud98e\ud98f\ud990\ud991\ud992\ud993\ud994\ud995\ud996\ud997\ud998\ud999\ud99a\ud99b\ud99c\ud99d\ud99e\ud99f\ud9a0\ud9a1\ud9a2\ud9a3\ud9a4\ud9a5\ud9a6\ud9a7\ud9a8\ud9a9\ud9aa\ud9ab\ud9ac\ud9ad\ud9ae\ud9af\ud9b0\ud9b1\ud9b2\ud9b3\ud9b4\ud9b5\ud9b6\ud9b7\ud9b8\ud9b9\ud9ba\ud9bb\ud9bc\ud9bd\ud9be\ud9bf\ud9c0\ud9c1\ud9c2\ud9c3\ud9c4\ud9c5\ud9c6\ud9c7\ud9c8\ud9c9\ud9ca\ud9cb\ud9cc\ud9cd\ud9ce\ud9cf\ud9d0\ud9d1\ud9d2\ud9d3\ud9d4\ud9d5\ud9d6\ud9d7\ud9d8\ud9d9\ud9da\ud9db\ud9dc\ud9dd\ud9de\ud9df\ud9e0\ud9e1\ud9e2\ud9e3\ud9e4\ud9e5\ud9e6\ud9e7\ud9e8\ud9e9\ud9ea\ud9eb\ud9ec\ud9ed\ud9ee\ud9ef\ud9f0\ud9f1\ud9f2\ud9f3\ud9f4\ud9f5\ud9f6\ud9f7\ud9f8\ud9f9\ud9fa\ud9fb\ud9fc\ud9fd\ud9fe\ud9ff\uda00\uda01\uda02\uda03\uda04\uda05\uda06\uda07\uda08\uda09\uda0a\uda0b\uda0c\uda0d\uda0e\uda0f\uda10\uda11\uda12\uda13\uda14\uda15\uda16\uda17\uda18\uda19\uda1a\uda1b\uda1c\uda1d\uda1e\uda1f\uda20\uda21\uda22\uda23\uda24\uda25\uda26\uda27\uda28\uda29\uda2a\uda2b\uda2c\uda2d\uda2e\uda2f\uda30\uda31\uda32\uda33\uda34\uda35\uda36\uda37\uda38\uda39\uda3a\uda3b\uda3c\uda3d\uda3e\uda3f\uda40\uda41\uda42\uda43\uda44\uda45\uda46\uda47\uda48\uda49\uda4a\uda4b\uda4c\uda4d\uda4e\uda4f\uda50\uda51\uda52\uda53\uda54\uda55\uda56\uda57\uda58\uda59\uda5a\uda5b\uda5c\uda5d\uda5e\uda5f\uda60\uda61\uda62\uda63\uda64\uda65\uda66\uda67\uda68\uda69\uda6a\uda6b\uda6c\uda6d\uda6e\uda6f\uda70\uda71\uda72\uda73\uda74\uda75\uda76\uda77\uda78\uda79\uda7a\uda7b\uda7c\uda7d\uda7e\uda7f\uda80\uda81\uda82\uda83\uda84\uda85\uda86\uda87\uda88\uda89\uda8a\uda8b\uda8c\uda8d\uda8e\uda8f\uda90\uda91\uda92\uda93\uda94\uda95\uda96\uda97\uda98\uda99\uda9a\uda9b\uda9c\uda9d\uda9e\uda9f\udaa0\udaa1\udaa2\udaa3\udaa4\udaa5\udaa6\udaa7\udaa8\udaa9\udaaa\udaab\udaac\udaad\udaae\udaaf\udab0\udab1\udab2\udab3\udab4\udab5\udab6\udab7\udab8\udab9\udaba\udabb\udabc\udabd\udabe\udabf\udac0\udac1\udac2\udac3\udac4\udac5\udac6\udac7\udac8\udac9\udaca\udacb\udacc\udacd\udace\udacf\udad0\udad1\udad2\udad3\udad4\udad5\udad6\udad7\udad8\udad9\udada\udadb\udadc\udadd\udade\udadf\udae0\udae1\udae2\udae3\udae4\udae5\udae6\udae7\udae8\udae9\udaea\udaeb\udaec\udaed\udaee\udaef\udaf0\udaf1\udaf2\udaf3\udaf4\udaf5\udaf6\udaf7\udaf8\udaf9\udafa\udafb\udafc\udafd\udafe\udaff\udb00\udb01\udb02\udb03\udb04\udb05\udb06\udb07\udb08\udb09\udb0a\udb0b\udb0c\udb0d\udb0e\udb0f\udb10\udb11\udb12\udb13\udb14\udb15\udb16\udb17\udb18\udb19\udb1a\udb1b\udb1c\udb1d\udb1e\udb1f\udb20\udb21\udb22\udb23\udb24\udb25\udb26\udb27\udb28\udb29\udb2a\udb2b\udb2c\udb2d\udb2e\udb2f\udb30\udb31\udb32\udb33\udb34\udb35\udb36\udb37\udb38\udb39\udb3a\udb3b\udb3c\udb3d\udb3e\udb3f\udb40\udb41\udb42\udb43\udb44\udb45\udb46\udb47\udb48\udb49\udb4a\udb4b\udb4c\udb4d\udb4e\udb4f\udb50\udb51\udb52\udb53\udb54\udb55\udb56\udb57\udb58\udb59\udb5a\udb5b\udb5c\udb5d\udb5e\udb5f\udb60\udb61\udb62\udb63\udb64\udb65\udb66\udb67\udb68\udb69\udb6a\udb6b\udb6c\udb6d\udb6e\udb6f\udb70\udb71\udb72\udb73\udb74\udb75\udb76\udb77\udb78\udb79\udb7a\udb7b\udb7c\udb7d\udb7e\udb7f\udb80\udb81\udb82\udb83\udb84\udb85\udb86\udb87\udb88\udb89\udb8a\udb8b\udb8c\udb8d\udb8e\udb8f\udb90\udb91\udb92\udb93\udb94\udb95\udb96\udb97\udb98\udb99\udb9a\udb9b\udb9c\udb9d\udb9e\udb9f\udba0\udba1\udba2\udba3\udba4\udba5\udba6\udba7\udba8\udba9\udbaa\udbab\udbac\udbad\udbae\udbaf\udbb0\udbb1\udbb2\udbb3\udbb4\udbb5\udbb6\udbb7\udbb8\udbb9\udbba\udbbb\udbbc\udbbd\udbbe\udbbf\udbc0\udbc1\udbc2\udbc3\udbc4\udbc5\udbc6\udbc7\udbc8\udbc9\udbca\udbcb\udbcc\udbcd\udbce\udbcf\udbd0\udbd1\udbd2\udbd3\udbd4\udbd5\udbd6\udbd7\udbd8\udbd9\udbda\udbdb\udbdc\udbdd\udbde\udbdf\udbe0\udbe1\udbe2\udbe3\udbe4\udbe5\udbe6\udbe7\udbe8\udbe9\udbea\udbeb\udbec\udbed\udbee\udbef\udbf0\udbf1\udbf2\udbf3\udbf4\udbf5\udbf6\udbf7\udbf8\udbf9\udbfa\udbfb\udbfc\udbfd\udbfe\U0010fc00\udc01\udc02\udc03\udc04\udc05\udc06\udc07\udc08\udc09\udc0a\udc0b\udc0c\udc0d\udc0e\udc0f\udc10\udc11\udc12\udc13\udc14\udc15\udc16\udc17\udc18\udc19\udc1a\udc1b\udc1c\udc1d\udc1e\udc1f\udc20\udc21\udc22\udc23\udc24\udc25\udc26\udc27\udc28\udc29\udc2a\udc2b\udc2c\udc2d\udc2e\udc2f\udc30\udc31\udc32\udc33\udc34\udc35\udc36\udc37\udc38\udc39\udc3a\udc3b\udc3c\udc3d\udc3e\udc3f\udc40\udc41\udc42\udc43\udc44\udc45\udc46\udc47\udc48\udc49\udc4a\udc4b\udc4c\udc4d\udc4e\udc4f\udc50\udc51\udc52\udc53\udc54\udc55\udc56\udc57\udc58\udc59\udc5a\udc5b\udc5c\udc5d\udc5e\udc5f\udc60\udc61\udc62\udc63\udc64\udc65\udc66\udc67\udc68\udc69\udc6a\udc6b\udc6c\udc6d\udc6e\udc6f\udc70\udc71\udc72\udc73\udc74\udc75\udc76\udc77\udc78\udc79\udc7a\udc7b\udc7c\udc7d\udc7e\udc7f\udc80\udc81\udc82\udc83\udc84\udc85\udc86\udc87\udc88\udc89\udc8a\udc8b\udc8c\udc8d\udc8e\udc8f\udc90\udc91\udc92\udc93\udc94\udc95\udc96\udc97\udc98\udc99\udc9a\udc9b\udc9c\udc9d\udc9e\udc9f\udca0\udca1\udca2\udca3\udca4\udca5\udca6\udca7\udca8\udca9\udcaa\udcab\udcac\udcad\udcae\udcaf\udcb0\udcb1\udcb2\udcb3\udcb4\udcb5\udcb6\udcb7\udcb8\udcb9\udcba\udcbb\udcbc\udcbd\udcbe\udcbf\udcc0\udcc1\udcc2\udcc3\udcc4\udcc5\udcc6\udcc7\udcc8\udcc9\udcca\udccb\udccc\udccd\udcce\udccf\udcd0\udcd1\udcd2\udcd3\udcd4\udcd5\udcd6\udcd7\udcd8\udcd9\udcda\udcdb\udcdc\udcdd\udcde\udcdf\udce0\udce1\udce2\udce3\udce4\udce5\udce6\udce7\udce8\udce9\udcea\udceb\udcec\udced\udcee\udcef\udcf0\udcf1\udcf2\udcf3\udcf4\udcf5\udcf6\udcf7\udcf8\udcf9\udcfa\udcfb\udcfc\udcfd\udcfe\udcff\udd00\udd01\udd02\udd03\udd04\udd05\udd06\udd07\udd08\udd09\udd0a\udd0b\udd0c\udd0d\udd0e\udd0f\udd10\udd11\udd12\udd13\udd14\udd15\udd16\udd17\udd18\udd19\udd1a\udd1b\udd1c\udd1d\udd1e\udd1f\udd20\udd21\udd22\udd23\udd24\udd25\udd26\udd27\udd28\udd29\udd2a\udd2b\udd2c\udd2d\udd2e\udd2f\udd30\udd31\udd32\udd33\udd34\udd35\udd36\udd37\udd38\udd39\udd3a\udd3b\udd3c\udd3d\udd3e\udd3f\udd40\udd41\udd42\udd43\udd44\udd45\udd46\udd47\udd48\udd49\udd4a\udd4b\udd4c\udd4d\udd4e\udd4f\udd50\udd51\udd52\udd53\udd54\udd55\udd56\udd57\udd58\udd59\udd5a\udd5b\udd5c\udd5d\udd5e\udd5f\udd60\udd61\udd62\udd63\udd64\udd65\udd66\udd67\udd68\udd69\udd6a\udd6b\udd6c\udd6d\udd6e\udd6f\udd70\udd71\udd72\udd73\udd74\udd75\udd76\udd77\udd78\udd79\udd7a\udd7b\udd7c\udd7d\udd7e\udd7f\udd80\udd81\udd82\udd83\udd84\udd85\udd86\udd87\udd88\udd89\udd8a\udd8b\udd8c\udd8d\udd8e\udd8f\udd90\udd91\udd92\udd93\udd94\udd95\udd96\udd97\udd98\udd99\udd9a\udd9b\udd9c\udd9d\udd9e\udd9f\udda0\udda1\udda2\udda3\udda4\udda5\udda6\udda7\udda8\udda9\uddaa\uddab\uddac\uddad\uddae\uddaf\uddb0\uddb1\uddb2\uddb3\uddb4\uddb5\uddb6\uddb7\uddb8\uddb9\uddba\uddbb\uddbc\uddbd\uddbe\uddbf\uddc0\uddc1\uddc2\uddc3\uddc4\uddc5\uddc6\uddc7\uddc8\uddc9\uddca\uddcb\uddcc\uddcd\uddce\uddcf\uddd0\uddd1\uddd2\uddd3\uddd4\uddd5\uddd6\uddd7\uddd8\uddd9\uddda\udddb\udddc\udddd\uddde\udddf\udde0\udde1\udde2\udde3\udde4\udde5\udde6\udde7\udde8\udde9\uddea\uddeb\uddec\udded\uddee\uddef\uddf0\uddf1\uddf2\uddf3\uddf4\uddf5\uddf6\uddf7\uddf8\uddf9\uddfa\uddfb\uddfc\uddfd\uddfe\uddff\ude00\ude01\ude02\ude03\ude04\ude05\ude06\ude07\ude08\ude09\ude0a\ude0b\ude0c\ude0d\ude0e\ude0f\ude10\ude11\ude12\ude13\ude14\ude15\ude16\ude17\ude18\ude19\ude1a\ude1b\ude1c\ude1d\ude1e\ude1f\ude20\ude21\ude22\ude23\ude24\ude25\ude26\ude27\ude28\ude29\ude2a\ude2b\ude2c\ude2d\ude2e\ude2f\ude30\ude31\ude32\ude33\ude34\ude35\ude36\ude37\ude38\ude39\ude3a\ude3b\ude3c\ude3d\ude3e\ude3f\ude40\ude41\ude42\ude43\ude44\ude45\ude46\ude47\ude48\ude49\ude4a\ude4b\ude4c\ude4d\ude4e\ude4f\ude50\ude51\ude52\ude53\ude54\ude55\ude56\ude57\ude58\ude59\ude5a\ude5b\ude5c\ude5d\ude5e\ude5f\ude60\ude61\ude62\ude63\ude64\ude65\ude66\ude67\ude68\ude69\ude6a\ude6b\ude6c\ude6d\ude6e\ude6f\ude70\ude71\ude72\ude73\ude74\ude75\ude76\ude77\ude78\ude79\ude7a\ude7b\ude7c\ude7d\ude7e\ude7f\ude80\ude81\ude82\ude83\ude84\ude85\ude86\ude87\ude88\ude89\ude8a\ude8b\ude8c\ude8d\ude8e\ude8f\ude90\ude91\ude92\ude93\ude94\ude95\ude96\ude97\ude98\ude99\ude9a\ude9b\ude9c\ude9d\ude9e\ude9f\udea0\udea1\udea2\udea3\udea4\udea5\udea6\udea7\udea8\udea9\udeaa\udeab\udeac\udead\udeae\udeaf\udeb0\udeb1\udeb2\udeb3\udeb4\udeb5\udeb6\udeb7\udeb8\udeb9\udeba\udebb\udebc\udebd\udebe\udebf\udec0\udec1\udec2\udec3\udec4\udec5\udec6\udec7\udec8\udec9\udeca\udecb\udecc\udecd\udece\udecf\uded0\uded1\uded2\uded3\uded4\uded5\uded6\uded7\uded8\uded9\udeda\udedb\udedc\udedd\udede\udedf\udee0\udee1\udee2\udee3\udee4\udee5\udee6\udee7\udee8\udee9\udeea\udeeb\udeec\udeed\udeee\udeef\udef0\udef1\udef2\udef3\udef4\udef5\udef6\udef7\udef8\udef9\udefa\udefb\udefc\udefd\udefe\udeff\udf00\udf01\udf02\udf03\udf04\udf05\udf06\udf07\udf08\udf09\udf0a\udf0b\udf0c\udf0d\udf0e\udf0f\udf10\udf11\udf12\udf13\udf14\udf15\udf16\udf17\udf18\udf19\udf1a\udf1b\udf1c\udf1d\udf1e\udf1f\udf20\udf21\udf22\udf23\udf24\udf25\udf26\udf27\udf28\udf29\udf2a\udf2b\udf2c\udf2d\udf2e\udf2f\udf30\udf31\udf32\udf33\udf34\udf35\udf36\udf37\udf38\udf39\udf3a\udf3b\udf3c\udf3d\udf3e\udf3f\udf40\udf41\udf42\udf43\udf44\udf45\udf46\udf47\udf48\udf49\udf4a\udf4b\udf4c\udf4d\udf4e\udf4f\udf50\udf51\udf52\udf53\udf54\udf55\udf56\udf57\udf58\udf59\udf5a\udf5b\udf5c\udf5d\udf5e\udf5f\udf60\udf61\udf62\udf63\udf64\udf65\udf66\udf67\udf68\udf69\udf6a\udf6b\udf6c\udf6d\udf6e\udf6f\udf70\udf71\udf72\udf73\udf74\udf75\udf76\udf77\udf78\udf79\udf7a\udf7b\udf7c\udf7d\udf7e\udf7f\udf80\udf81\udf82\udf83\udf84\udf85\udf86\udf87\udf88\udf89\udf8a\udf8b\udf8c\udf8d\udf8e\udf8f\udf90\udf91\udf92\udf93\udf94\udf95\udf96\udf97\udf98\udf99\udf9a\udf9b\udf9c\udf9d\udf9e\udf9f\udfa0\udfa1\udfa2\udfa3\udfa4\udfa5\udfa6\udfa7\udfa8\udfa9\udfaa\udfab\udfac\udfad\udfae\udfaf\udfb0\udfb1\udfb2\udfb3\udfb4\udfb5\udfb6\udfb7\udfb8\udfb9\udfba\udfbb\udfbc\udfbd\udfbe\udfbf\udfc0\udfc1\udfc2\udfc3\udfc4\udfc5\udfc6\udfc7\udfc8\udfc9\udfca\udfcb\udfcc\udfcd\udfce\udfcf\udfd0\udfd1\udfd2\udfd3\udfd4\udfd5\udfd6\udfd7\udfd8\udfd9\udfda\udfdb\udfdc\udfdd\udfde\udfdf\udfe0\udfe1\udfe2\udfe3\udfe4\udfe5\udfe6\udfe7\udfe8\udfe9\udfea\udfeb\udfec\udfed\udfee\udfef\udff0\udff1\udff2\udff3\udff4\udff5\udff6\udff7\udff8\udff9\udffa\udffb\udffc\udffd\udffe\udfff'")
except UnicodeDecodeError:
Cs = '' # Jython can't handle isolated surrogates
Ll = u'abcdefghijklmnopqrstuvwxyz\xaa\xb5\xba\xdf\xe0\xe1\xe2\xe3\xe4\xe5\xe6\xe7\xe8\xe9\xea\xeb\xec\xed\xee\xef\xf0\xf1\xf2\xf3\xf4\xf5\xf6\xf8\xf9\xfa\xfb\xfc\xfd\xfe\xff\u0101\u0103\u0105\u0107\u0109\u010b\u010d\u010f\u0111\u0113\u0115\u0117\u0119\u011b\u011d\u011f\u0121\u0123\u0125\u0127\u0129\u012b\u012d\u012f\u0131\u0133\u0135\u0137\u0138\u013a\u013c\u013e\u0140\u0142\u0144\u0146\u0148\u0149\u014b\u014d\u014f\u0151\u0153\u0155\u0157\u0159\u015b\u015d\u015f\u0161\u0163\u0165\u0167\u0169\u016b\u016d\u016f\u0171\u0173\u0175\u0177\u017a\u017c\u017e\u017f\u0180\u0183\u0185\u0188\u018c\u018d\u0192\u0195\u0199\u019a\u019b\u019e\u01a1\u01a3\u01a5\u01a8\u01aa\u01ab\u01ad\u01b0\u01b4\u01b6\u01b9\u01ba\u01bd\u01be\u01bf\u01c6\u01c9\u01cc\u01ce\u01d0\u01d2\u01d4\u01d6\u01d8\u01da\u01dc\u01dd\u01df\u01e1\u01e3\u01e5\u01e7\u01e9\u01eb\u01ed\u01ef\u01f0\u01f3\u01f5\u01f9\u01fb\u01fd\u01ff\u0201\u0203\u0205\u0207\u0209\u020b\u020d\u020f\u0211\u0213\u0215\u0217\u0219\u021b\u021d\u021f\u0221\u0223\u0225\u0227\u0229\u022b\u022d\u022f\u0231\u0233\u0234\u0235\u0236\u0237\u0238\u0239\u023c\u023f\u0240\u0250\u0251\u0252\u0253\u0254\u0255\u0256\u0257\u0258\u0259\u025a\u025b\u025c\u025d\u025e\u025f\u0260\u0261\u0262\u0263\u0264\u0265\u0266\u0267\u0268\u0269\u026a\u026b\u026c\u026d\u026e\u026f\u0270\u0271\u0272\u0273\u0274\u0275\u0276\u0277\u0278\u0279\u027a\u027b\u027c\u027d\u027e\u027f\u0280\u0281\u0282\u0283\u0284\u0285\u0286\u0287\u0288\u0289\u028a\u028b\u028c\u028d\u028e\u028f\u0290\u0291\u0292\u0293\u0294\u0295\u0296\u0297\u0298\u0299\u029a\u029b\u029c\u029d\u029e\u029f\u02a0\u02a1\u02a2\u02a3\u02a4\u02a5\u02a6\u02a7\u02a8\u02a9\u02aa\u02ab\u02ac\u02ad\u02ae\u02af\u0390\u03ac\u03ad\u03ae\u03af\u03b0\u03b1\u03b2\u03b3\u03b4\u03b5\u03b6\u03b7\u03b8\u03b9\u03ba\u03bb\u03bc\u03bd\u03be\u03bf\u03c0\u03c1\u03c2\u03c3\u03c4\u03c5\u03c6\u03c7\u03c8\u03c9\u03ca\u03cb\u03cc\u03cd\u03ce\u03d0\u03d1\u03d5\u03d6\u03d7\u03d9\u03db\u03dd\u03df\u03e1\u03e3\u03e5\u03e7\u03e9\u03eb\u03ed\u03ef\u03f0\u03f1\u03f2\u03f3\u03f5\u03f8\u03fb\u03fc\u0430\u0431\u0432\u0433\u0434\u0435\u0436\u0437\u0438\u0439\u043a\u043b\u043c\u043d\u043e\u043f\u0440\u0441\u0442\u0443\u0444\u0445\u0446\u0447\u0448\u0449\u044a\u044b\u044c\u044d\u044e\u044f\u0450\u0451\u0452\u0453\u0454\u0455\u0456\u0457\u0458\u0459\u045a\u045b\u045c\u045d\u045e\u045f\u0461\u0463\u0465\u0467\u0469\u046b\u046d\u046f\u0471\u0473\u0475\u0477\u0479\u047b\u047d\u047f\u0481\u048b\u048d\u048f\u0491\u0493\u0495\u0497\u0499\u049b\u049d\u049f\u04a1\u04a3\u04a5\u04a7\u04a9\u04ab\u04ad\u04af\u04b1\u04b3\u04b5\u04b7\u04b9\u04bb\u04bd\u04bf\u04c2\u04c4\u04c6\u04c8\u04ca\u04cc\u04ce\u04d1\u04d3\u04d5\u04d7\u04d9\u04db\u04dd\u04df\u04e1\u04e3\u04e5\u04e7\u04e9\u04eb\u04ed\u04ef\u04f1\u04f3\u04f5\u04f7\u04f9\u0501\u0503\u0505\u0507\u0509\u050b\u050d\u050f\u0561\u0562\u0563\u0564\u0565\u0566\u0567\u0568\u0569\u056a\u056b\u056c\u056d\u056e\u056f\u0570\u0571\u0572\u0573\u0574\u0575\u0576\u0577\u0578\u0579\u057a\u057b\u057c\u057d\u057e\u057f\u0580\u0581\u0582\u0583\u0584\u0585\u0586\u0587\u1d00\u1d01\u1d02\u1d03\u1d04\u1d05\u1d06\u1d07\u1d08\u1d09\u1d0a\u1d0b\u1d0c\u1d0d\u1d0e\u1d0f\u1d10\u1d11\u1d12\u1d13\u1d14\u1d15\u1d16\u1d17\u1d18\u1d19\u1d1a\u1d1b\u1d1c\u1d1d\u1d1e\u1d1f\u1d20\u1d21\u1d22\u1d23\u1d24\u1d25\u1d26\u1d27\u1d28\u1d29\u1d2a\u1d2b\u1d62\u1d63\u1d64\u1d65\u1d66\u1d67\u1d68\u1d69\u1d6a\u1d6b\u1d6c\u1d6d\u1d6e\u1d6f\u1d70\u1d71\u1d72\u1d73\u1d74\u1d75\u1d76\u1d77\u1d79\u1d7a\u1d7b\u1d7c\u1d7d\u1d7e\u1d7f\u1d80\u1d81\u1d82\u1d83\u1d84\u1d85\u1d86\u1d87\u1d88\u1d89\u1d8a\u1d8b\u1d8c\u1d8d\u1d8e\u1d8f\u1d90\u1d91\u1d92\u1d93\u1d94\u1d95\u1d96\u1d97\u1d98\u1d99\u1d9a\u1e01\u1e03\u1e05\u1e07\u1e09\u1e0b\u1e0d\u1e0f\u1e11\u1e13\u1e15\u1e17\u1e19\u1e1b\u1e1d\u1e1f\u1e21\u1e23\u1e25\u1e27\u1e29\u1e2b\u1e2d\u1e2f\u1e31\u1e33\u1e35\u1e37\u1e39\u1e3b\u1e3d\u1e3f\u1e41\u1e43\u1e45\u1e47\u1e49\u1e4b\u1e4d\u1e4f\u1e51\u1e53\u1e55\u1e57\u1e59\u1e5b\u1e5d\u1e5f\u1e61\u1e63\u1e65\u1e67\u1e69\u1e6b\u1e6d\u1e6f\u1e71\u1e73\u1e75\u1e77\u1e79\u1e7b\u1e7d\u1e7f\u1e81\u1e83\u1e85\u1e87\u1e89\u1e8b\u1e8d\u1e8f\u1e91\u1e93\u1e95\u1e96\u1e97\u1e98\u1e99\u1e9a\u1e9b\u1ea1\u1ea3\u1ea5\u1ea7\u1ea9\u1eab\u1ead\u1eaf\u1eb1\u1eb3\u1eb5\u1eb7\u1eb9\u1ebb\u1ebd\u1ebf\u1ec1\u1ec3\u1ec5\u1ec7\u1ec9\u1ecb\u1ecd\u1ecf\u1ed1\u1ed3\u1ed5\u1ed7\u1ed9\u1edb\u1edd\u1edf\u1ee1\u1ee3\u1ee5\u1ee7\u1ee9\u1eeb\u1eed\u1eef\u1ef1\u1ef3\u1ef5\u1ef7\u1ef9\u1f00\u1f01\u1f02\u1f03\u1f04\u1f05\u1f06\u1f07\u1f10\u1f11\u1f12\u1f13\u1f14\u1f15\u1f20\u1f21\u1f22\u1f23\u1f24\u1f25\u1f26\u1f27\u1f30\u1f31\u1f32\u1f33\u1f34\u1f35\u1f36\u1f37\u1f40\u1f41\u1f42\u1f43\u1f44\u1f45\u1f50\u1f51\u1f52\u1f53\u1f54\u1f55\u1f56\u1f57\u1f60\u1f61\u1f62\u1f63\u1f64\u1f65\u1f66\u1f67\u1f70\u1f71\u1f72\u1f73\u1f74\u1f75\u1f76\u1f77\u1f78\u1f79\u1f7a\u1f7b\u1f7c\u1f7d\u1f80\u1f81\u1f82\u1f83\u1f84\u1f85\u1f86\u1f87\u1f90\u1f91\u1f92\u1f93\u1f94\u1f95\u1f96\u1f97\u1fa0\u1fa1\u1fa2\u1fa3\u1fa4\u1fa5\u1fa6\u1fa7\u1fb0\u1fb1\u1fb2\u1fb3\u1fb4\u1fb6\u1fb7\u1fbe\u1fc2\u1fc3\u1fc4\u1fc6\u1fc7\u1fd0\u1fd1\u1fd2\u1fd3\u1fd6\u1fd7\u1fe0\u1fe1\u1fe2\u1fe3\u1fe4\u1fe5\u1fe6\u1fe7\u1ff2\u1ff3\u1ff4\u1ff6\u1ff7\u2071\u207f\u210a\u210e\u210f\u2113\u212f\u2134\u2139\u213c\u213d\u2146\u2147\u2148\u2149\u2c30\u2c31\u2c32\u2c33\u2c34\u2c35\u2c36\u2c37\u2c38\u2c39\u2c3a\u2c3b\u2c3c\u2c3d\u2c3e\u2c3f\u2c40\u2c41\u2c42\u2c43\u2c44\u2c45\u2c46\u2c47\u2c48\u2c49\u2c4a\u2c4b\u2c4c\u2c4d\u2c4e\u2c4f\u2c50\u2c51\u2c52\u2c53\u2c54\u2c55\u2c56\u2c57\u2c58\u2c59\u2c5a\u2c5b\u2c5c\u2c5d\u2c5e\u2c81\u2c83\u2c85\u2c87\u2c89\u2c8b\u2c8d\u2c8f\u2c91\u2c93\u2c95\u2c97\u2c99\u2c9b\u2c9d\u2c9f\u2ca1\u2ca3\u2ca5\u2ca7\u2ca9\u2cab\u2cad\u2caf\u2cb1\u2cb3\u2cb5\u2cb7\u2cb9\u2cbb\u2cbd\u2cbf\u2cc1\u2cc3\u2cc5\u2cc7\u2cc9\u2ccb\u2ccd\u2ccf\u2cd1\u2cd3\u2cd5\u2cd7\u2cd9\u2cdb\u2cdd\u2cdf\u2ce1\u2ce3\u2ce4\u2d00\u2d01\u2d02\u2d03\u2d04\u2d05\u2d06\u2d07\u2d08\u2d09\u2d0a\u2d0b\u2d0c\u2d0d\u2d0e\u2d0f\u2d10\u2d11\u2d12\u2d13\u2d14\u2d15\u2d16\u2d17\u2d18\u2d19\u2d1a\u2d1b\u2d1c\u2d1d\u2d1e\u2d1f\u2d20\u2d21\u2d22\u2d23\u2d24\u2d25\ufb00\ufb01\ufb02\ufb03\ufb04\ufb05\ufb06\ufb13\ufb14\ufb15\ufb16\ufb17\uff41\uff42\uff43\uff44\uff45\uff46\uff47\uff48\uff49\uff4a\uff4b\uff4c\uff4d\uff4e\uff4f\uff50\uff51\uff52\uff53\uff54\uff55\uff56\uff57\uff58\uff59\uff5a'
Lm = u'\u02b0\u02b1\u02b2\u02b3\u02b4\u02b5\u02b6\u02b7\u02b8\u02b9\u02ba\u02bb\u02bc\u02bd\u02be\u02bf\u02c0\u02c1\u02c6\u02c7\u02c8\u02c9\u02ca\u02cb\u02cc\u02cd\u02ce\u02cf\u02d0\u02d1\u02e0\u02e1\u02e2\u02e3\u02e4\u02ee\u037a\u0559\u0640\u06e5\u06e6\u0e46\u0ec6\u10fc\u17d7\u1843\u1d2c\u1d2d\u1d2e\u1d2f\u1d30\u1d31\u1d32\u1d33\u1d34\u1d35\u1d36\u1d37\u1d38\u1d39\u1d3a\u1d3b\u1d3c\u1d3d\u1d3e\u1d3f\u1d40\u1d41\u1d42\u1d43\u1d44\u1d45\u1d46\u1d47\u1d48\u1d49\u1d4a\u1d4b\u1d4c\u1d4d\u1d4e\u1d4f\u1d50\u1d51\u1d52\u1d53\u1d54\u1d55\u1d56\u1d57\u1d58\u1d59\u1d5a\u1d5b\u1d5c\u1d5d\u1d5e\u1d5f\u1d60\u1d61\u1d78\u1d9b\u1d9c\u1d9d\u1d9e\u1d9f\u1da0\u1da1\u1da2\u1da3\u1da4\u1da5\u1da6\u1da7\u1da8\u1da9\u1daa\u1dab\u1dac\u1dad\u1dae\u1daf\u1db0\u1db1\u1db2\u1db3\u1db4\u1db5\u1db6\u1db7\u1db8\u1db9\u1dba\u1dbb\u1dbc\u1dbd\u1dbe\u1dbf\u2090\u2091\u2092\u2093\u2094\u2d6f\u3005\u3031\u3032\u3033\u3034\u3035\u303b\u309d\u309e\u30fc\u30fd\u30fe\ua015\uff70\uff9e\uff9f'
Lo = 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fd56\ufd57\ufd58\ufd59\ufd5a\ufd5b\ufd5c\ufd5d\ufd5e\ufd5f\ufd60\ufd61\ufd62\ufd63\ufd64\ufd65\ufd66\ufd67\ufd68\ufd69\ufd6a\ufd6b\ufd6c\ufd6d\ufd6e\ufd6f\ufd70\ufd71\ufd72\ufd73\ufd74\ufd75\ufd76\ufd77\ufd78\ufd79\ufd7a\ufd7b\ufd7c\ufd7d\ufd7e\ufd7f\ufd80\ufd81\ufd82\ufd83\ufd84\ufd85\ufd86\ufd87\ufd88\ufd89\ufd8a\ufd8b\ufd8c\ufd8d\ufd8e\ufd8f\ufd92\ufd93\ufd94\ufd95\ufd96\ufd97\ufd98\ufd99\ufd9a\ufd9b\ufd9c\ufd9d\ufd9e\ufd9f\ufda0\ufda1\ufda2\ufda3\ufda4\ufda5\ufda6\ufda7\ufda8\ufda9\ufdaa\ufdab\ufdac\ufdad\ufdae\ufdaf\ufdb0\ufdb1\ufdb2\ufdb3\ufdb4\ufdb5\ufdb6\ufdb7\ufdb8\ufdb9\ufdba\ufdbb\ufdbc\ufdbd\ufdbe\ufdbf\ufdc0\ufdc1\ufdc2\ufdc3\ufdc4\ufdc5\ufdc6\ufdc7\ufdf0\ufdf1\ufdf2\ufdf3\ufdf4\ufdf5\ufdf6\ufdf7\ufdf8\ufdf9\ufdfa\ufdfb\ufe70\ufe71\ufe72\ufe73\ufe74\ufe76\ufe77\ufe78\ufe79\ufe7a\ufe7b\ufe7c\ufe7d\ufe7e\ufe7f\ufe80\ufe81\ufe82\ufe83\ufe84\ufe85\ufe86\ufe87\ufe88\ufe89\ufe8a\ufe8b\ufe8c\ufe8d\ufe8e\ufe8f\ufe90\ufe91\ufe92\ufe93\ufe94\ufe95\ufe96\ufe97\ufe98\ufe99\ufe9a\ufe9b\ufe9c\ufe9d\ufe9e\ufe9f\ufea0\ufea1\ufea2\ufea3\ufea4\ufea5\ufea6\ufea7\ufea8\ufea9\ufeaa\ufeab\ufeac\ufead\ufeae\ufeaf\ufeb0\ufeb1\ufeb2\ufeb3\ufeb4\ufeb5\ufeb6\ufeb7\ufeb8\ufeb9\ufeba\ufebb\ufebc\ufebd\ufebe\ufebf\ufec0\ufec1\ufec2\ufec3\ufec4\ufec5\ufec6\ufec7\ufec8\ufec9\ufeca\ufecb\ufecc\ufecd\ufece\ufecf\ufed0\ufed1\ufed2\ufed3\ufed4\ufed5\ufed6\ufed7\ufed8\ufed9\ufeda\ufedb\ufedc\ufedd\ufede\ufedf\ufee0\ufee1\ufee2\ufee3\ufee4\ufee5\ufee6\ufee7\ufee8\ufee9\ufeea\ufeeb\ufeec\ufeed\ufeee\ufeef\ufef0\ufef1\ufef2\ufef3\ufef4\ufef5\ufef6\ufef7\ufef8\ufef9\ufefa\ufefb\ufefc\uff66\uff67\uff68\uff69\uff6a\uff6b\uff6c\uff6d\uff6e\uff6f\uff71\uff72\uff73\uff74\uff75\uff76\uff77\uff78\uff79\uff7a\uff7b\uff7c\uff7d\uff7e\uff7f\uff80\uff81\uff82\uff83\uff84\uff85\uff86\uff87\uff88\uff89\uff8a\uff8b\uff8c\uff8d\uff8e\uff8f\uff90\uff91\uff92\uff93\uff94\uff95\uff96\uff97\uff98\uff99\uff9a\uff9b\uff9c\uff9d\uffa0\uffa1\uffa2\uffa3\uffa4\uffa5\uffa6\uffa7\uffa8\uffa9\uffaa\uffab\uffac\uffad\uffae\uffaf\uffb0\uffb1\uffb2\uffb3\uffb4\uffb5\uffb6\uffb7\uffb8\uffb9\uffba\uffbb\uffbc\uffbd\uffbe\uffc2\uffc3\uffc4\uffc5\uffc6\uffc7\uffca\uffcb\uffcc\uffcd\uffce\uffcf\uffd2\uffd3\uffd4\uffd5\uffd6\uffd7\uffda\uffdb\uffdc'
Lt = u'\u01c5\u01c8\u01cb\u01f2\u1f88\u1f89\u1f8a\u1f8b\u1f8c\u1f8d\u1f8e\u1f8f\u1f98\u1f99\u1f9a\u1f9b\u1f9c\u1f9d\u1f9e\u1f9f\u1fa8\u1fa9\u1faa\u1fab\u1fac\u1fad\u1fae\u1faf\u1fbc\u1fcc\u1ffc'
Lu = u'ABCDEFGHIJKLMNOPQRSTUVWXYZ\xc0\xc1\xc2\xc3\xc4\xc5\xc6\xc7\xc8\xc9\xca\xcb\xcc\xcd\xce\xcf\xd0\xd1\xd2\xd3\xd4\xd5\xd6\xd8\xd9\xda\xdb\xdc\xdd\xde\u0100\u0102\u0104\u0106\u0108\u010a\u010c\u010e\u0110\u0112\u0114\u0116\u0118\u011a\u011c\u011e\u0120\u0122\u0124\u0126\u0128\u012a\u012c\u012e\u0130\u0132\u0134\u0136\u0139\u013b\u013d\u013f\u0141\u0143\u0145\u0147\u014a\u014c\u014e\u0150\u0152\u0154\u0156\u0158\u015a\u015c\u015e\u0160\u0162\u0164\u0166\u0168\u016a\u016c\u016e\u0170\u0172\u0174\u0176\u0178\u0179\u017b\u017d\u0181\u0182\u0184\u0186\u0187\u0189\u018a\u018b\u018e\u018f\u0190\u0191\u0193\u0194\u0196\u0197\u0198\u019c\u019d\u019f\u01a0\u01a2\u01a4\u01a6\u01a7\u01a9\u01ac\u01ae\u01af\u01b1\u01b2\u01b3\u01b5\u01b7\u01b8\u01bc\u01c4\u01c7\u01ca\u01cd\u01cf\u01d1\u01d3\u01d5\u01d7\u01d9\u01db\u01de\u01e0\u01e2\u01e4\u01e6\u01e8\u01ea\u01ec\u01ee\u01f1\u01f4\u01f6\u01f7\u01f8\u01fa\u01fc\u01fe\u0200\u0202\u0204\u0206\u0208\u020a\u020c\u020e\u0210\u0212\u0214\u0216\u0218\u021a\u021c\u021e\u0220\u0222\u0224\u0226\u0228\u022a\u022c\u022e\u0230\u0232\u023a\u023b\u023d\u023e\u0241\u0386\u0388\u0389\u038a\u038c\u038e\u038f\u0391\u0392\u0393\u0394\u0395\u0396\u0397\u0398\u0399\u039a\u039b\u039c\u039d\u039e\u039f\u03a0\u03a1\u03a3\u03a4\u03a5\u03a6\u03a7\u03a8\u03a9\u03aa\u03ab\u03d2\u03d3\u03d4\u03d8\u03da\u03dc\u03de\u03e0\u03e2\u03e4\u03e6\u03e8\u03ea\u03ec\u03ee\u03f4\u03f7\u03f9\u03fa\u03fd\u03fe\u03ff\u0400\u0401\u0402\u0403\u0404\u0405\u0406\u0407\u0408\u0409\u040a\u040b\u040c\u040d\u040e\u040f\u0410\u0411\u0412\u0413\u0414\u0415\u0416\u0417\u0418\u0419\u041a\u041b\u041c\u041d\u041e\u041f\u0420\u0421\u0422\u0423\u0424\u0425\u0426\u0427\u0428\u0429\u042a\u042b\u042c\u042d\u042e\u042f\u0460\u0462\u0464\u0466\u0468\u046a\u046c\u046e\u0470\u0472\u0474\u0476\u0478\u047a\u047c\u047e\u0480\u048a\u048c\u048e\u0490\u0492\u0494\u0496\u0498\u049a\u049c\u049e\u04a0\u04a2\u04a4\u04a6\u04a8\u04aa\u04ac\u04ae\u04b0\u04b2\u04b4\u04b6\u04b8\u04ba\u04bc\u04be\u04c0\u04c1\u04c3\u04c5\u04c7\u04c9\u04cb\u04cd\u04d0\u04d2\u04d4\u04d6\u04d8\u04da\u04dc\u04de\u04e0\u04e2\u04e4\u04e6\u04e8\u04ea\u04ec\u04ee\u04f0\u04f2\u04f4\u04f6\u04f8\u0500\u0502\u0504\u0506\u0508\u050a\u050c\u050e\u0531\u0532\u0533\u0534\u0535\u0536\u0537\u0538\u0539\u053a\u053b\u053c\u053d\u053e\u053f\u0540\u0541\u0542\u0543\u0544\u0545\u0546\u0547\u0548\u0549\u054a\u054b\u054c\u054d\u054e\u054f\u0550\u0551\u0552\u0553\u0554\u0555\u0556\u10a0\u10a1\u10a2\u10a3\u10a4\u10a5\u10a6\u10a7\u10a8\u10a9\u10aa\u10ab\u10ac\u10ad\u10ae\u10af\u10b0\u10b1\u10b2\u10b3\u10b4\u10b5\u10b6\u10b7\u10b8\u10b9\u10ba\u10bb\u10bc\u10bd\u10be\u10bf\u10c0\u10c1\u10c2\u10c3\u10c4\u10c5\u1e00\u1e02\u1e04\u1e06\u1e08\u1e0a\u1e0c\u1e0e\u1e10\u1e12\u1e14\u1e16\u1e18\u1e1a\u1e1c\u1e1e\u1e20\u1e22\u1e24\u1e26\u1e28\u1e2a\u1e2c\u1e2e\u1e30\u1e32\u1e34\u1e36\u1e38\u1e3a\u1e3c\u1e3e\u1e40\u1e42\u1e44\u1e46\u1e48\u1e4a\u1e4c\u1e4e\u1e50\u1e52\u1e54\u1e56\u1e58\u1e5a\u1e5c\u1e5e\u1e60\u1e62\u1e64\u1e66\u1e68\u1e6a\u1e6c\u1e6e\u1e70\u1e72\u1e74\u1e76\u1e78\u1e7a\u1e7c\u1e7e\u1e80\u1e82\u1e84\u1e86\u1e88\u1e8a\u1e8c\u1e8e\u1e90\u1e92\u1e94\u1ea0\u1ea2\u1ea4\u1ea6\u1ea8\u1eaa\u1eac\u1eae\u1eb0\u1eb2\u1eb4\u1eb6\u1eb8\u1eba\u1ebc\u1ebe\u1ec0\u1ec2\u1ec4\u1ec6\u1ec8\u1eca\u1ecc\u1ece\u1ed0\u1ed2\u1ed4\u1ed6\u1ed8\u1eda\u1edc\u1ede\u1ee0\u1ee2\u1ee4\u1ee6\u1ee8\u1eea\u1eec\u1eee\u1ef0\u1ef2\u1ef4\u1ef6\u1ef8\u1f08\u1f09\u1f0a\u1f0b\u1f0c\u1f0d\u1f0e\u1f0f\u1f18\u1f19\u1f1a\u1f1b\u1f1c\u1f1d\u1f28\u1f29\u1f2a\u1f2b\u1f2c\u1f2d\u1f2e\u1f2f\u1f38\u1f39\u1f3a\u1f3b\u1f3c\u1f3d\u1f3e\u1f3f\u1f48\u1f49\u1f4a\u1f4b\u1f4c\u1f4d\u1f59\u1f5b\u1f5d\u1f5f\u1f68\u1f69\u1f6a\u1f6b\u1f6c\u1f6d\u1f6e\u1f6f\u1fb8\u1fb9\u1fba\u1fbb\u1fc8\u1fc9\u1fca\u1fcb\u1fd8\u1fd9\u1fda\u1fdb\u1fe8\u1fe9\u1fea\u1feb\u1fec\u1ff8\u1ff9\u1ffa\u1ffb\u2102\u2107\u210b\u210c\u210d\u2110\u2111\u2112\u2115\u2119\u211a\u211b\u211c\u211d\u2124\u2126\u2128\u212a\u212b\u212c\u212d\u2130\u2131\u2133\u213e\u213f\u2145\u2c00\u2c01\u2c02\u2c03\u2c04\u2c05\u2c06\u2c07\u2c08\u2c09\u2c0a\u2c0b\u2c0c\u2c0d\u2c0e\u2c0f\u2c10\u2c11\u2c12\u2c13\u2c14\u2c15\u2c16\u2c17\u2c18\u2c19\u2c1a\u2c1b\u2c1c\u2c1d\u2c1e\u2c1f\u2c20\u2c21\u2c22\u2c23\u2c24\u2c25\u2c26\u2c27\u2c28\u2c29\u2c2a\u2c2b\u2c2c\u2c2d\u2c2e\u2c80\u2c82\u2c84\u2c86\u2c88\u2c8a\u2c8c\u2c8e\u2c90\u2c92\u2c94\u2c96\u2c98\u2c9a\u2c9c\u2c9e\u2ca0\u2ca2\u2ca4\u2ca6\u2ca8\u2caa\u2cac\u2cae\u2cb0\u2cb2\u2cb4\u2cb6\u2cb8\u2cba\u2cbc\u2cbe\u2cc0\u2cc2\u2cc4\u2cc6\u2cc8\u2cca\u2ccc\u2cce\u2cd0\u2cd2\u2cd4\u2cd6\u2cd8\u2cda\u2cdc\u2cde\u2ce0\u2ce2\uff21\uff22\uff23\uff24\uff25\uff26\uff27\uff28\uff29\uff2a\uff2b\uff2c\uff2d\uff2e\uff2f\uff30\uff31\uff32\uff33\uff34\uff35\uff36\uff37\uff38\uff39\uff3a'
Mc = u'\u0903\u093e\u093f\u0940\u0949\u094a\u094b\u094c\u0982\u0983\u09be\u09bf\u09c0\u09c7\u09c8\u09cb\u09cc\u09d7\u0a03\u0a3e\u0a3f\u0a40\u0a83\u0abe\u0abf\u0ac0\u0ac9\u0acb\u0acc\u0b02\u0b03\u0b3e\u0b40\u0b47\u0b48\u0b4b\u0b4c\u0b57\u0bbe\u0bbf\u0bc1\u0bc2\u0bc6\u0bc7\u0bc8\u0bca\u0bcb\u0bcc\u0bd7\u0c01\u0c02\u0c03\u0c41\u0c42\u0c43\u0c44\u0c82\u0c83\u0cbe\u0cc0\u0cc1\u0cc2\u0cc3\u0cc4\u0cc7\u0cc8\u0cca\u0ccb\u0cd5\u0cd6\u0d02\u0d03\u0d3e\u0d3f\u0d40\u0d46\u0d47\u0d48\u0d4a\u0d4b\u0d4c\u0d57\u0d82\u0d83\u0dcf\u0dd0\u0dd1\u0dd8\u0dd9\u0dda\u0ddb\u0ddc\u0ddd\u0dde\u0ddf\u0df2\u0df3\u0f3e\u0f3f\u0f7f\u102c\u1031\u1038\u1056\u1057\u17b6\u17be\u17bf\u17c0\u17c1\u17c2\u17c3\u17c4\u17c5\u17c7\u17c8\u1923\u1924\u1925\u1926\u1929\u192a\u192b\u1930\u1931\u1933\u1934\u1935\u1936\u1937\u1938\u19b0\u19b1\u19b2\u19b3\u19b4\u19b5\u19b6\u19b7\u19b8\u19b9\u19ba\u19bb\u19bc\u19bd\u19be\u19bf\u19c0\u19c8\u19c9\u1a19\u1a1a\u1a1b\ua802\ua823\ua824\ua827'
Me = u'\u0488\u0489\u06de\u20dd\u20de\u20df\u20e0\u20e2\u20e3\u20e4'
Mn = u'\u0300\u0301\u0302\u0303\u0304\u0305\u0306\u0307\u0308\u0309\u030a\u030b\u030c\u030d\u030e\u030f\u0310\u0311\u0312\u0313\u0314\u0315\u0316\u0317\u0318\u0319\u031a\u031b\u031c\u031d\u031e\u031f\u0320\u0321\u0322\u0323\u0324\u0325\u0326\u0327\u0328\u0329\u032a\u032b\u032c\u032d\u032e\u032f\u0330\u0331\u0332\u0333\u0334\u0335\u0336\u0337\u0338\u0339\u033a\u033b\u033c\u033d\u033e\u033f\u0340\u0341\u0342\u0343\u0344\u0345\u0346\u0347\u0348\u0349\u034a\u034b\u034c\u034d\u034e\u034f\u0350\u0351\u0352\u0353\u0354\u0355\u0356\u0357\u0358\u0359\u035a\u035b\u035c\u035d\u035e\u035f\u0360\u0361\u0362\u0363\u0364\u0365\u0366\u0367\u0368\u0369\u036a\u036b\u036c\u036d\u036e\u036f\u0483\u0484\u0485\u0486\u0591\u0592\u0593\u0594\u0595\u0596\u0597\u0598\u0599\u059a\u059b\u059c\u059d\u059e\u059f\u05a0\u05a1\u05a2\u05a3\u05a4\u05a5\u05a6\u05a7\u05a8\u05a9\u05aa\u05ab\u05ac\u05ad\u05ae\u05af\u05b0\u05b1\u05b2\u05b3\u05b4\u05b5\u05b6\u05b7\u05b8\u05b9\u05bb\u05bc\u05bd\u05bf\u05c1\u05c2\u05c4\u05c5\u05c7\u0610\u0611\u0612\u0613\u0614\u0615\u064b\u064c\u064d\u064e\u064f\u0650\u0651\u0652\u0653\u0654\u0655\u0656\u0657\u0658\u0659\u065a\u065b\u065c\u065d\u065e\u0670\u06d6\u06d7\u06d8\u06d9\u06da\u06db\u06dc\u06df\u06e0\u06e1\u06e2\u06e3\u06e4\u06e7\u06e8\u06ea\u06eb\u06ec\u06ed\u0711\u0730\u0731\u0732\u0733\u0734\u0735\u0736\u0737\u0738\u0739\u073a\u073b\u073c\u073d\u073e\u073f\u0740\u0741\u0742\u0743\u0744\u0745\u0746\u0747\u0748\u0749\u074a\u07a6\u07a7\u07a8\u07a9\u07aa\u07ab\u07ac\u07ad\u07ae\u07af\u07b0\u0901\u0902\u093c\u0941\u0942\u0943\u0944\u0945\u0946\u0947\u0948\u094d\u0951\u0952\u0953\u0954\u0962\u0963\u0981\u09bc\u09c1\u09c2\u09c3\u09c4\u09cd\u09e2\u09e3\u0a01\u0a02\u0a3c\u0a41\u0a42\u0a47\u0a48\u0a4b\u0a4c\u0a4d\u0a70\u0a71\u0a81\u0a82\u0abc\u0ac1\u0ac2\u0ac3\u0ac4\u0ac5\u0ac7\u0ac8\u0acd\u0ae2\u0ae3\u0b01\u0b3c\u0b3f\u0b41\u0b42\u0b43\u0b4d\u0b56\u0b82\u0bc0\u0bcd\u0c3e\u0c3f\u0c40\u0c46\u0c47\u0c48\u0c4a\u0c4b\u0c4c\u0c4d\u0c55\u0c56\u0cbc\u0cbf\u0cc6\u0ccc\u0ccd\u0d41\u0d42\u0d43\u0d4d\u0dca\u0dd2\u0dd3\u0dd4\u0dd6\u0e31\u0e34\u0e35\u0e36\u0e37\u0e38\u0e39\u0e3a\u0e47\u0e48\u0e49\u0e4a\u0e4b\u0e4c\u0e4d\u0e4e\u0eb1\u0eb4\u0eb5\u0eb6\u0eb7\u0eb8\u0eb9\u0ebb\u0ebc\u0ec8\u0ec9\u0eca\u0ecb\u0ecc\u0ecd\u0f18\u0f19\u0f35\u0f37\u0f39\u0f71\u0f72\u0f73\u0f74\u0f75\u0f76\u0f77\u0f78\u0f79\u0f7a\u0f7b\u0f7c\u0f7d\u0f7e\u0f80\u0f81\u0f82\u0f83\u0f84\u0f86\u0f87\u0f90\u0f91\u0f92\u0f93\u0f94\u0f95\u0f96\u0f97\u0f99\u0f9a\u0f9b\u0f9c\u0f9d\u0f9e\u0f9f\u0fa0\u0fa1\u0fa2\u0fa3\u0fa4\u0fa5\u0fa6\u0fa7\u0fa8\u0fa9\u0faa\u0fab\u0fac\u0fad\u0fae\u0faf\u0fb0\u0fb1\u0fb2\u0fb3\u0fb4\u0fb5\u0fb6\u0fb7\u0fb8\u0fb9\u0fba\u0fbb\u0fbc\u0fc6\u102d\u102e\u102f\u1030\u1032\u1036\u1037\u1039\u1058\u1059\u135f\u1712\u1713\u1714\u1732\u1733\u1734\u1752\u1753\u1772\u1773\u17b7\u17b8\u17b9\u17ba\u17bb\u17bc\u17bd\u17c6\u17c9\u17ca\u17cb\u17cc\u17cd\u17ce\u17cf\u17d0\u17d1\u17d2\u17d3\u17dd\u180b\u180c\u180d\u18a9\u1920\u1921\u1922\u1927\u1928\u1932\u1939\u193a\u193b\u1a17\u1a18\u1dc0\u1dc1\u1dc2\u1dc3\u20d0\u20d1\u20d2\u20d3\u20d4\u20d5\u20d6\u20d7\u20d8\u20d9\u20da\u20db\u20dc\u20e1\u20e5\u20e6\u20e7\u20e8\u20e9\u20ea\u20eb\u302a\u302b\u302c\u302d\u302e\u302f\u3099\u309a\ua806\ua80b\ua825\ua826\ufb1e\ufe00\ufe01\ufe02\ufe03\ufe04\ufe05\ufe06\ufe07\ufe08\ufe09\ufe0a\ufe0b\ufe0c\ufe0d\ufe0e\ufe0f\ufe20\ufe21\ufe22\ufe23'
Nd = u'0123456789\u0660\u0661\u0662\u0663\u0664\u0665\u0666\u0667\u0668\u0669\u06f0\u06f1\u06f2\u06f3\u06f4\u06f5\u06f6\u06f7\u06f8\u06f9\u0966\u0967\u0968\u0969\u096a\u096b\u096c\u096d\u096e\u096f\u09e6\u09e7\u09e8\u09e9\u09ea\u09eb\u09ec\u09ed\u09ee\u09ef\u0a66\u0a67\u0a68\u0a69\u0a6a\u0a6b\u0a6c\u0a6d\u0a6e\u0a6f\u0ae6\u0ae7\u0ae8\u0ae9\u0aea\u0aeb\u0aec\u0aed\u0aee\u0aef\u0b66\u0b67\u0b68\u0b69\u0b6a\u0b6b\u0b6c\u0b6d\u0b6e\u0b6f\u0be6\u0be7\u0be8\u0be9\u0bea\u0beb\u0bec\u0bed\u0bee\u0bef\u0c66\u0c67\u0c68\u0c69\u0c6a\u0c6b\u0c6c\u0c6d\u0c6e\u0c6f\u0ce6\u0ce7\u0ce8\u0ce9\u0cea\u0ceb\u0cec\u0ced\u0cee\u0cef\u0d66\u0d67\u0d68\u0d69\u0d6a\u0d6b\u0d6c\u0d6d\u0d6e\u0d6f\u0e50\u0e51\u0e52\u0e53\u0e54\u0e55\u0e56\u0e57\u0e58\u0e59\u0ed0\u0ed1\u0ed2\u0ed3\u0ed4\u0ed5\u0ed6\u0ed7\u0ed8\u0ed9\u0f20\u0f21\u0f22\u0f23\u0f24\u0f25\u0f26\u0f27\u0f28\u0f29\u1040\u1041\u1042\u1043\u1044\u1045\u1046\u1047\u1048\u1049\u17e0\u17e1\u17e2\u17e3\u17e4\u17e5\u17e6\u17e7\u17e8\u17e9\u1810\u1811\u1812\u1813\u1814\u1815\u1816\u1817\u1818\u1819\u1946\u1947\u1948\u1949\u194a\u194b\u194c\u194d\u194e\u194f\u19d0\u19d1\u19d2\u19d3\u19d4\u19d5\u19d6\u19d7\u19d8\u19d9\uff10\uff11\uff12\uff13\uff14\uff15\uff16\uff17\uff18\uff19'
Nl = u'\u16ee\u16ef\u16f0\u2160\u2161\u2162\u2163\u2164\u2165\u2166\u2167\u2168\u2169\u216a\u216b\u216c\u216d\u216e\u216f\u2170\u2171\u2172\u2173\u2174\u2175\u2176\u2177\u2178\u2179\u217a\u217b\u217c\u217d\u217e\u217f\u2180\u2181\u2182\u2183\u3007\u3021\u3022\u3023\u3024\u3025\u3026\u3027\u3028\u3029\u3038\u3039\u303a'
No = u'\xb2\xb3\xb9\xbc\xbd\xbe\u09f4\u09f5\u09f6\u09f7\u09f8\u09f9\u0bf0\u0bf1\u0bf2\u0f2a\u0f2b\u0f2c\u0f2d\u0f2e\u0f2f\u0f30\u0f31\u0f32\u0f33\u1369\u136a\u136b\u136c\u136d\u136e\u136f\u1370\u1371\u1372\u1373\u1374\u1375\u1376\u1377\u1378\u1379\u137a\u137b\u137c\u17f0\u17f1\u17f2\u17f3\u17f4\u17f5\u17f6\u17f7\u17f8\u17f9\u2070\u2074\u2075\u2076\u2077\u2078\u2079\u2080\u2081\u2082\u2083\u2084\u2085\u2086\u2087\u2088\u2089\u2153\u2154\u2155\u2156\u2157\u2158\u2159\u215a\u215b\u215c\u215d\u215e\u215f\u2460\u2461\u2462\u2463\u2464\u2465\u2466\u2467\u2468\u2469\u246a\u246b\u246c\u246d\u246e\u246f\u2470\u2471\u2472\u2473\u2474\u2475\u2476\u2477\u2478\u2479\u247a\u247b\u247c\u247d\u247e\u247f\u2480\u2481\u2482\u2483\u2484\u2485\u2486\u2487\u2488\u2489\u248a\u248b\u248c\u248d\u248e\u248f\u2490\u2491\u2492\u2493\u2494\u2495\u2496\u2497\u2498\u2499\u249a\u249b\u24ea\u24eb\u24ec\u24ed\u24ee\u24ef\u24f0\u24f1\u24f2\u24f3\u24f4\u24f5\u24f6\u24f7\u24f8\u24f9\u24fa\u24fb\u24fc\u24fd\u24fe\u24ff\u2776\u2777\u2778\u2779\u277a\u277b\u277c\u277d\u277e\u277f\u2780\u2781\u2782\u2783\u2784\u2785\u2786\u2787\u2788\u2789\u278a\u278b\u278c\u278d\u278e\u278f\u2790\u2791\u2792\u2793\u2cfd\u3192\u3193\u3194\u3195\u3220\u3221\u3222\u3223\u3224\u3225\u3226\u3227\u3228\u3229\u3251\u3252\u3253\u3254\u3255\u3256\u3257\u3258\u3259\u325a\u325b\u325c\u325d\u325e\u325f\u3280\u3281\u3282\u3283\u3284\u3285\u3286\u3287\u3288\u3289\u32b1\u32b2\u32b3\u32b4\u32b5\u32b6\u32b7\u32b8\u32b9\u32ba\u32bb\u32bc\u32bd\u32be\u32bf'
Pc = u'_\u203f\u2040\u2054\ufe33\ufe34\ufe4d\ufe4e\ufe4f\uff3f'
Pd = u'-\u058a\u1806\u2010\u2011\u2012\u2013\u2014\u2015\u2e17\u301c\u3030\u30a0\ufe31\ufe32\ufe58\ufe63\uff0d'
Pe = u')]}\u0f3b\u0f3d\u169c\u2046\u207e\u208e\u232a\u23b5\u2769\u276b\u276d\u276f\u2771\u2773\u2775\u27c6\u27e7\u27e9\u27eb\u2984\u2986\u2988\u298a\u298c\u298e\u2990\u2992\u2994\u2996\u2998\u29d9\u29db\u29fd\u3009\u300b\u300d\u300f\u3011\u3015\u3017\u3019\u301b\u301e\u301f\ufd3f\ufe18\ufe36\ufe38\ufe3a\ufe3c\ufe3e\ufe40\ufe42\ufe44\ufe48\ufe5a\ufe5c\ufe5e\uff09\uff3d\uff5d\uff60\uff63'
Pf = u'\xbb\u2019\u201d\u203a\u2e03\u2e05\u2e0a\u2e0d\u2e1d'
Pi = u'\xab\u2018\u201b\u201c\u201f\u2039\u2e02\u2e04\u2e09\u2e0c\u2e1c'
Po = u'!"#%&\'*,./:;?@\\\xa1\xb7\xbf\u037e\u0387\u055a\u055b\u055c\u055d\u055e\u055f\u0589\u05be\u05c0\u05c3\u05c6\u05f3\u05f4\u060c\u060d\u061b\u061e\u061f\u066a\u066b\u066c\u066d\u06d4\u0700\u0701\u0702\u0703\u0704\u0705\u0706\u0707\u0708\u0709\u070a\u070b\u070c\u070d\u0964\u0965\u0970\u0df4\u0e4f\u0e5a\u0e5b\u0f04\u0f05\u0f06\u0f07\u0f08\u0f09\u0f0a\u0f0b\u0f0c\u0f0d\u0f0e\u0f0f\u0f10\u0f11\u0f12\u0f85\u0fd0\u0fd1\u104a\u104b\u104c\u104d\u104e\u104f\u10fb\u1361\u1362\u1363\u1364\u1365\u1366\u1367\u1368\u166d\u166e\u16eb\u16ec\u16ed\u1735\u1736\u17d4\u17d5\u17d6\u17d8\u17d9\u17da\u1800\u1801\u1802\u1803\u1804\u1805\u1807\u1808\u1809\u180a\u1944\u1945\u19de\u19df\u1a1e\u1a1f\u2016\u2017\u2020\u2021\u2022\u2023\u2024\u2025\u2026\u2027\u2030\u2031\u2032\u2033\u2034\u2035\u2036\u2037\u2038\u203b\u203c\u203d\u203e\u2041\u2042\u2043\u2047\u2048\u2049\u204a\u204b\u204c\u204d\u204e\u204f\u2050\u2051\u2053\u2055\u2056\u2057\u2058\u2059\u205a\u205b\u205c\u205d\u205e\u23b6\u2cf9\u2cfa\u2cfb\u2cfc\u2cfe\u2cff\u2e00\u2e01\u2e06\u2e07\u2e08\u2e0b\u2e0e\u2e0f\u2e10\u2e11\u2e12\u2e13\u2e14\u2e15\u2e16\u3001\u3002\u3003\u303d\u30fb\ufe10\ufe11\ufe12\ufe13\ufe14\ufe15\ufe16\ufe19\ufe30\ufe45\ufe46\ufe49\ufe4a\ufe4b\ufe4c\ufe50\ufe51\ufe52\ufe54\ufe55\ufe56\ufe57\ufe5f\ufe60\ufe61\ufe68\ufe6a\ufe6b\uff01\uff02\uff03\uff05\uff06\uff07\uff0a\uff0c\uff0e\uff0f\uff1a\uff1b\uff1f\uff20\uff3c\uff61\uff64\uff65'
Ps = u'([{\u0f3a\u0f3c\u169b\u201a\u201e\u2045\u207d\u208d\u2329\u23b4\u2768\u276a\u276c\u276e\u2770\u2772\u2774\u27c5\u27e6\u27e8\u27ea\u2983\u2985\u2987\u2989\u298b\u298d\u298f\u2991\u2993\u2995\u2997\u29d8\u29da\u29fc\u3008\u300a\u300c\u300e\u3010\u3014\u3016\u3018\u301a\u301d\ufd3e\ufe17\ufe35\ufe37\ufe39\ufe3b\ufe3d\ufe3f\ufe41\ufe43\ufe47\ufe59\ufe5b\ufe5d\uff08\uff3b\uff5b\uff5f\uff62'
Sc = u'$\xa2\xa3\xa4\xa5\u060b\u09f2\u09f3\u0af1\u0bf9\u0e3f\u17db\u20a0\u20a1\u20a2\u20a3\u20a4\u20a5\u20a6\u20a7\u20a8\u20a9\u20aa\u20ab\u20ac\u20ad\u20ae\u20af\u20b0\u20b1\u20b2\u20b3\u20b4\u20b5\ufdfc\ufe69\uff04\uffe0\uffe1\uffe5\uffe6'
Sk = u'^`\xa8\xaf\xb4\xb8\u02c2\u02c3\u02c4\u02c5\u02d2\u02d3\u02d4\u02d5\u02d6\u02d7\u02d8\u02d9\u02da\u02db\u02dc\u02dd\u02de\u02df\u02e5\u02e6\u02e7\u02e8\u02e9\u02ea\u02eb\u02ec\u02ed\u02ef\u02f0\u02f1\u02f2\u02f3\u02f4\u02f5\u02f6\u02f7\u02f8\u02f9\u02fa\u02fb\u02fc\u02fd\u02fe\u02ff\u0374\u0375\u0384\u0385\u1fbd\u1fbf\u1fc0\u1fc1\u1fcd\u1fce\u1fcf\u1fdd\u1fde\u1fdf\u1fed\u1fee\u1fef\u1ffd\u1ffe\u309b\u309c\ua700\ua701\ua702\ua703\ua704\ua705\ua706\ua707\ua708\ua709\ua70a\ua70b\ua70c\ua70d\ua70e\ua70f\ua710\ua711\ua712\ua713\ua714\ua715\ua716\uff3e\uff40\uffe3'
Sm = u'+<=>|~\xac\xb1\xd7\xf7\u03f6\u2044\u2052\u207a\u207b\u207c\u208a\u208b\u208c\u2140\u2141\u2142\u2143\u2144\u214b\u2190\u2191\u2192\u2193\u2194\u219a\u219b\u21a0\u21a3\u21a6\u21ae\u21ce\u21cf\u21d2\u21d4\u21f4\u21f5\u21f6\u21f7\u21f8\u21f9\u21fa\u21fb\u21fc\u21fd\u21fe\u21ff\u2200\u2201\u2202\u2203\u2204\u2205\u2206\u2207\u2208\u2209\u220a\u220b\u220c\u220d\u220e\u220f\u2210\u2211\u2212\u2213\u2214\u2215\u2216\u2217\u2218\u2219\u221a\u221b\u221c\u221d\u221e\u221f\u2220\u2221\u2222\u2223\u2224\u2225\u2226\u2227\u2228\u2229\u222a\u222b\u222c\u222d\u222e\u222f\u2230\u2231\u2232\u2233\u2234\u2235\u2236\u2237\u2238\u2239\u223a\u223b\u223c\u223d\u223e\u223f\u2240\u2241\u2242\u2243\u2244\u2245\u2246\u2247\u2248\u2249\u224a\u224b\u224c\u224d\u224e\u224f\u2250\u2251\u2252\u2253\u2254\u2255\u2256\u2257\u2258\u2259\u225a\u225b\u225c\u225d\u225e\u225f\u2260\u2261\u2262\u2263\u2264\u2265\u2266\u2267\u2268\u2269\u226a\u226b\u226c\u226d\u226e\u226f\u2270\u2271\u2272\u2273\u2274\u2275\u2276\u2277\u2278\u2279\u227a\u227b\u227c\u227d\u227e\u227f\u2280\u2281\u2282\u2283\u2284\u2285\u2286\u2287\u2288\u2289\u228a\u228b\u228c\u228d\u228e\u228f\u2290\u2291\u2292\u2293\u2294\u2295\u2296\u2297\u2298\u2299\u229a\u229b\u229c\u229d\u229e\u229f\u22a0\u22a1\u22a2\u22a3\u22a4\u22a5\u22a6\u22a7\u22a8\u22a9\u22aa\u22ab\u22ac\u22ad\u22ae\u22af\u22b0\u22b1\u22b2\u22b3\u22b4\u22b5\u22b6\u22b7\u22b8\u22b9\u22ba\u22bb\u22bc\u22bd\u22be\u22bf\u22c0\u22c1\u22c2\u22c3\u22c4\u22c5\u22c6\u22c7\u22c8\u22c9\u22ca\u22cb\u22cc\u22cd\u22ce\u22cf\u22d0\u22d1\u22d2\u22d3\u22d4\u22d5\u22d6\u22d7\u22d8\u22d9\u22da\u22db\u22dc\u22dd\u22de\u22df\u22e0\u22e1\u22e2\u22e3\u22e4\u22e5\u22e6\u22e7\u22e8\u22e9\u22ea\u22eb\u22ec\u22ed\u22ee\u22ef\u22f0\u22f1\u22f2\u22f3\u22f4\u22f5\u22f6\u22f7\u22f8\u22f9\u22fa\u22fb\u22fc\u22fd\u22fe\u22ff\u2308\u2309\u230a\u230b\u2320\u2321\u237c\u239b\u239c\u239d\u239e\u239f\u23a0\u23a1\u23a2\u23a3\u23a4\u23a5\u23a6\u23a7\u23a8\u23a9\u23aa\u23ab\u23ac\u23ad\u23ae\u23af\u23b0\u23b1\u23b2\u23b3\u25b7\u25c1\u25f8\u25f9\u25fa\u25fb\u25fc\u25fd\u25fe\u25ff\u266f\u27c0\u27c1\u27c2\u27c3\u27c4\u27d0\u27d1\u27d2\u27d3\u27d4\u27d5\u27d6\u27d7\u27d8\u27d9\u27da\u27db\u27dc\u27dd\u27de\u27df\u27e0\u27e1\u27e2\u27e3\u27e4\u27e5\u27f0\u27f1\u27f2\u27f3\u27f4\u27f5\u27f6\u27f7\u27f8\u27f9\u27fa\u27fb\u27fc\u27fd\u27fe\u27ff\u2900\u2901\u2902\u2903\u2904\u2905\u2906\u2907\u2908\u2909\u290a\u290b\u290c\u290d\u290e\u290f\u2910\u2911\u2912\u2913\u2914\u2915\u2916\u2917\u2918\u2919\u291a\u291b\u291c\u291d\u291e\u291f\u2920\u2921\u2922\u2923\u2924\u2925\u2926\u2927\u2928\u2929\u292a\u292b\u292c\u292d\u292e\u292f\u2930\u2931\u2932\u2933\u2934\u2935\u2936\u2937\u2938\u2939\u293a\u293b\u293c\u293d\u293e\u293f\u2940\u2941\u2942\u2943\u2944\u2945\u2946\u2947\u2948\u2949\u294a\u294b\u294c\u294d\u294e\u294f\u2950\u2951\u2952\u2953\u2954\u2955\u2956\u2957\u2958\u2959\u295a\u295b\u295c\u295d\u295e\u295f\u2960\u2961\u2962\u2963\u2964\u2965\u2966\u2967\u2968\u2969\u296a\u296b\u296c\u296d\u296e\u296f\u2970\u2971\u2972\u2973\u2974\u2975\u2976\u2977\u2978\u2979\u297a\u297b\u297c\u297d\u297e\u297f\u2980\u2981\u2982\u2999\u299a\u299b\u299c\u299d\u299e\u299f\u29a0\u29a1\u29a2\u29a3\u29a4\u29a5\u29a6\u29a7\u29a8\u29a9\u29aa\u29ab\u29ac\u29ad\u29ae\u29af\u29b0\u29b1\u29b2\u29b3\u29b4\u29b5\u29b6\u29b7\u29b8\u29b9\u29ba\u29bb\u29bc\u29bd\u29be\u29bf\u29c0\u29c1\u29c2\u29c3\u29c4\u29c5\u29c6\u29c7\u29c8\u29c9\u29ca\u29cb\u29cc\u29cd\u29ce\u29cf\u29d0\u29d1\u29d2\u29d3\u29d4\u29d5\u29d6\u29d7\u29dc\u29dd\u29de\u29df\u29e0\u29e1\u29e2\u29e3\u29e4\u29e5\u29e6\u29e7\u29e8\u29e9\u29ea\u29eb\u29ec\u29ed\u29ee\u29ef\u29f0\u29f1\u29f2\u29f3\u29f4\u29f5\u29f6\u29f7\u29f8\u29f9\u29fa\u29fb\u29fe\u29ff\u2a00\u2a01\u2a02\u2a03\u2a04\u2a05\u2a06\u2a07\u2a08\u2a09\u2a0a\u2a0b\u2a0c\u2a0d\u2a0e\u2a0f\u2a10\u2a11\u2a12\u2a13\u2a14\u2a15\u2a16\u2a17\u2a18\u2a19\u2a1a\u2a1b\u2a1c\u2a1d\u2a1e\u2a1f\u2a20\u2a21\u2a22\u2a23\u2a24\u2a25\u2a26\u2a27\u2a28\u2a29\u2a2a\u2a2b\u2a2c\u2a2d\u2a2e\u2a2f\u2a30\u2a31\u2a32\u2a33\u2a34\u2a35\u2a36\u2a37\u2a38\u2a39\u2a3a\u2a3b\u2a3c\u2a3d\u2a3e\u2a3f\u2a40\u2a41\u2a42\u2a43\u2a44\u2a45\u2a46\u2a47\u2a48\u2a49\u2a4a\u2a4b\u2a4c\u2a4d\u2a4e\u2a4f\u2a50\u2a51\u2a52\u2a53\u2a54\u2a55\u2a56\u2a57\u2a58\u2a59\u2a5a\u2a5b\u2a5c\u2a5d\u2a5e\u2a5f\u2a60\u2a61\u2a62\u2a63\u2a64\u2a65\u2a66\u2a67\u2a68\u2a69\u2a6a\u2a6b\u2a6c\u2a6d\u2a6e\u2a6f\u2a70\u2a71\u2a72\u2a73\u2a74\u2a75\u2a76\u2a77\u2a78\u2a79\u2a7a\u2a7b\u2a7c\u2a7d\u2a7e\u2a7f\u2a80\u2a81\u2a82\u2a83\u2a84\u2a85\u2a86\u2a87\u2a88\u2a89\u2a8a\u2a8b\u2a8c\u2a8d\u2a8e\u2a8f\u2a90\u2a91\u2a92\u2a93\u2a94\u2a95\u2a96\u2a97\u2a98\u2a99\u2a9a\u2a9b\u2a9c\u2a9d\u2a9e\u2a9f\u2aa0\u2aa1\u2aa2\u2aa3\u2aa4\u2aa5\u2aa6\u2aa7\u2aa8\u2aa9\u2aaa\u2aab\u2aac\u2aad\u2aae\u2aaf\u2ab0\u2ab1\u2ab2\u2ab3\u2ab4\u2ab5\u2ab6\u2ab7\u2ab8\u2ab9\u2aba\u2abb\u2abc\u2abd\u2abe\u2abf\u2ac0\u2ac1\u2ac2\u2ac3\u2ac4\u2ac5\u2ac6\u2ac7\u2ac8\u2ac9\u2aca\u2acb\u2acc\u2acd\u2ace\u2acf\u2ad0\u2ad1\u2ad2\u2ad3\u2ad4\u2ad5\u2ad6\u2ad7\u2ad8\u2ad9\u2ada\u2adb\u2adc\u2add\u2ade\u2adf\u2ae0\u2ae1\u2ae2\u2ae3\u2ae4\u2ae5\u2ae6\u2ae7\u2ae8\u2ae9\u2aea\u2aeb\u2aec\u2aed\u2aee\u2aef\u2af0\u2af1\u2af2\u2af3\u2af4\u2af5\u2af6\u2af7\u2af8\u2af9\u2afa\u2afb\u2afc\u2afd\u2afe\u2aff\ufb29\ufe62\ufe64\ufe65\ufe66\uff0b\uff1c\uff1d\uff1e\uff5c\uff5e\uffe2\uffe9\uffea\uffeb\uffec'
So = 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Zl = u'\u2028'
Zp = u'\u2029'
Zs = u' \xa0\u1680\u180e\u2000\u2001\u2002\u2003\u2004\u2005\u2006\u2007\u2008\u2009\u200a\u202f\u205f\u3000'
cats = ['Cc', 'Cf', 'Cn', 'Co', 'Cs', 'Ll', 'Lm', 'Lo', 'Lt', 'Lu', 'Mc', 'Me', 'Mn', 'Nd', 'Nl', 'No', 'Pc', 'Pd', 'Pe', 'Pf', 'Pi', 'Po', 'Ps', 'Sc', 'Sk', 'Sm', 'So', 'Zl', 'Zp', 'Zs']
def combine(*args):
return u''.join([globals()[cat] for cat in args])
xid_start = u'\u0041-\u005A\u005F\u0061-\u007A\u00AA\u00B5\u00BA\u00C0-\u00D6\u00D8-\u00F6\u00F8-\u01BA\u01BB\u01BC-\u01BF\u01C0-\u01C3\u01C4-\u0241\u0250-\u02AF\u02B0-\u02C1\u02C6-\u02D1\u02E0-\u02E4\u02EE\u0386\u0388-\u038A\u038C\u038E-\u03A1\u03A3-\u03CE\u03D0-\u03F5\u03F7-\u0481\u048A-\u04CE\u04D0-\u04F9\u0500-\u050F\u0531-\u0556\u0559\u0561-\u0587\u05D0-\u05EA\u05F0-\u05F2\u0621-\u063A\u0640\u0641-\u064A\u066E-\u066F\u0671-\u06D3\u06D5\u06E5-\u06E6\u06EE-\u06EF\u06FA-\u06FC\u06FF\u0710\u0712-\u072F\u074D-\u076D\u0780-\u07A5\u07B1\u0904-\u0939\u093D\u0950\u0958-\u0961\u097D\u0985-\u098C\u098F-\u0990\u0993-\u09A8\u09AA-\u09B0\u09B2\u09B6-\u09B9\u09BD\u09CE\u09DC-\u09DD\u09DF-\u09E1\u09F0-\u09F1\u0A05-\u0A0A\u0A0F-\u0A10\u0A13-\u0A28\u0A2A-\u0A30\u0A32-\u0A33\u0A35-\u0A36\u0A38-\u0A39\u0A59-\u0A5C\u0A5E\u0A72-\u0A74\u0A85-\u0A8D\u0A8F-\u0A91\u0A93-\u0AA8\u0AAA-\u0AB0\u0AB2-\u0AB3\u0AB5-\u0AB9\u0ABD\u0AD0\u0AE0-\u0AE1\u0B05-\u0B0C\u0B0F-\u0B10\u0B13-\u0B28\u0B2A-\u0B30\u0B32-\u0B33\u0B35-\u0B39\u0B3D\u0B5C-\u0B5D\u0B5F-\u0B61\u0B71\u0B83\u0B85-\u0B8A\u0B8E-\u0B90\u0B92-\u0B95\u0B99-\u0B9A\u0B9C\u0B9E-\u0B9F\u0BA3-\u0BA4\u0BA8-\u0BAA\u0BAE-\u0BB9\u0C05-\u0C0C\u0C0E-\u0C10\u0C12-\u0C28\u0C2A-\u0C33\u0C35-\u0C39\u0C60-\u0C61\u0C85-\u0C8C\u0C8E-\u0C90\u0C92-\u0CA8\u0CAA-\u0CB3\u0CB5-\u0CB9\u0CBD\u0CDE\u0CE0-\u0CE1\u0D05-\u0D0C\u0D0E-\u0D10\u0D12-\u0D28\u0D2A-\u0D39\u0D60-\u0D61\u0D85-\u0D96\u0D9A-\u0DB1\u0DB3-\u0DBB\u0DBD\u0DC0-\u0DC6\u0E01-\u0E30\u0E32\u0E40-\u0E45\u0E46\u0E81-\u0E82\u0E84\u0E87-\u0E88\u0E8A\u0E8D\u0E94-\u0E97\u0E99-\u0E9F\u0EA1-\u0EA3\u0EA5\u0EA7\u0EAA-\u0EAB\u0EAD-\u0EB0\u0EB2\u0EBD\u0EC0-\u0EC4\u0EC6\u0EDC-\u0EDD\u0F00\u0F40-\u0F47\u0F49-\u0F6A\u0F88-\u0F8B\u1000-\u1021\u1023-\u1027\u1029-\u102A\u1050-\u1055\u10A0-\u10C5\u10D0-\u10FA\u10FC\u1100-\u1159\u115F-\u11A2\u11A8-\u11F9\u1200-\u1248\u124A-\u124D\u1250-\u1256\u1258\u125A-\u125D\u1260-\u1288\u128A-\u128D\u1290-\u12B0\u12B2-\u12B5\u12B8-\u12BE\u12C0\u12C2-\u12C5\u12C8-\u12D6\u12D8-\u1310\u1312-\u1315\u1318-\u135A\u1380-\u138F\u13A0-\u13F4\u1401-\u166C\u166F-\u1676\u1681-\u169A\u16A0-\u16EA\u16EE-\u16F0\u1700-\u170C\u170E-\u1711\u1720-\u1731\u1740-\u1751\u1760-\u176C\u176E-\u1770\u1780-\u17B3\u17D7\u17DC\u1820-\u1842\u1843\u1844-\u1877\u1880-\u18A8\u1900-\u191C\u1950-\u196D\u1970-\u1974\u1980-\u19A9\u19C1-\u19C7\u1A00-\u1A16\u1D00-\u1D2B\u1D2C-\u1D61\u1D62-\u1D77\u1D78\u1D79-\u1D9A\u1D9B-\u1DBF\u1E00-\u1E9B\u1EA0-\u1EF9\u1F00-\u1F15\u1F18-\u1F1D\u1F20-\u1F45\u1F48-\u1F4D\u1F50-\u1F57\u1F59\u1F5B\u1F5D\u1F5F-\u1F7D\u1F80-\u1FB4\u1FB6-\u1FBC\u1FBE\u1FC2-\u1FC4\u1FC6-\u1FCC\u1FD0-\u1FD3\u1FD6-\u1FDB\u1FE0-\u1FEC\u1FF2-\u1FF4\u1FF6-\u1FFC\u2071\u207F\u2090-\u2094\u2102\u2107\u210A-\u2113\u2115\u2118\u2119-\u211D\u2124\u2126\u2128\u212A-\u212D\u212E\u212F-\u2131\u2133-\u2134\u2135-\u2138\u2139\u213C-\u213F\u2145-\u2149\u2160-\u2183\u2C00-\u2C2E\u2C30-\u2C5E\u2C80-\u2CE4\u2D00-\u2D25\u2D30-\u2D65\u2D6F\u2D80-\u2D96\u2DA0-\u2DA6\u2DA8-\u2DAE\u2DB0-\u2DB6\u2DB8-\u2DBE\u2DC0-\u2DC6\u2DC8-\u2DCE\u2DD0-\u2DD6\u2DD8-\u2DDE\u3005\u3006\u3007\u3021-\u3029\u3031-\u3035\u3038-\u303A\u303B\u303C\u3041-\u3096\u309D-\u309E\u309F\u30A1-\u30FA\u30FC-\u30FE\u30FF\u3105-\u312C\u3131-\u318E\u31A0-\u31B7\u31F0-\u31FF\u3400-\u4DB5\u4E00-\u9FBB\uA000-\uA014\uA015\uA016-\uA48C\uA800-\uA801\uA803-\uA805\uA807-\uA80A\uA80C-\uA822\uAC00-\uD7A3\uF900-\uFA2D\uFA30-\uFA6A\uFA70-\uFAD9\uFB00-\uFB06\uFB13-\uFB17\uFB1D\uFB1F-\uFB28\uFB2A-\uFB36\uFB38-\uFB3C\uFB3E\uFB40-\uFB41\uFB43-\uFB44\uFB46-\uFBB1\uFBD3-\uFC5D\uFC64-\uFD3D\uFD50-\uFD8F\uFD92-\uFDC7\uFDF0-\uFDF9\uFE71\uFE73\uFE77\uFE79\uFE7B\uFE7D\uFE7F-\uFEFC\uFF21-\uFF3A\uFF41-\uFF5A\uFF66-\uFF6F\uFF70\uFF71-\uFF9D\uFFA0-\uFFBE\uFFC2-\uFFC7\uFFCA-\uFFCF\uFFD2-\uFFD7\uFFDA-\uFFDC'
xid_continue = u'\u0030-\u0039\u0041-\u005A\u005F\u0061-\u007A\u00AA\u00B5\u00B7\u00BA\u00C0-\u00D6\u00D8-\u00F6\u00F8-\u01BA\u01BB\u01BC-\u01BF\u01C0-\u01C3\u01C4-\u0241\u0250-\u02AF\u02B0-\u02C1\u02C6-\u02D1\u02E0-\u02E4\u02EE\u0300-\u036F\u0386\u0388-\u038A\u038C\u038E-\u03A1\u03A3-\u03CE\u03D0-\u03F5\u03F7-\u0481\u0483-\u0486\u048A-\u04CE\u04D0-\u04F9\u0500-\u050F\u0531-\u0556\u0559\u0561-\u0587\u0591-\u05B9\u05BB-\u05BD\u05BF\u05C1-\u05C2\u05C4-\u05C5\u05C7\u05D0-\u05EA\u05F0-\u05F2\u0610-\u0615\u0621-\u063A\u0640\u0641-\u064A\u064B-\u065E\u0660-\u0669\u066E-\u066F\u0670\u0671-\u06D3\u06D5\u06D6-\u06DC\u06DF-\u06E4\u06E5-\u06E6\u06E7-\u06E8\u06EA-\u06ED\u06EE-\u06EF\u06F0-\u06F9\u06FA-\u06FC\u06FF\u0710\u0711\u0712-\u072F\u0730-\u074A\u074D-\u076D\u0780-\u07A5\u07A6-\u07B0\u07B1\u0901-\u0902\u0903\u0904-\u0939\u093C\u093D\u093E-\u0940\u0941-\u0948\u0949-\u094C\u094D\u0950\u0951-\u0954\u0958-\u0961\u0962-\u0963\u0966-\u096F\u097D\u0981\u0982-\u0983\u0985-\u098C\u098F-\u0990\u0993-\u09A8\u09AA-\u09B0\u09B2\u09B6-\u09B9\u09BC\u09BD\u09BE-\u09C0\u09C1-\u09C4\u09C7-\u09C8\u09CB-\u09CC\u09CD\u09CE\u09D7\u09DC-\u09DD\u09DF-\u09E1\u09E2-\u09E3\u09E6-\u09EF\u09F0-\u09F1\u0A01-\u0A02\u0A03\u0A05-\u0A0A\u0A0F-\u0A10\u0A13-\u0A28\u0A2A-\u0A30\u0A32-\u0A33\u0A35-\u0A36\u0A38-\u0A39\u0A3C\u0A3E-\u0A40\u0A41-\u0A42\u0A47-\u0A48\u0A4B-\u0A4D\u0A59-\u0A5C\u0A5E\u0A66-\u0A6F\u0A70-\u0A71\u0A72-\u0A74\u0A81-\u0A82\u0A83\u0A85-\u0A8D\u0A8F-\u0A91\u0A93-\u0AA8\u0AAA-\u0AB0\u0AB2-\u0AB3\u0AB5-\u0AB9\u0ABC\u0ABD\u0ABE-\u0AC0\u0AC1-\u0AC5\u0AC7-\u0AC8\u0AC9\u0ACB-\u0ACC\u0ACD\u0AD0\u0AE0-\u0AE1\u0AE2-\u0AE3\u0AE6-\u0AEF\u0B01\u0B02-\u0B03\u0B05-\u0B0C\u0B0F-\u0B10\u0B13-\u0B28\u0B2A-\u0B30\u0B32-\u0B33\u0B35-\u0B39\u0B3C\u0B3D\u0B3E\u0B3F\u0B40\u0B41-\u0B43\u0B47-\u0B48\u0B4B-\u0B4C\u0B4D\u0B56\u0B57\u0B5C-\u0B5D\u0B5F-\u0B61\u0B66-\u0B6F\u0B71\u0B82\u0B83\u0B85-\u0B8A\u0B8E-\u0B90\u0B92-\u0B95\u0B99-\u0B9A\u0B9C\u0B9E-\u0B9F\u0BA3-\u0BA4\u0BA8-\u0BAA\u0BAE-\u0BB9\u0BBE-\u0BBF\u0BC0\u0BC1-\u0BC2\u0BC6-\u0BC8\u0BCA-\u0BCC\u0BCD\u0BD7\u0BE6-\u0BEF\u0C01-\u0C03\u0C05-\u0C0C\u0C0E-\u0C10\u0C12-\u0C28\u0C2A-\u0C33\u0C35-\u0C39\u0C3E-\u0C40\u0C41-\u0C44\u0C46-\u0C48\u0C4A-\u0C4D\u0C55-\u0C56\u0C60-\u0C61\u0C66-\u0C6F\u0C82-\u0C83\u0C85-\u0C8C\u0C8E-\u0C90\u0C92-\u0CA8\u0CAA-\u0CB3\u0CB5-\u0CB9\u0CBC\u0CBD\u0CBE\u0CBF\u0CC0-\u0CC4\u0CC6\u0CC7-\u0CC8\u0CCA-\u0CCB\u0CCC-\u0CCD\u0CD5-\u0CD6\u0CDE\u0CE0-\u0CE1\u0CE6-\u0CEF\u0D02-\u0D03\u0D05-\u0D0C\u0D0E-\u0D10\u0D12-\u0D28\u0D2A-\u0D39\u0D3E-\u0D40\u0D41-\u0D43\u0D46-\u0D48\u0D4A-\u0D4C\u0D4D\u0D57\u0D60-\u0D61\u0D66-\u0D6F\u0D82-\u0D83\u0D85-\u0D96\u0D9A-\u0DB1\u0DB3-\u0DBB\u0DBD\u0DC0-\u0DC6\u0DCA\u0DCF-\u0DD1\u0DD2-\u0DD4\u0DD6\u0DD8-\u0DDF\u0DF2-\u0DF3\u0E01-\u0E30\u0E31\u0E32-\u0E33\u0E34-\u0E3A\u0E40-\u0E45\u0E46\u0E47-\u0E4E\u0E50-\u0E59\u0E81-\u0E82\u0E84\u0E87-\u0E88\u0E8A\u0E8D\u0E94-\u0E97\u0E99-\u0E9F\u0EA1-\u0EA3\u0EA5\u0EA7\u0EAA-\u0EAB\u0EAD-\u0EB0\u0EB1\u0EB2-\u0EB3\u0EB4-\u0EB9\u0EBB-\u0EBC\u0EBD\u0EC0-\u0EC4\u0EC6\u0EC8-\u0ECD\u0ED0-\u0ED9\u0EDC-\u0EDD\u0F00\u0F18-\u0F19\u0F20-\u0F29\u0F35\u0F37\u0F39\u0F3E-\u0F3F\u0F40-\u0F47\u0F49-\u0F6A\u0F71-\u0F7E\u0F7F\u0F80-\u0F84\u0F86-\u0F87\u0F88-\u0F8B\u0F90-\u0F97\u0F99-\u0FBC\u0FC6\u1000-\u1021\u1023-\u1027\u1029-\u102A\u102C\u102D-\u1030\u1031\u1032\u1036-\u1037\u1038\u1039\u1040-\u1049\u1050-\u1055\u1056-\u1057\u1058-\u1059\u10A0-\u10C5\u10D0-\u10FA\u10FC\u1100-\u1159\u115F-\u11A2\u11A8-\u11F9\u1200-\u1248\u124A-\u124D\u1250-\u1256\u1258\u125A-\u125D\u1260-\u1288\u128A-\u128D\u1290-\u12B0\u12B2-\u12B5\u12B8-\u12BE\u12C0\u12C2-\u12C5\u12C8-\u12D6\u12D8-\u1310\u1312-\u1315\u1318-\u135A\u135F\u1369-\u1371\u1380-\u138F\u13A0-\u13F4\u1401-\u166C\u166F-\u1676\u1681-\u169A\u16A0-\u16EA\u16EE-\u16F0\u1700-\u170C\u170E-\u1711\u1712-\u1714\u1720-\u1731\u1732-\u1734\u1740-\u1751\u1752-\u1753\u1760-\u176C\u176E-\u1770\u1772-\u1773\u1780-\u17B3\u17B6\u17B7-\u17BD\u17BE-\u17C5\u17C6\u17C7-\u17C8\u17C9-\u17D3\u17D7\u17DC\u17DD\u17E0-\u17E9\u180B-\u180D\u1810-\u1819\u1820-\u1842\u1843\u1844-\u1877\u1880-\u18A8\u18A9\u1900-\u191C\u1920-\u1922\u1923-\u1926\u1927-\u1928\u1929-\u192B\u1930-\u1931\u1932\u1933-\u1938\u1939-\u193B\u1946-\u194F\u1950-\u196D\u1970-\u1974\u1980-\u19A9\u19B0-\u19C0\u19C1-\u19C7\u19C8-\u19C9\u19D0-\u19D9\u1A00-\u1A16\u1A17-\u1A18\u1A19-\u1A1B\u1D00-\u1D2B\u1D2C-\u1D61\u1D62-\u1D77\u1D78\u1D79-\u1D9A\u1D9B-\u1DBF\u1DC0-\u1DC3\u1E00-\u1E9B\u1EA0-\u1EF9\u1F00-\u1F15\u1F18-\u1F1D\u1F20-\u1F45\u1F48-\u1F4D\u1F50-\u1F57\u1F59\u1F5B\u1F5D\u1F5F-\u1F7D\u1F80-\u1FB4\u1FB6-\u1FBC\u1FBE\u1FC2-\u1FC4\u1FC6-\u1FCC\u1FD0-\u1FD3\u1FD6-\u1FDB\u1FE0-\u1FEC\u1FF2-\u1FF4\u1FF6-\u1FFC\u203F-\u2040\u2054\u2071\u207F\u2090-\u2094\u20D0-\u20DC\u20E1\u20E5-\u20EB\u2102\u2107\u210A-\u2113\u2115\u2118\u2119-\u211D\u2124\u2126\u2128\u212A-\u212D\u212E\u212F-\u2131\u2133-\u2134\u2135-\u2138\u2139\u213C-\u213F\u2145-\u2149\u2160-\u2183\u2C00-\u2C2E\u2C30-\u2C5E\u2C80-\u2CE4\u2D00-\u2D25\u2D30-\u2D65\u2D6F\u2D80-\u2D96\u2DA0-\u2DA6\u2DA8-\u2DAE\u2DB0-\u2DB6\u2DB8-\u2DBE\u2DC0-\u2DC6\u2DC8-\u2DCE\u2DD0-\u2DD6\u2DD8-\u2DDE\u3005\u3006\u3007\u3021-\u3029\u302A-\u302F\u3031-\u3035\u3038-\u303A\u303B\u303C\u3041-\u3096\u3099-\u309A\u309D-\u309E\u309F\u30A1-\u30FA\u30FC-\u30FE\u30FF\u3105-\u312C\u3131-\u318E\u31A0-\u31B7\u31F0-\u31FF\u3400-\u4DB5\u4E00-\u9FBB\uA000-\uA014\uA015\uA016-\uA48C\uA800-\uA801\uA802\uA803-\uA805\uA806\uA807-\uA80A\uA80B\uA80C-\uA822\uA823-\uA824\uA825-\uA826\uA827\uAC00-\uD7A3\uF900-\uFA2D\uFA30-\uFA6A\uFA70-\uFAD9\uFB00-\uFB06\uFB13-\uFB17\uFB1D\uFB1E\uFB1F-\uFB28\uFB2A-\uFB36\uFB38-\uFB3C\uFB3E\uFB40-\uFB41\uFB43-\uFB44\uFB46-\uFBB1\uFBD3-\uFC5D\uFC64-\uFD3D\uFD50-\uFD8F\uFD92-\uFDC7\uFDF0-\uFDF9\uFE00-\uFE0F\uFE20-\uFE23\uFE33-\uFE34\uFE4D-\uFE4F\uFE71\uFE73\uFE77\uFE79\uFE7B\uFE7D\uFE7F-\uFEFC\uFF10-\uFF19\uFF21-\uFF3A\uFF3F\uFF41-\uFF5A\uFF66-\uFF6F\uFF70\uFF71-\uFF9D\uFF9E-\uFF9F\uFFA0-\uFFBE\uFFC2-\uFFC7\uFFCA-\uFFCF\uFFD2-\uFFD7\uFFDA-\uFFDC'
def allexcept(*args):
newcats = cats[:]
for arg in args:
newcats.remove(arg)
return u''.join([globals()[cat] for cat in newcats])
if __name__ == '__main__':
import unicodedata
categories = {}
f = open(__file__.rstrip('co'))
try:
content = f.read()
finally:
f.close()
header = content[:content.find('Cc =')]
footer = content[content.find("def combine("):]
for code in range(65535):
c = unichr(code)
cat = unicodedata.category(c)
categories.setdefault(cat, []).append(c)
f = open(__file__, 'w')
f.write(header)
for cat in sorted(categories):
val = u''.join(categories[cat])
if cat == 'Cs':
# Jython can't handle isolated surrogates
f.write("""\
try:
Cs = eval(r"%r")
except UnicodeDecodeError:
Cs = '' # Jython can't handle isolated surrogates\n\n""" % val)
else:
f.write('%s = %r\n\n' % (cat, val))
f.write('cats = %r\n\n' % sorted(categories.keys()))
f.write(footer)
f.close()
| [
[
8,
0,
0.0615,
0.1,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
14,
0,
0.1231,
0.0077,
0,
0.66,
0.0278,
924,
1,
0,
0,
0,
0,
3,
0
],
[
14,
0,
0.1385,
0.0077,
0,
0.66,
... | [
"\"\"\"\n jinja2._stringdefs\n ~~~~~~~~~~~~~~~~~~\n\n Strings of all Unicode characters of a certain category.\n Used for matching in Unicode-aware languages. Run to regenerate.\n\n Inspired by chartypes_create.py from the MoinMoin project, original",
"Cc = u'\\x00\\x01\\x02\\x03\\x04\\x05\\x06\\x0... |
# -*- coding: utf-8 -*-
"""
jinja.constants
~~~~~~~~~~~~~~~
Various constants.
:copyright: (c) 2010 by the Jinja Team.
:license: BSD, see LICENSE for more details.
"""
#: list of lorem ipsum words used by the lipsum() helper function
LOREM_IPSUM_WORDS = u'''\
a ac accumsan ad adipiscing aenean aliquam aliquet amet ante aptent arcu at
auctor augue bibendum blandit class commodo condimentum congue consectetuer
consequat conubia convallis cras cubilia cum curabitur curae cursus dapibus
diam dictum dictumst dignissim dis dolor donec dui duis egestas eget eleifend
elementum elit enim erat eros est et etiam eu euismod facilisi facilisis fames
faucibus felis fermentum feugiat fringilla fusce gravida habitant habitasse hac
hendrerit hymenaeos iaculis id imperdiet in inceptos integer interdum ipsum
justo lacinia lacus laoreet lectus leo libero ligula litora lobortis lorem
luctus maecenas magna magnis malesuada massa mattis mauris metus mi molestie
mollis montes morbi mus nam nascetur natoque nec neque netus nibh nisi nisl non
nonummy nostra nulla nullam nunc odio orci ornare parturient pede pellentesque
penatibus per pharetra phasellus placerat platea porta porttitor posuere
potenti praesent pretium primis proin pulvinar purus quam quis quisque rhoncus
ridiculus risus rutrum sagittis sapien scelerisque sed sem semper senectus sit
sociis sociosqu sodales sollicitudin suscipit suspendisse taciti tellus tempor
tempus tincidunt torquent tortor tristique turpis ullamcorper ultrices
ultricies urna ut varius vehicula vel velit venenatis vestibulum vitae vivamus
viverra volutpat vulputate'''
| [
[
8,
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0,
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0,
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0,
0,
0,
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],
[
14,
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0.5938,
0,
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1,
350,
1,
0,
0,
0,
0,
3,
0
]
] | [
"\"\"\"\n jinja.constants\n ~~~~~~~~~~~~~~~\n\n Various constants.\n\n :copyright: (c) 2010 by the Jinja Team.\n :license: BSD, see LICENSE for more details.",
"LOREM_IPSUM_WORDS = u'''\\\na ac accumsan ad adipiscing aenean aliquam aliquet amet ante aptent arcu at\nauctor augue bibendum blandit cla... |
# -*- coding: utf-8 -*-
"""
jinja2
~~~~~~
Jinja2 is a template engine written in pure Python. It provides a
Django inspired non-XML syntax but supports inline expressions and
an optional sandboxed environment.
Nutshell
--------
Here a small example of a Jinja2 template::
{% extends 'base.html' %}
{% block title %}Memberlist{% endblock %}
{% block content %}
<ul>
{% for user in users %}
<li><a href="{{ user.url }}">{{ user.username }}</a></li>
{% endfor %}
</ul>
{% endblock %}
:copyright: (c) 2010 by the Jinja Team.
:license: BSD, see LICENSE for more details.
"""
__docformat__ = 'restructuredtext en'
try:
__version__ = __import__('pkg_resources') \
.get_distribution('Jinja2').version
except:
__version__ = 'unknown'
# high level interface
from jinja2.environment import Environment, Template
# loaders
from jinja2.loaders import BaseLoader, FileSystemLoader, PackageLoader, \
DictLoader, FunctionLoader, PrefixLoader, ChoiceLoader, \
ModuleLoader
# bytecode caches
from jinja2.bccache import BytecodeCache, FileSystemBytecodeCache, \
MemcachedBytecodeCache
# undefined types
from jinja2.runtime import Undefined, DebugUndefined, StrictUndefined
# exceptions
from jinja2.exceptions import TemplateError, UndefinedError, \
TemplateNotFound, TemplatesNotFound, TemplateSyntaxError, \
TemplateAssertionError
# decorators and public utilities
from jinja2.filters import environmentfilter, contextfilter, \
evalcontextfilter
from jinja2.utils import Markup, escape, clear_caches, \
environmentfunction, evalcontextfunction, contextfunction, \
is_undefined
__all__ = [
'Environment', 'Template', 'BaseLoader', 'FileSystemLoader',
'PackageLoader', 'DictLoader', 'FunctionLoader', 'PrefixLoader',
'ChoiceLoader', 'BytecodeCache', 'FileSystemBytecodeCache',
'MemcachedBytecodeCache', 'Undefined', 'DebugUndefined',
'StrictUndefined', 'TemplateError', 'UndefinedError', 'TemplateNotFound',
'TemplatesNotFound', 'TemplateSyntaxError', 'TemplateAssertionError',
'ModuleLoader', 'environmentfilter', 'contextfilter', 'Markup', 'escape',
'environmentfunction', 'contextfunction', 'clear_caches', 'is_undefined',
'evalcontextfilter', 'evalcontextfunction'
]
| [
[
8,
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0.2055,
0.3699,
0,
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0,
0,
1,
0,
0,
0,
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0,
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],
[
14,
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[
7,
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0,
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... | [
"\"\"\"\n jinja2\n ~~~~~~\n\n Jinja2 is a template engine written in pure Python. It provides a\n Django inspired non-XML syntax but supports inline expressions and\n an optional sandboxed environment.",
"__docformat__ = 'restructuredtext en'",
"try:\n __version__ = __import__('pkg_resources'... |
# -*- coding: utf-8 -*-
"""
jinja2.bccache
~~~~~~~~~~~~~~
This module implements the bytecode cache system Jinja is optionally
using. This is useful if you have very complex template situations and
the compiliation of all those templates slow down your application too
much.
Situations where this is useful are often forking web applications that
are initialized on the first request.
:copyright: (c) 2010 by the Jinja Team.
:license: BSD.
"""
from os import path, listdir
import marshal
import tempfile
import cPickle as pickle
import fnmatch
from cStringIO import StringIO
try:
from hashlib import sha1
except ImportError:
from sha import new as sha1
from jinja2.utils import open_if_exists
bc_version = 1
bc_magic = 'j2'.encode('ascii') + pickle.dumps(bc_version, 2)
class Bucket(object):
"""Buckets are used to store the bytecode for one template. It's created
and initialized by the bytecode cache and passed to the loading functions.
The buckets get an internal checksum from the cache assigned and use this
to automatically reject outdated cache material. Individual bytecode
cache subclasses don't have to care about cache invalidation.
"""
def __init__(self, environment, key, checksum):
self.environment = environment
self.key = key
self.checksum = checksum
self.reset()
def reset(self):
"""Resets the bucket (unloads the bytecode)."""
self.code = None
def load_bytecode(self, f):
"""Loads bytecode from a file or file like object."""
# make sure the magic header is correct
magic = f.read(len(bc_magic))
if magic != bc_magic:
self.reset()
return
# the source code of the file changed, we need to reload
checksum = pickle.load(f)
if self.checksum != checksum:
self.reset()
return
# now load the code. Because marshal is not able to load
# from arbitrary streams we have to work around that
if isinstance(f, file):
self.code = marshal.load(f)
else:
self.code = marshal.loads(f.read())
def write_bytecode(self, f):
"""Dump the bytecode into the file or file like object passed."""
if self.code is None:
raise TypeError('can\'t write empty bucket')
f.write(bc_magic)
pickle.dump(self.checksum, f, 2)
if isinstance(f, file):
marshal.dump(self.code, f)
else:
f.write(marshal.dumps(self.code))
def bytecode_from_string(self, string):
"""Load bytecode from a string."""
self.load_bytecode(StringIO(string))
def bytecode_to_string(self):
"""Return the bytecode as string."""
out = StringIO()
self.write_bytecode(out)
return out.getvalue()
class BytecodeCache(object):
"""To implement your own bytecode cache you have to subclass this class
and override :meth:`load_bytecode` and :meth:`dump_bytecode`. Both of
these methods are passed a :class:`~jinja2.bccache.Bucket`.
A very basic bytecode cache that saves the bytecode on the file system::
from os import path
class MyCache(BytecodeCache):
def __init__(self, directory):
self.directory = directory
def load_bytecode(self, bucket):
filename = path.join(self.directory, bucket.key)
if path.exists(filename):
with open(filename, 'rb') as f:
bucket.load_bytecode(f)
def dump_bytecode(self, bucket):
filename = path.join(self.directory, bucket.key)
with open(filename, 'wb') as f:
bucket.write_bytecode(f)
A more advanced version of a filesystem based bytecode cache is part of
Jinja2.
"""
def load_bytecode(self, bucket):
"""Subclasses have to override this method to load bytecode into a
bucket. If they are not able to find code in the cache for the
bucket, it must not do anything.
"""
raise NotImplementedError()
def dump_bytecode(self, bucket):
"""Subclasses have to override this method to write the bytecode
from a bucket back to the cache. If it unable to do so it must not
fail silently but raise an exception.
"""
raise NotImplementedError()
def clear(self):
"""Clears the cache. This method is not used by Jinja2 but should be
implemented to allow applications to clear the bytecode cache used
by a particular environment.
"""
def get_cache_key(self, name, filename=None):
"""Returns the unique hash key for this template name."""
hash = sha1(name.encode('utf-8'))
if filename is not None:
if isinstance(filename, unicode):
filename = filename.encode('utf-8')
hash.update('|' + filename)
return hash.hexdigest()
def get_source_checksum(self, source):
"""Returns a checksum for the source."""
return sha1(source.encode('utf-8')).hexdigest()
def get_bucket(self, environment, name, filename, source):
"""Return a cache bucket for the given template. All arguments are
mandatory but filename may be `None`.
"""
key = self.get_cache_key(name, filename)
checksum = self.get_source_checksum(source)
bucket = Bucket(environment, key, checksum)
self.load_bytecode(bucket)
return bucket
def set_bucket(self, bucket):
"""Put the bucket into the cache."""
self.dump_bytecode(bucket)
class FileSystemBytecodeCache(BytecodeCache):
"""A bytecode cache that stores bytecode on the filesystem. It accepts
two arguments: The directory where the cache items are stored and a
pattern string that is used to build the filename.
If no directory is specified the system temporary items folder is used.
The pattern can be used to have multiple separate caches operate on the
same directory. The default pattern is ``'__jinja2_%s.cache'``. ``%s``
is replaced with the cache key.
>>> bcc = FileSystemBytecodeCache('/tmp/jinja_cache', '%s.cache')
This bytecode cache supports clearing of the cache using the clear method.
"""
def __init__(self, directory=None, pattern='__jinja2_%s.cache'):
if directory is None:
directory = tempfile.gettempdir()
self.directory = directory
self.pattern = pattern
def _get_cache_filename(self, bucket):
return path.join(self.directory, self.pattern % bucket.key)
def load_bytecode(self, bucket):
f = open_if_exists(self._get_cache_filename(bucket), 'rb')
if f is not None:
try:
bucket.load_bytecode(f)
finally:
f.close()
def dump_bytecode(self, bucket):
f = open(self._get_cache_filename(bucket), 'wb')
try:
bucket.write_bytecode(f)
finally:
f.close()
def clear(self):
# imported lazily here because google app-engine doesn't support
# write access on the file system and the function does not exist
# normally.
from os import remove
files = fnmatch.filter(listdir(self.directory), self.pattern % '*')
for filename in files:
try:
remove(path.join(self.directory, filename))
except OSError:
pass
class MemcachedBytecodeCache(BytecodeCache):
"""This class implements a bytecode cache that uses a memcache cache for
storing the information. It does not enforce a specific memcache library
(tummy's memcache or cmemcache) but will accept any class that provides
the minimal interface required.
Libraries compatible with this class:
- `werkzeug <http://werkzeug.pocoo.org/>`_.contrib.cache
- `python-memcached <http://www.tummy.com/Community/software/python-memcached/>`_
- `cmemcache <http://gijsbert.org/cmemcache/>`_
(Unfortunately the django cache interface is not compatible because it
does not support storing binary data, only unicode. You can however pass
the underlying cache client to the bytecode cache which is available
as `django.core.cache.cache._client`.)
The minimal interface for the client passed to the constructor is this:
.. class:: MinimalClientInterface
.. method:: set(key, value[, timeout])
Stores the bytecode in the cache. `value` is a string and
`timeout` the timeout of the key. If timeout is not provided
a default timeout or no timeout should be assumed, if it's
provided it's an integer with the number of seconds the cache
item should exist.
.. method:: get(key)
Returns the value for the cache key. If the item does not
exist in the cache the return value must be `None`.
The other arguments to the constructor are the prefix for all keys that
is added before the actual cache key and the timeout for the bytecode in
the cache system. We recommend a high (or no) timeout.
This bytecode cache does not support clearing of used items in the cache.
The clear method is a no-operation function.
"""
def __init__(self, client, prefix='jinja2/bytecode/', timeout=None):
self.client = client
self.prefix = prefix
self.timeout = timeout
def load_bytecode(self, bucket):
code = self.client.get(self.prefix + bucket.key)
if code is not None:
bucket.bytecode_from_string(code)
def dump_bytecode(self, bucket):
args = (self.prefix + bucket.key, bucket.bytecode_to_string())
if self.timeout is not None:
args += (self.timeout,)
self.client.set(*args)
| [
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0.0321,
0.0536,
0,
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0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
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0.0036,
0,
0.66,
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688,
0,
2,
0,
0,
688,
0,
0
],
[
1,
0,
0.0643,
0.0036,
0,
0.66... | [
"\"\"\"\n jinja2.bccache\n ~~~~~~~~~~~~~~\n\n This module implements the bytecode cache system Jinja is optionally\n using. This is useful if you have very complex template situations and\n the compiliation of all those templates slow down your application too\n much.",
"from os import path, li... |
#!/usr/bin/python
# -*- coding: utf-8 -*-
##
# (C) Copyright 2011 Jose Blanco <jose.blanco[a]vikuit.com>
#
# This file is part of "vikuit".
#
# "vikuit" is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# "vikuit" is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Affero General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with "vikuit". If not, see <http://www.gnu.org/licenses/>.
##
# Global properties
DEFAULT_LOCALE = "en"
locale = "locale"
appName = "app_name"
appSubject = "app_subject"
domain = "domain"
| [
[
14,
0,
0.8571,
0.0357,
0,
0.66,
0,
335,
1,
0,
0,
0,
0,
3,
0
],
[
14,
0,
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0,
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0.25,
884,
1,
0,
0,
0,
0,
3,
0
],
[
14,
0,
0.9286,
0.0357,
0,
0.6... | [
"DEFAULT_LOCALE = \"en\"",
"locale = \"locale\"",
"appName = \"app_name\"",
"appSubject = \"app_subject\"",
"domain = \"domain\""
] |
"""
Copyright (c) 2008, appengine-utilities project
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
- Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
- Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
- Neither the name of the appengine-utilities project nor the names of its
contributors may be used to endorse or promote products derived from this
software without specific prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
(INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
(INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
"""
# main python imports
import datetime
import pickle
import random
import __main__
# google appengine import
from google.appengine.ext import db
from google.appengine.api import memcache
# settings
DEFAULT_TIMEOUT = 3600 # cache expires after one hour (3600 sec)
CLEAN_CHECK_PERCENT = 15 # 15% of all requests will clean the database
MAX_HITS_TO_CLEAN = 1000 # the maximum number of cache hits to clean on attempt
class _AppEngineUtilities_Cache(db.Model):
# It's up to the application to determine the format of their keys
cachekey = db.StringProperty()
createTime = db.DateTimeProperty(auto_now_add=True)
timeout = db.DateTimeProperty()
value = db.BlobProperty()
class Cache(object):
"""
Cache is used for storing pregenerated output and/or objects in the Big
Table datastore to minimize the amount of queries needed for page
displays. The idea is that complex queries that generate the same
results really should only be run once. Cache can be used to store
pregenerated value made from queries (or other calls such as
urlFetch()), or the query objects themselves.
"""
def __init__(self, clean_check_percent = CLEAN_CHECK_PERCENT,
max_hits_to_clean = MAX_HITS_TO_CLEAN,
default_timeout = DEFAULT_TIMEOUT):
"""
Initializer
Args:
clean_check_percent: how often cache initialization should
run the cache cleanup
max_hits_to_clean: maximum number of stale hits to clean
default_timeout: default length a cache article is good for
"""
self.clean_check_percent = clean_check_percent
self.max_hits_to_clean = max_hits_to_clean
self.default_timeout = default_timeout
if random.randint(1, 100) < self.clean_check_percent:
self._clean_cache()
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheInitialized')
def _clean_cache(self):
"""
_clean_cache is a routine that is run to find and delete cache
articles that are old. This helps keep the size of your over all
datastore down.
"""
query = _AppEngineUtilities_Cache.all()
query.filter('expires < ', datetime.datetime.now())
results = query.fetch(self.max_hits_to_clean)
for result in results:
result.delete()
def _validate_key(self, key):
if key == None:
raise KeyError
def _validate_value(self, value):
if value == None:
raise ValueError
def _validate_timeout(self, timeout):
if timeout == None:
timeout = datetime.datetime.now() +\
datetime.timedelta(seconds=DEFAULT_TIMEOUT)
if type(timeout) == type(1):
timeout = datetime.datetime.now() + \
datetime.timedelta(seconds = timeout)
if type(timeout) != datetime.datetime:
raise TypeError
if timeout < datetime.datetime.now():
raise ValueError
return timeout
def add(self, key = None, value = None, timeout = None):
"""
add adds an entry to the cache, if one does not already
exist.
"""
self._validate_key(key)
self._validate_value(value)
timeout = self._validate_timeout(timeout)
if key in self:
raise KeyError
cacheEntry = _AppEngineUtilities_Cache()
cacheEntry.cachekey = key
cacheEntry.value = pickle.dumps(value)
cacheEntry.timeout = timeout
cacheEntry.put()
memcache_timeout = timeout - datetime.datetime.now()
memcache.set('cache-'+key, value, int(memcache_timeout.seconds))
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheAdded')
def set(self, key = None, value = None, timeout = None):
"""
add adds an entry to the cache, overwriting an existing value
if one already exists.
"""
self._validate_key(key)
self._validate_value(value)
timeout = self._validate_timeout(timeout)
cacheEntry = self._read(key)
if not cacheEntry:
cacheEntry = _AppEngineUtilities_Cache()
cacheEntry.cachekey = key
cacheEntry.value = pickle.dumps(value)
cacheEntry.timeout = timeout
cacheEntry.put()
memcache_timeout = timeout - datetime.datetime.now()
memcache.set('cache-'+key, value, int(memcache_timeout.seconds))
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheSet')
def _read(self, key = None):
"""
_read returns a cache object determined by the key. It's set
to private because it returns a db.Model object, and also
does not handle the unpickling of objects making it not the
best candidate for use. The special method __getarticle__ is the
preferred access method for cache data.
"""
query = _AppEngineUtilities_Cache.all()
query.filter('cachekey', key)
query.filter('timeout > ', datetime.datetime.now())
results = query.fetch(1)
if len(results) is 0:
return None
return results[0]
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheReadFromDatastore')
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheRead')
def delete(self, key = None):
"""
Deletes a cache object determined by the key.
"""
memcache.delete('cache-'+key)
result = self._read(key)
if result:
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheDeleted')
result.delete()
def get(self, key):
"""
get is used to return the cache value associated with the key passed.
"""
mc = memcache.get('cache-'+key)
if mc:
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheReadFromMemcache')
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('cacheRead')
return mc
result = self._read(key)
if result:
timeout = result.timeout - datetime.datetime.now()
# print timeout.seconds
memcache.set('cache-'+key, pickle.loads(result.value),
int(timeout.seconds))
return pickle.loads(result.value)
else:
raise KeyError
def get_many(self, keys):
"""
Returns a dict mapping each key in keys to its value. If the given
key is missing, it will be missing from the response dict.
"""
dict = {}
for key in keys:
value = self.get(key)
if value is not None:
dict[key] = val
return dict
def __getarticle__(self, key):
"""
__getarticle__ is necessary for this object to emulate a container.
"""
return self.get(key)
def __setarticle__(self, key, value):
"""
__setarticle__ is necessary for this object to emulate a container.
"""
return self.set(key, value)
def __delarticle__(self, key):
"""
Implement the 'del' keyword
"""
return self.delete(key)
def __contains__(self, key):
"""
Implements "in" operator
"""
try:
r = self.__getarticle__(key)
except KeyError:
return False
return True
| [
[
8,
0,
0.0523,
0.1008,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.1124,
0.0039,
0,
0.66,
0.0909,
426,
0,
1,
0,
0,
426,
0,
0
],
[
1,
0,
0.1163,
0.0039,
0,
0.66... | [
"\"\"\"\nCopyright (c) 2008, appengine-utilities project\nAll rights reserved.\n\nRedistribution and use in source and binary forms, with or without\nmodification, are permitted provided that the following conditions are met:\n- Redistributions of source code must retain the above copyright notice, this\n list of ... |
"""
Copyright (c) 2008, appengine-utilities project
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
- Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
- Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
- Neither the name of the appengine-utilities project nor the names of its
contributors may be used to endorse or promote products derived from this
software without specific prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
(INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
(INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
"""
# main python imports
import os
import time
import datetime
import random
import sha
import Cookie
import pickle
import __main__
# google appengine imports
from google.appengine.ext import db
from google.appengine.api import memcache
# settings, if you have these set elsewhere, such as your django settings file,
# you'll need to adjust the values to pull from there.
COOKIE_NAME = 'appengine-utilities-session-sid'
DEFAULT_COOKIE_PATH = '/'
SESSION_EXPIRE_TIME = 7200 # sessions are valid for 7200 seconds (2 hours)
CLEAN_CHECK_PERCENT = 15 # 15% of all requests will clean the database
INTEGRATE_FLASH = True # integrate functionality from flash module?
CHECK_IP = True # validate sessions by IP
CHECK_USER_AGENT = True # validate sessions by user agent
SET_COOKIE_EXPIRES = True # Set to True to add expiration field to cookie
SESSION_TOKEN_TTL = 5 # Number of seconds a session token is valid for.
class _AppEngineUtilities_Session(db.Model):
"""
Model for the sessions in the datastore. This contains the identifier and
validation information for the session.
"""
sid = db.StringListProperty()
ip = db.StringProperty()
ua = db.StringProperty()
last_activity = db.DateTimeProperty(auto_now=True)
class _AppEngineUtilities_SessionData(db.Model):
"""
Model for the session data in the datastore.
"""
session = db.ReferenceProperty(_AppEngineUtilities_Session)
keyname = db.StringProperty()
content = db.BlobProperty()
class Session(object):
"""
Sessions used to maintain user presence between requests.
Sessions store a unique id as a cookie in the browser and
referenced in a datastore object. This maintains user presence
by validating requests as visits from the same browser.
You can add extra data to the session object by using it
as a dictionary object. Values can be any python object that
can be pickled.
For extra performance, session objects are also store in
memcache and kept consistent with the datastore. This
increases the performance of read requests to session
data.
"""
def __init__(self, cookie_path=DEFAULT_COOKIE_PATH,
cookie_name=COOKIE_NAME, session_expire_time=SESSION_EXPIRE_TIME,
clean_check_percent=CLEAN_CHECK_PERCENT,
integrate_flash=INTEGRATE_FLASH, check_ip=CHECK_IP,
check_user_agent=CHECK_USER_AGENT,
set_cookie_expires=SET_COOKIE_EXPIRES,
session_token_ttl=SESSION_TOKEN_TTL):
"""
Initializer
Args:
cookie_name: The name for the session cookie stored in the browser.
session_expire_time: The amount of time between requests before the
session expires.
clean_check_percent: The percentage of requests the will fire off a
cleaning routine that deletes stale session data.
integrate_flash: If appengine-utilities flash utility should be
integrated into the session object.
check_ip: If browser IP should be used for session validation
check_user_agent: If the browser user agent should be used for
sessoin validation.
set_cookie_expires: True adds an expires field to the cookie so
it saves even if the browser is closed.
session_token_ttl: Number of sessions a session token is valid
for before it should be regenerated.
"""
self.cookie_path = cookie_path
self.cookie_name = cookie_name
self.session_expire_time = session_expire_time
self.clean_check_percent = clean_check_percent
self.integrate_flash = integrate_flash
self.check_user_agent = check_user_agent
self.check_ip = check_ip
self.set_cookie_expires = set_cookie_expires
self.session_token_ttl = session_token_ttl
"""
Check the cookie and, if necessary, create a new one.
"""
self.cache = {}
self.sid = None
string_cookie = os.environ.get('HTTP_COOKIE', '')
self.cookie = Cookie.SimpleCookie()
self.cookie.load(string_cookie)
# check for existing cookie
if self.cookie.get(cookie_name):
self.sid = self.cookie[cookie_name].value
# If there isn't a valid session for the cookie sid,
# start a new session.
self.session = self._get_session()
if self.session is None:
self.sid = self.new_sid()
self.session = _AppEngineUtilities_Session()
self.session.ua = os.environ['HTTP_USER_AGENT']
self.session.ip = os.environ['REMOTE_ADDR']
self.session.sid = [self.sid]
self.cookie[cookie_name] = self.sid
self.cookie[cookie_name]['path'] = cookie_path
if set_cookie_expires:
self.cookie[cookie_name]['expires'] = \
self.session_expire_time
else:
# check the age of the token to determine if a new one
# is required
duration = datetime.timedelta(seconds=self.session_token_ttl)
session_age_limit = datetime.datetime.now() - duration
if self.session.last_activity < session_age_limit:
self.sid = self.new_sid()
if len(self.session.sid) > 2:
self.session.sid.remove(self.session.sid[0])
self.session.sid.append(self.sid)
else:
self.sid = self.session.sid[-1]
self.cookie[cookie_name] = self.sid
self.cookie[cookie_name]['path'] = cookie_path
if set_cookie_expires:
self.cookie[cookie_name]['expires'] = \
self.session_expire_time
else:
self.sid = self.new_sid()
self.session = _AppEngineUtilities_Session()
self.session.ua = os.environ['HTTP_USER_AGENT']
self.session.ip = os.environ['REMOTE_ADDR']
self.session.sid = [self.sid]
self.cookie[cookie_name] = self.sid
self.cookie[cookie_name]['path'] = cookie_path
if set_cookie_expires:
self.cookie[cookie_name]['expires'] = self.session_expire_time
self.cache['sid'] = pickle.dumps(self.sid)
# update the last_activity field in the datastore every time that
# the session is accessed. This also handles the write for all
# session data above.
self.session.put()
print self.cookie
# fire up a Flash object if integration is enabled
if self.integrate_flash:
import flash
self.flash = flash.Flash(cookie=self.cookie)
# randomly delete old stale sessions in the datastore (see
# CLEAN_CHECK_PERCENT variable)
if random.randint(1, 100) < CLEAN_CHECK_PERCENT:
self._clean_old_sessions()
def new_sid(self):
"""
Create a new session id.
"""
sid = sha.new(repr(time.time()) + os.environ['REMOTE_ADDR'] + \
str(random.random())).hexdigest()
return sid
def _get_session(self):
"""
Get the user's session from the datastore
"""
query = _AppEngineUtilities_Session.all()
query.filter('sid', self.sid)
if self.check_user_agent:
query.filter('ua', os.environ['HTTP_USER_AGENT'])
if self.check_ip:
query.filter('ip', os.environ['REMOTE_ADDR'])
results = query.fetch(1)
if len(results) is 0:
return None
else:
sessionAge = datetime.datetime.now() - results[0].last_activity
if sessionAge.seconds > self.session_expire_time:
results[0].delete()
return None
return results[0]
def _get(self, keyname=None):
"""
Return all of the SessionData object unless keyname is specified, in
which case only that instance of SessionData is returned.
Important: This does not interact with memcache and pulls directly
from the datastore.
Args:
keyname: The keyname of the value you are trying to retrieve.
"""
query = _AppEngineUtilities_SessionData.all()
query.filter('session', self.session)
if keyname != None:
query.filter('keyname =', keyname)
results = query.fetch(1000)
if len(results) is 0:
return None
if keyname != None:
return results[0]
return results
def _validate_key(self, keyname):
"""
Validate the keyname, making sure it is set and not a reserved name.
"""
if keyname is None:
raise ValueError('You must pass a keyname for the session' + \
' data content.')
elif keyname in ('sid', 'flash'):
raise ValueError(keyname + ' is a reserved keyname.')
if type(keyname) != type([str, unicode]):
return str(keyname)
return keyname
def _put(self, keyname, value):
"""
Insert a keyname/value pair into the datastore for the session.
Args:
keyname: The keyname of the mapping.
value: The value of the mapping.
"""
keyname = self._validate_key(keyname)
if value is None:
raise ValueError('You must pass a value to put.')
sessdata = self._get(keyname=keyname)
if sessdata is None:
sessdata = _AppEngineUtilities_SessionData()
sessdata.session = self.session
sessdata.keyname = keyname
sessdata.content = pickle.dumps(value)
self.cache[keyname] = pickle.dumps(value)
sessdata.put()
self._set_memcache()
def _delete_session(self):
"""
Delete the session and all session data for the sid passed.
"""
sessiondata = self._get()
# delete from datastore
if sessiondata is not None:
for sd in sessiondata:
sd.delete()
# delete from memcache
memcache.delete('sid-'+str(self.session.key()))
# delete the session now that all items that reference it are deleted.
self.session.delete()
# if the event class has been loaded, fire off the sessionDeleted event
if 'AEU_Events' in __main__.__dict__:
__main__.AEU_Events.fire_event('sessionDelete')
def delete(self):
"""
Delete the current session and start a new one.
This is useful for when you need to get rid of all data tied to a
current session, such as when you are logging out a user.
"""
self._delete_session()
def delete_all_sessions(self):
"""
Deletes all sessions and session data from the data store and memcache.
"""
all_sessions_deleted = False
all_data_deleted = False
while not all_sessions_deleted:
query = _AppEngineUtilities_Session.all()
results = query.fetch(1000)
if len(results) is 0:
all_sessions_deleted = True
else:
for result in results:
result.delete()
while not all_data_deleted:
query = _AppEngineUtilities_SessionData.all()
results = query.fetch(1000)
if len(results) is 0:
all_data_deleted = True
else:
for result in results:
result.delete()
def _clean_old_sessions(self):
"""
Delete expired sessions from the datastore.
This is only called for CLEAN_CHECK_PERCENT percent of requests because
it could be rather intensive.
"""
duration = datetime.timedelta(seconds=self.session_expire_time)
session_age = datetime.datetime.now() - duration
query = _AppEngineUtilities_Session.all()
query.filter('last_activity <', session_age)
results = query.fetch(1000)
for result in results:
data_query = _AppEngineUtilities_SessionData.all()
query.filter('session', result)
data_results = data_query.fetch(1000)
for data_result in data_results:
data_result.delete()
memcache.delete('sid-'+str(result.key()))
result.delete()
# Implement Python container methods
def __getitem__(self, keyname):
"""
Get item from session data.
keyname: The keyname of the mapping.
"""
# flash messages don't go in the datastore
if self.integrate_flash and (keyname == 'flash'):
return self.flash.msg
if keyname in self.cache:
return pickle.loads(str(self.cache[keyname]))
mc = memcache.get('sid-'+str(self.session.key()))
if mc is not None:
if keyname in mc:
return mc[keyname]
data = self._get(keyname)
if data:
self.cache[keyname] = data.content
self._set_memcache()
return pickle.loads(data.content)
else:
raise KeyError(str(keyname))
def __setitem__(self, keyname, value):
"""
Set item in session data.
Args:
keyname: They keyname of the mapping.
value: The value of mapping.
"""
# if type(keyname) is type(''):
# flash messages don't go in the datastore
if self.integrate_flash and (keyname == 'flash'):
self.flash.msg = value
else:
keyname = self._validate_key(keyname)
self.cache[keyname] = value
self._set_memcache()
return self._put(keyname, value)
# else:
# raise TypeError('Session data objects are only accessible by' + \
# ' string keys, not numerical indexes.')
def __delitem__(self, keyname):
"""
Delete item from session data.
Args:
keyname: The keyname of the object to delete.
"""
sessdata = self._get(keyname = keyname)
if sessdata is None:
raise KeyError(str(keyname))
sessdata.delete()
if keyname in self.cache:
del self.cache[keyname]
self._set_memcache()
def __len__(self):
"""
Return size of session.
"""
# check memcache first
mc = memcache.get('sid-'+str(self.session.key()))
if mc is not None:
return len(mc)
results = self._get()
return len(results)
def __contains__(self, keyname):
"""
Check if an item is in the session data.
Args:
keyname: The keyname being searched.
"""
try:
r = self.__getitem__(keyname)
except KeyError:
return False
return True
def __iter__(self):
"""
Iterate over the keys in the session data.
"""
# try memcache first
mc = memcache.get('sid-'+str(self.session.key()))
if mc is not None:
for k in mc:
yield k
else:
for k in self._get():
yield k.keyname
def __str__(self):
"""
Return string representation.
"""
return ', '.join(['("%s" = "%s")' % (k, self[k]) for k in self])
def _set_memcache(self):
"""
Set a memcache object with all the session date. Optionally you can
add a key and value to the memcache for put operations.
"""
# Pull directly from the datastore in order to ensure that the
# information is as up to date as possible.
data = {}
sessiondata = self._get()
if sessiondata is not None:
for sd in sessiondata:
data[sd.keyname] = pickle.loads(sd.content)
memcache.set('sid-'+str(self.session.key()), data, \
self.session_expire_time)
| [
[
8,
0,
0.028,
0.0539,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.0602,
0.0021,
0,
0.66,
0.0455,
688,
0,
1,
0,
0,
688,
0,
0
],
[
1,
0,
0.0622,
0.0021,
0,
0.66,... | [
"\"\"\"\nCopyright (c) 2008, appengine-utilities project\nAll rights reserved.\n\nRedistribution and use in source and binary forms, with or without\nmodification, are permitted provided that the following conditions are met:\n- Redistributions of source code must retain the above copyright notice, this\n list of ... |
#!/usr/bin/python
# -*- coding: utf-8 -*-
##
# (C) Copyright 2011 Jose Blanco <jose.blanco[a]vikuit.com>
#
# This file is part of "vikuit".
#
# "vikuit" is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# "vikuit" is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Affero General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with "vikuit". If not, see <http://www.gnu.org/licenses/>.
##
def loadProperties(fileName):
propFile = file(fileName, "rU" )
propDict = dict()
for propLine in propFile:
propDef = propLine.strip()
if len(propDef) == 0:
continue
if propDef[0] in ( '!', '#' ):
continue
punctuation = [ propDef.find(c) for c in ':= ' ] + [ len(propDef) ]
found = min( [ pos for pos in punctuation if pos != -1 ] )
name = propDef[:found].rstrip()
value = propDef[found:].lstrip(":= ").rstrip()
propDict[name] = value
propFile.close()
return propDict | [
[
2,
0,
0.7973,
0.4324,
0,
0.66,
0,
366,
0,
1,
1,
0,
0,
0,
11
],
[
14,
1,
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1,
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0,
496,
3,
2,
0,
0,
107,
10,
1
],
[
14,
1,
0.6486,
0.027,
1,
0.25,... | [
"def loadProperties(fileName):\n propFile = file(fileName, \"rU\" )\n propDict = dict()\n for propLine in propFile:\n propDef = propLine.strip()\n if len(propDef) == 0:\n continue\n if propDef[0] in ( '!', '#' ):",
" propFile = file(fileName, \"rU\" )",
" propDict ... |
"""
Copyright (c) 2008, appengine-utilities project
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
- Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
- Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
- Neither the name of the appengine-utilities project nor the names of its
contributors may be used to endorse or promote products derived from this
software without specific prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
(INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
(INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
"""
import __main__
class Event(object):
"""
Event is a simple publish/subscribe based event dispatcher
It sets itself to the __main__ function. In order to use it,
you must import it and __main__
"""
def __init__(self):
self.events = []
def subscribe(self, event, callback, args = None):
"""
This method will subscribe a callback function to an event name.
"""
if not {"event": event, "callback": callback, "args": args, } \
in self.events:
self.events.append({"event": event, "callback": callback, \
"args": args, })
def unsubscribe(self, event, callback, args = None):
"""
This method will unsubscribe a callback from an event.
"""
if {"event": event, "callback": callback, "args": args, }\
in self.events:
self.events.remove({"event": event, "callback": callback,\
"args": args, })
def fire_event(self, event = None):
"""
This method is what a method uses to fire an event,
initiating all registered callbacks
"""
for e in self.events:
if e["event"] == event:
if type(e["args"]) == type([]):
e["callback"](*e["args"])
elif type(e["args"]) == type({}):
e["callback"](**e["args"])
elif e["args"] == None:
e["callback"]()
else:
e["callback"](e["args"])
"""
Assign to the event class to __main__
"""
__main__.AEU_Events = Event()
| [
[
8,
0,
0.1776,
0.3421,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.3553,
0.0132,
0,
0.66,
0.25,
593,
0,
1,
0,
0,
593,
0,
0
],
[
3,
0,
0.6711,
0.5658,
0,
0.66,
... | [
"\"\"\"\nCopyright (c) 2008, appengine-utilities project\nAll rights reserved.\n\nRedistribution and use in source and binary forms, with or without\nmodification, are permitted provided that the following conditions are met:\n- Redistributions of source code must retain the above copyright notice, this\n list of ... |
"""
Copyright (c) 2008, appengine-utilities project
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
- Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
- Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
- Neither the name of the appengine-utilities project nor the names of its
contributors may be used to endorse or promote products derived from this
software without specific prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
(INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
(INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
"""
import os
import Cookie
import pickle
COOKIE_NAME = 'appengine-utilities-flash'
class Flash(object):
"""
Send messages to the user between pages.
When you instantiate the class, the attribute 'msg' will be set from the
cookie, and the cookie will be deleted. If there is no flash cookie, 'msg'
will default to None.
To set a flash message for the next page, simply set the 'msg' attribute.
Example psuedocode:
if new_entity.put():
flash = Flash()
flash.msg = 'Your new entity has been created!'
return redirect_to_entity_list()
Then in the template on the next page:
{% if flash.msg %}
<div class="flash-msg">{{ flash.msg }}</div>
{% endif %}
"""
def __init__(self, cookie=None):
"""
Load the flash message and clear the cookie.
"""
# load cookie
if cookie is None:
browser_cookie = os.environ.get('HTTP_COOKIE', '')
self.cookie = Cookie.SimpleCookie()
self.cookie.load(browser_cookie)
else:
self.cookie = cookie
# check for flash data
if self.cookie.get(COOKIE_NAME):
# set 'msg' attribute
cookie_val = self.cookie[COOKIE_NAME].value
# we don't want to trigger __setattr__(), which creates a cookie
self.__dict__['msg'] = pickle.loads(cookie_val)
# clear the cookie
self.cookie[COOKIE_NAME] = ''
self.cookie[COOKIE_NAME]['path'] = '/'
self.cookie[COOKIE_NAME]['expires'] = 0
print self.cookie
else:
# default 'msg' attribute to None
self.__dict__['msg'] = None
def __setattr__(self, name, value):
"""
Create a cookie when setting the 'msg' attribute.
"""
if name == 'cookie':
self.__dict__['cookie'] = value
elif name == 'msg':
self.__dict__['msg'] = value
self.__dict__['cookie'][COOKIE_NAME] = pickle.dumps(value)
self.__dict__['cookie'][COOKIE_NAME]['path'] = '/'
print self.cookie
else:
raise ValueError('You can only set the "msg" attribute.')
| [
[
8,
0,
0.1392,
0.268,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.2887,
0.0103,
0,
0.66,
0.2,
688,
0,
1,
0,
0,
688,
0,
0
],
[
1,
0,
0.299,
0.0103,
0,
0.66,
... | [
"\"\"\"\nCopyright (c) 2008, appengine-utilities project\nAll rights reserved.\n\nRedistribution and use in source and binary forms, with or without\nmodification, are permitted provided that the following conditions are met:\n- Redistributions of source code must retain the above copyright notice, this\n list of ... |
#!/usr/bin/python
# -*- coding: utf-8 -*-
##
# (C) Copyright 2011 Jose Blanco <jose.blanco[a]vikuit.com>
#
# This file is part of "vikuit".
#
# "vikuit" is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# "vikuit" is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Affero General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with "vikuit". If not, see <http://www.gnu.org/licenses/>.
##
import model
import PropertiesUtil
import Constant
from google.appengine.api import memcache
class AppProperties (object):
__instance = None
__appDic = None
__env = None
def __new__(cls, *args, **kargs):
if cls.__instance is None:
cls.__instance = object.__new__(cls, *args, **kargs)
return cls.__instance
'''
Gets application properties
'''
def getAppDic(self):
if self.__appDic is None:
self.__appDic = PropertiesUtil.loadProperties(r"conf/application.properties")
return self.__appDic
'''
Gets Jinja Environment
'''
def getJinjaEnv(self):
import os
import gettext
from jinja2 import Template, Environment, FileSystemLoader
if self.__env is None:
self.__env = Environment(loader=FileSystemLoader(os.path.join(os.path.dirname(__file__), '..', 'templates' )), extensions=['jinja2.ext.i18n'])##MOD
'''self.__env.filters['relativize'] = self.relativize
self.__env.filters['markdown'] = self.markdown
self.__env.filters['smiley'] = self.smiley
self.__env.filters['pagination'] = self.pagination
self.__env.filters['media'] = self.media_content
self.__env.filters['quote'] = self.quote'''
######################################################################################
# i18n configuration
# Added: mo and po files
# Mdofied: handlers and templates
######################################################################################
locale = ''
try :
locale = self.get_application().locale
if locale is None or locale == "" :
locale = Constant.DEFAULT_LOCALE
except:
locale = Constant.DEFAULT_LOCALE
domain = 'django'
localeDir = 'conf/locale'
localeCodeset = 'UTF-8'
langs=[locale]#, 'ca_ES', 'es']#'es',
#os.environ["LANGUAGE"] = "en"
translations = gettext.translation(domain, localeDir, languages=langs) #GNUTranslations
#env = Environment(extensions=['jinja2.ext.i18n'])
self.__env.install_gettext_translations(translations)
gettext.textdomain(domain)
gettext.bindtextdomain(gettext._current_domain, localeDir)
gettext.bind_textdomain_codeset(gettext._current_domain, localeCodeset)
#self.__env.shared = True
return self.__env
def updateJinjaEnv(self):
self.__env = None
self.getJinjaEnv()
def getAccountProvider(self, regType = 0):
if regType is None or regType == 0:# Local
return self.get_application().name
elif regType == 1:
return "Google"
return ""
#Dup
def get_application(self):
app = memcache.get('app')
if app is not None:
# logging.debug('%s is already in the cache' % key)
return app
else:
app = model.Application.all().get()
# logging.debug('inserting %s in the cache' % key)
memcache.add('app', app, 0)
return app
| [
[
1,
0,
0.2018,
0.0092,
0,
0.66,
0,
722,
0,
1,
0,
0,
722,
0,
0
],
[
1,
0,
0.211,
0.0092,
0,
0.66,
0.25,
123,
0,
1,
0,
0,
123,
0,
0
],
[
1,
0,
0.2202,
0.0092,
0,
0.6... | [
"import model",
"import PropertiesUtil",
"import Constant",
"from google.appengine.api import memcache",
"class AppProperties (object):\n __instance = None\n __appDic = None\n __env = None\n\n def __new__(cls, *args, **kargs): \n if cls.__instance is None:\n cls.__instance = ob... |
#!/usr/bin/env python
version = "1.7"
version_info = (1,7,0,"rc-2")
__revision__ = "$Rev: 72 $"
"""
Python-Markdown
===============
Converts Markdown to HTML. Basic usage as a module:
import markdown
md = Markdown()
html = md.convert(your_text_string)
See http://www.freewisdom.org/projects/python-markdown/ for more
information and instructions on how to extend the functionality of the
script. (You might want to read that before you try modifying this
file.)
Started by [Manfred Stienstra](http://www.dwerg.net/). Continued and
maintained by [Yuri Takhteyev](http://www.freewisdom.org) and [Waylan
Limberg](http://achinghead.com/).
Contact: yuri [at] freewisdom.org
waylan [at] gmail.com
License: GPL 2 (http://www.gnu.org/copyleft/gpl.html) or BSD
"""
import re, sys, codecs
from logging import getLogger, StreamHandler, Formatter, \
DEBUG, INFO, WARN, ERROR, CRITICAL
MESSAGE_THRESHOLD = CRITICAL
# Configure debug message logger (the hard way - to support python 2.3)
logger = getLogger('MARKDOWN')
logger.setLevel(DEBUG) # This is restricted by handlers later
console_hndlr = StreamHandler()
formatter = Formatter('%(name)s-%(levelname)s: "%(message)s"')
console_hndlr.setFormatter(formatter)
console_hndlr.setLevel(MESSAGE_THRESHOLD)
logger.addHandler(console_hndlr)
def message(level, text):
''' A wrapper method for logging debug messages. '''
# logger.log(level, text)
foo = ''
# --------------- CONSTANTS YOU MIGHT WANT TO MODIFY -----------------
TAB_LENGTH = 4 # expand tabs to this many spaces
ENABLE_ATTRIBUTES = True # @id = xyz -> <... id="xyz">
SMART_EMPHASIS = 1 # this_or_that does not become this<i>or</i>that
HTML_REMOVED_TEXT = "[HTML_REMOVED]" # text used instead of HTML in safe mode
RTL_BIDI_RANGES = ( (u'\u0590', u'\u07FF'),
# from Hebrew to Nko (includes Arabic, Syriac and Thaana)
(u'\u2D30', u'\u2D7F'),
# Tifinagh
)
# Unicode Reference Table:
# 0590-05FF - Hebrew
# 0600-06FF - Arabic
# 0700-074F - Syriac
# 0750-077F - Arabic Supplement
# 0780-07BF - Thaana
# 07C0-07FF - Nko
BOMS = { 'utf-8': (codecs.BOM_UTF8, ),
'utf-16': (codecs.BOM_UTF16_LE, codecs.BOM_UTF16_BE),
#'utf-32': (codecs.BOM_UTF32_LE, codecs.BOM_UTF32_BE)
}
def removeBOM(text, encoding):
convert = isinstance(text, unicode)
for bom in BOMS[encoding]:
bom = convert and bom.decode(encoding) or bom
if text.startswith(bom):
return text.lstrip(bom)
return text
# The following constant specifies the name used in the usage
# statement displayed for python versions lower than 2.3. (With
# python2.3 and higher the usage statement is generated by optparse
# and uses the actual name of the executable called.)
EXECUTABLE_NAME_FOR_USAGE = "python markdown.py"
# --------------- CONSTANTS YOU _SHOULD NOT_ HAVE TO CHANGE ----------
# a template for html placeholders
HTML_PLACEHOLDER_PREFIX = "qaodmasdkwaspemas"
HTML_PLACEHOLDER = HTML_PLACEHOLDER_PREFIX + "%dajkqlsmdqpakldnzsdfls"
BLOCK_LEVEL_ELEMENTS = ['p', 'div', 'blockquote', 'pre', 'table',
'dl', 'ol', 'ul', 'script', 'noscript',
'form', 'fieldset', 'iframe', 'math', 'ins',
'del', 'hr', 'hr/', 'style']
def isBlockLevel (tag):
return ( (tag in BLOCK_LEVEL_ELEMENTS) or
(tag[0] == 'h' and tag[1] in "0123456789") )
"""
======================================================================
========================== NANODOM ===================================
======================================================================
The three classes below implement some of the most basic DOM
methods. I use this instead of minidom because I need a simpler
functionality and do not want to require additional libraries.
Importantly, NanoDom does not do normalization, which is what we
want. It also adds extra white space when converting DOM to string
"""
ENTITY_NORMALIZATION_EXPRESSIONS = [ (re.compile("&"), "&"),
(re.compile("<"), "<"),
(re.compile(">"), ">")]
ENTITY_NORMALIZATION_EXPRESSIONS_SOFT = [ (re.compile("&(?!\#)"), "&"),
(re.compile("<"), "<"),
(re.compile(">"), ">"),
(re.compile("\""), """)]
def getBidiType(text):
if not text: return None
ch = text[0]
if not isinstance(ch, unicode) or not ch.isalpha():
return None
else:
for min, max in RTL_BIDI_RANGES:
if ( ch >= min and ch <= max ):
return "rtl"
else:
return "ltr"
class Document:
def __init__ (self):
self.bidi = "ltr"
def appendChild(self, child):
self.documentElement = child
child.isDocumentElement = True
child.parent = self
self.entities = {}
def setBidi(self, bidi):
if bidi:
self.bidi = bidi
def createElement(self, tag, textNode=None):
el = Element(tag)
el.doc = self
if textNode:
el.appendChild(self.createTextNode(textNode))
return el
def createTextNode(self, text):
node = TextNode(text)
node.doc = self
return node
def createEntityReference(self, entity):
if entity not in self.entities:
self.entities[entity] = EntityReference(entity)
return self.entities[entity]
def createCDATA(self, text):
node = CDATA(text)
node.doc = self
return node
def toxml (self):
return self.documentElement.toxml()
def normalizeEntities(self, text, avoidDoubleNormalizing=False):
if avoidDoubleNormalizing:
regexps = ENTITY_NORMALIZATION_EXPRESSIONS_SOFT
else:
regexps = ENTITY_NORMALIZATION_EXPRESSIONS
for regexp, substitution in regexps:
text = regexp.sub(substitution, text)
return text
def find(self, test):
return self.documentElement.find(test)
def unlink(self):
self.documentElement.unlink()
self.documentElement = None
class CDATA:
type = "cdata"
def __init__ (self, text):
self.text = text
def handleAttributes(self):
pass
def toxml (self):
return "<![CDATA[" + self.text + "]]>"
class Element:
type = "element"
def __init__ (self, tag):
self.nodeName = tag
self.attributes = []
self.attribute_values = {}
self.childNodes = []
self.bidi = None
self.isDocumentElement = False
def setBidi(self, bidi):
if bidi:
orig_bidi = self.bidi
if not self.bidi or self.isDocumentElement:
# Once the bidi is set don't change it (except for doc element)
self.bidi = bidi
self.parent.setBidi(bidi)
def unlink(self):
for child in self.childNodes:
if child.type == "element":
child.unlink()
self.childNodes = None
def setAttribute(self, attr, value):
if not attr in self.attributes:
self.attributes.append(attr)
self.attribute_values[attr] = value
def insertChild(self, position, child):
self.childNodes.insert(position, child)
child.parent = self
def removeChild(self, child):
self.childNodes.remove(child)
def replaceChild(self, oldChild, newChild):
position = self.childNodes.index(oldChild)
self.removeChild(oldChild)
self.insertChild(position, newChild)
def appendChild(self, child):
self.childNodes.append(child)
child.parent = self
def handleAttributes(self):
pass
def find(self, test, depth=0):
""" Returns a list of descendants that pass the test function """
matched_nodes = []
for child in self.childNodes:
if test(child):
matched_nodes.append(child)
if child.type == "element":
matched_nodes += child.find(test, depth+1)
return matched_nodes
def toxml(self):
if ENABLE_ATTRIBUTES:
for child in self.childNodes:
child.handleAttributes()
buffer = ""
if self.nodeName in ['h1', 'h2', 'h3', 'h4']:
buffer += "\n"
elif self.nodeName in ['li']:
buffer += "\n "
# Process children FIRST, then do the attributes
childBuffer = ""
if self.childNodes or self.nodeName in ['blockquote']:
childBuffer += ">"
for child in self.childNodes:
childBuffer += child.toxml()
if self.nodeName == 'p':
childBuffer += "\n"
elif self.nodeName == 'li':
childBuffer += "\n "
childBuffer += "</%s>" % self.nodeName
else:
childBuffer += "/>"
buffer += "<" + self.nodeName
if self.nodeName in ['p', 'li', 'ul', 'ol',
'h1', 'h2', 'h3', 'h4', 'h5', 'h6']:
if not self.attribute_values.has_key("dir"):
if self.bidi:
bidi = self.bidi
else:
bidi = self.doc.bidi
if bidi=="rtl":
self.setAttribute("dir", "rtl")
for attr in self.attributes:
value = self.attribute_values[attr]
value = self.doc.normalizeEntities(value,
avoidDoubleNormalizing=True)
buffer += ' %s="%s"' % (attr, value)
# Now let's actually append the children
buffer += childBuffer
if self.nodeName in ['p', 'br ', 'li', 'ul', 'ol',
'h1', 'h2', 'h3', 'h4'] :
buffer += "\n"
return buffer
class TextNode:
type = "text"
attrRegExp = re.compile(r'\{@([^\}]*)=([^\}]*)}') # {@id=123}
def __init__ (self, text):
self.value = text
def attributeCallback(self, match):
self.parent.setAttribute(match.community(1), match.community(2))
def handleAttributes(self):
self.value = self.attrRegExp.sub(self.attributeCallback, self.value)
def toxml(self):
text = self.value
self.parent.setBidi(getBidiType(text))
if not text.startswith(HTML_PLACEHOLDER_PREFIX):
if self.parent.nodeName == "p":
text = text.replace("\n", "\n ")
elif (self.parent.nodeName == "li"
and self.parent.childNodes[0]==self):
text = "\n " + text.replace("\n", "\n ")
text = self.doc.normalizeEntities(text)
return text
class EntityReference:
type = "entity_ref"
def __init__(self, entity):
self.entity = entity
def handleAttributes(self):
pass
def toxml(self):
return "&" + self.entity + ";"
"""
======================================================================
========================== PRE-PROCESSORS ============================
======================================================================
Preprocessors munge source text before we start doing anything too
complicated.
There are two types of preprocessors: TextPreprocessor and Preprocessor.
"""
class TextPreprocessor:
'''
TextPreprocessors are run before the text is broken into lines.
Each TextPreprocessor implements a "run" method that takes a pointer to a
text string of the document, modifies it as necessary and returns
either the same pointer or a pointer to a new string.
TextPreprocessors must extend markdown.TextPreprocessor.
'''
def run(self, text):
pass
class Preprocessor:
'''
Preprocessors are run after the text is broken into lines.
Each preprocessor implements a "run" method that takes a pointer to a
list of lines of the document, modifies it as necessary and returns
either the same pointer or a pointer to a new list.
Preprocessors must extend markdown.Preprocessor.
'''
def run(self, lines):
pass
class HtmlBlockPreprocessor(TextPreprocessor):
"""Removes html blocks from the source text and stores it."""
def _get_left_tag(self, block):
return block[1:].replace(">", " ", 1).split()[0].lower()
def _get_right_tag(self, left_tag, block):
return block.rstrip()[-len(left_tag)-2:-1].lower()
def _equal_tags(self, left_tag, right_tag):
if left_tag == 'div' or left_tag[0] in ['?', '@', '%']: # handle PHP, etc.
return True
if ("/" + left_tag) == right_tag:
return True
if (right_tag == "--" and left_tag == "--"):
return True
elif left_tag == right_tag[1:] \
and right_tag[0] != "<":
return True
else:
return False
def _is_oneliner(self, tag):
return (tag in ['hr', 'hr/'])
def run(self, text):
new_blocks = []
text = text.split("\n\n")
articles = []
left_tag = ''
right_tag = ''
in_tag = False # flag
for block in text:
if block.startswith("\n"):
block = block[1:]
if not in_tag:
if block.startswith("<"):
left_tag = self._get_left_tag(block)
right_tag = self._get_right_tag(left_tag, block)
if not (isBlockLevel(left_tag) \
or block[1] in ["!", "?", "@", "%"]):
new_blocks.append(block)
continue
if self._is_oneliner(left_tag):
new_blocks.append(block.strip())
continue
if block[1] == "!":
# is a comment block
left_tag = "--"
right_tag = self._get_right_tag(left_tag, block)
# keep checking conditions below and maybe just append
if block.rstrip().endswith(">") \
and self._equal_tags(left_tag, right_tag):
new_blocks.append(
self.stash.store(block.strip()))
continue
else: #if not block[1] == "!":
# if is block level tag and is not complete
articles.append(block.strip())
in_tag = True
continue
new_blocks.append(block)
else:
articles.append(block.strip())
right_tag = self._get_right_tag(left_tag, block)
if self._equal_tags(left_tag, right_tag):
# if find closing tag
in_tag = False
new_blocks.append(
self.stash.store('\n\n'.join(articles)))
articles = []
if articles:
new_blocks.append(self.stash.store('\n\n'.join(articles)))
new_blocks.append('\n')
return "\n\n".join(new_blocks)
HTML_BLOCK_PREPROCESSOR = HtmlBlockPreprocessor()
class HeaderPreprocessor(Preprocessor):
"""
Replaces underlined headers with hashed headers to avoid
the nead for lookahead later.
"""
def run (self, lines):
i = -1
while i+1 < len(lines):
i = i+1
if not lines[i].strip():
continue
if lines[i].startswith("#"):
lines.insert(i+1, "\n")
if (i+1 <= len(lines)
and lines[i+1]
and lines[i+1][0] in ['-', '=']):
underline = lines[i+1].strip()
if underline == "="*len(underline):
lines[i] = "# " + lines[i].strip()
lines[i+1] = ""
elif underline == "-"*len(underline):
lines[i] = "## " + lines[i].strip()
lines[i+1] = ""
return lines
HEADER_PREPROCESSOR = HeaderPreprocessor()
class LinePreprocessor(Preprocessor):
"""Deals with HR lines (needs to be done before processing lists)"""
blockquote_re = re.compile(r'^(> )+')
def run (self, lines):
for i in range(len(lines)):
prefix = ''
m = self.blockquote_re.search(lines[i])
if m : prefix = m.community(0)
if self._isLine(lines[i][len(prefix):]):
lines[i] = prefix + self.stash.store("<hr />", safe=True)
return lines
def _isLine(self, block):
"""Determines if a block should be replaced with an <HR>"""
if block.startswith(" "): return 0 # a code block
text = "".join([x for x in block if not x.isspace()])
if len(text) <= 2:
return 0
for pattern in ['isline1', 'isline2', 'isline3']:
m = RE.regExp[pattern].match(text)
if (m and m.community(1)):
return 1
else:
return 0
LINE_PREPROCESSOR = LinePreprocessor()
class ReferencePreprocessor(Preprocessor):
'''
Removes reference definitions from the text and stores them for later use.
'''
def run (self, lines):
new_text = [];
for line in lines:
m = RE.regExp['reference-def'].match(line)
if m:
id = m.community(2).strip().lower()
t = m.community(4).strip() # potential title
if not t:
self.references[id] = (m.community(3), t)
elif (len(t) >= 2
and (t[0] == t[-1] == "\""
or t[0] == t[-1] == "\'"
or (t[0] == "(" and t[-1] == ")") ) ):
self.references[id] = (m.community(3), t[1:-1])
else:
new_text.append(line)
else:
new_text.append(line)
return new_text #+ "\n"
REFERENCE_PREPROCESSOR = ReferencePreprocessor()
"""
======================================================================
========================== INLINE PATTERNS ===========================
======================================================================
Inline patterns such as *emphasis* are handled by means of auxiliary
objects, one per pattern. Pattern objects must be instances of classes
that extend markdown.Pattern. Each pattern object uses a single regular
expression and needs support the following methods:
pattern.getCompiledRegExp() - returns a regular expression
pattern.handleMatch(m, doc) - takes a match object and returns
a NanoDom node (as a part of the provided
doc) or None
All of python markdown's built-in patterns subclass from Patter,
but you can add additional patterns that don't.
Also note that all the regular expressions used by inline must
capture the whole block. For this reason, they all start with
'^(.*)' and end with '(.*)!'. In case with built-in expression
Pattern takes care of adding the "^(.*)" and "(.*)!".
Finally, the order in which regular expressions are applied is very
important - e.g. if we first replace http://.../ links with <a> tags
and _then_ try to replace inline html, we would end up with a mess.
So, we apply the expressions in the following order:
* escape and backticks have to go before everything else, so
that we can preempt any markdown patterns by escaping them.
* then we handle auto-links (must be done before inline html)
* then we handle inline HTML. At this point we will simply
replace all inline HTML strings with a placeholder and add
the actual HTML to a hash.
* then inline images (must be done before links)
* then bracketed links, first regular then reference-style
* finally we apply strong and emphasis
"""
NOBRACKET = r'[^\]\[]*'
BRK = ( r'\[('
+ (NOBRACKET + r'(\[')*6
+ (NOBRACKET+ r'\])*')*6
+ NOBRACKET + r')\]' )
NOIMG = r'(?<!\!)'
BACKTICK_RE = r'\`([^\`]*)\`' # `e= m*c^2`
DOUBLE_BACKTICK_RE = r'\`\`(.*)\`\`' # ``e=f("`")``
ESCAPE_RE = r'\\(.)' # \<
EMPHASIS_RE = r'\*([^\*]*)\*' # *emphasis*
STRONG_RE = r'\*\*(.*)\*\*' # **strong**
STRONG_EM_RE = r'\*\*\*([^_]*)\*\*\*' # ***strong***
if SMART_EMPHASIS:
EMPHASIS_2_RE = r'(?<!\S)_(\S[^_]*)_' # _emphasis_
else:
EMPHASIS_2_RE = r'_([^_]*)_' # _emphasis_
STRONG_2_RE = r'__([^_]*)__' # __strong__
STRONG_EM_2_RE = r'___([^_]*)___' # ___strong___
LINK_RE = NOIMG + BRK + r'\s*\(([^\)]*)\)' # [text](url)
LINK_ANGLED_RE = NOIMG + BRK + r'\s*\(<([^\)]*)>\)' # [text](<url>)
IMAGE_LINK_RE = r'\!' + BRK + r'\s*\(([^\)]*)\)' # 
REFERENCE_RE = NOIMG + BRK+ r'\s*\[([^\]]*)\]' # [Google][3]
IMAGE_REFERENCE_RE = r'\!' + BRK + '\s*\[([^\]]*)\]' # ![alt text][2]
NOT_STRONG_RE = r'( \* )' # stand-alone * or _
AUTOLINK_RE = r'<(http://[^>]*)>' # <http://www.123.com>
AUTOMAIL_RE = r'<([^> \!]*@[^> ]*)>' # <me@example.com>
#HTML_RE = r'(\<[^\>]*\>)' # <...>
HTML_RE = r'(\<[a-zA-Z/][^\>]*\>)' # <...>
ENTITY_RE = r'(&[\#a-zA-Z0-9]*;)' # &
LINE_BREAK_RE = r' \n' # two spaces at end of line
LINE_BREAK_2_RE = r' $' # two spaces at end of text
class Pattern:
def __init__ (self, pattern):
self.pattern = pattern
self.compiled_re = re.compile("^(.*)%s(.*)$" % pattern, re.DOTALL)
def getCompiledRegExp (self):
return self.compiled_re
BasePattern = Pattern # for backward compatibility
class SimpleTextPattern (Pattern):
def handleMatch(self, m, doc):
return doc.createTextNode(m.community(2))
class SimpleTagPattern (Pattern):
def __init__ (self, pattern, tag):
Pattern.__init__(self, pattern)
self.tag = tag
def handleMatch(self, m, doc):
el = doc.createElement(self.tag)
el.appendChild(doc.createTextNode(m.community(2)))
return el
class SubstituteTagPattern (SimpleTagPattern):
def handleMatch (self, m, doc):
return doc.createElement(self.tag)
class BacktickPattern (Pattern):
def __init__ (self, pattern):
Pattern.__init__(self, pattern)
self.tag = "code"
def handleMatch(self, m, doc):
el = doc.createElement(self.tag)
text = m.community(2).strip()
#text = text.replace("&", "&")
el.appendChild(doc.createTextNode(text))
return el
class DoubleTagPattern (SimpleTagPattern):
def handleMatch(self, m, doc):
tag1, tag2 = self.tag.split(",")
el1 = doc.createElement(tag1)
el2 = doc.createElement(tag2)
el1.appendChild(el2)
el2.appendChild(doc.createTextNode(m.community(2)))
return el1
class HtmlPattern (Pattern):
def handleMatch (self, m, doc):
rawhtml = m.community(2)
inline = True
place_holder = self.stash.store(rawhtml)
return doc.createTextNode(place_holder)
class LinkPattern (Pattern):
def handleMatch(self, m, doc):
el = doc.createElement('a')
el.appendChild(doc.createTextNode(m.community(2)))
parts = m.community(9).split('"')
# We should now have [], [href], or [href, title]
if parts:
el.setAttribute('href', parts[0].strip())
else:
el.setAttribute('href', "")
if len(parts) > 1:
# we also got a title
title = '"' + '"'.join(parts[1:]).strip()
title = dequote(title) #.replace('"', """)
el.setAttribute('title', title)
return el
class ImagePattern (Pattern):
def handleMatch(self, m, doc):
el = doc.createElement('img')
src_parts = m.community(9).split()
if src_parts:
el.setAttribute('src', src_parts[0])
else:
el.setAttribute('src', "")
if len(src_parts) > 1:
el.setAttribute('title', dequote(" ".join(src_parts[1:])))
if ENABLE_ATTRIBUTES:
text = doc.createTextNode(m.community(2))
el.appendChild(text)
text.handleAttributes()
truealt = text.value
el.childNodes.remove(text)
else:
truealt = m.community(2)
el.setAttribute('alt', truealt)
return el
class ReferencePattern (Pattern):
def handleMatch(self, m, doc):
if m.community(9):
id = m.community(9).lower()
else:
# if we got something like "[Google][]"
# we'll use "google" as the id
id = m.community(2).lower()
if not self.references.has_key(id): # ignore undefined refs
return None
href, title = self.references[id]
text = m.community(2)
return self.makeTag(href, title, text, doc)
def makeTag(self, href, title, text, doc):
el = doc.createElement('a')
el.setAttribute('href', href)
if title:
el.setAttribute('title', title)
el.appendChild(doc.createTextNode(text))
return el
class ImageReferencePattern (ReferencePattern):
def makeTag(self, href, title, text, doc):
el = doc.createElement('img')
el.setAttribute('src', href)
if title:
el.setAttribute('title', title)
el.setAttribute('alt', text)
return el
class AutolinkPattern (Pattern):
def handleMatch(self, m, doc):
el = doc.createElement('a')
el.setAttribute('href', m.community(2))
el.appendChild(doc.createTextNode(m.community(2)))
return el
class AutomailPattern (Pattern):
def handleMatch(self, m, doc):
el = doc.createElement('a')
email = m.community(2)
if email.startswith("mailto:"):
email = email[len("mailto:"):]
for letter in email:
entity = doc.createEntityReference("#%d" % ord(letter))
el.appendChild(entity)
mailto = "mailto:" + email
mailto = "".join(['&#%d;' % ord(letter) for letter in mailto])
el.setAttribute('href', mailto)
return el
ESCAPE_PATTERN = SimpleTextPattern(ESCAPE_RE)
NOT_STRONG_PATTERN = SimpleTextPattern(NOT_STRONG_RE)
BACKTICK_PATTERN = BacktickPattern(BACKTICK_RE)
DOUBLE_BACKTICK_PATTERN = BacktickPattern(DOUBLE_BACKTICK_RE)
STRONG_PATTERN = SimpleTagPattern(STRONG_RE, 'strong')
STRONG_PATTERN_2 = SimpleTagPattern(STRONG_2_RE, 'strong')
EMPHASIS_PATTERN = SimpleTagPattern(EMPHASIS_RE, 'em')
EMPHASIS_PATTERN_2 = SimpleTagPattern(EMPHASIS_2_RE, 'em')
STRONG_EM_PATTERN = DoubleTagPattern(STRONG_EM_RE, 'strong,em')
STRONG_EM_PATTERN_2 = DoubleTagPattern(STRONG_EM_2_RE, 'strong,em')
LINE_BREAK_PATTERN = SubstituteTagPattern(LINE_BREAK_RE, 'br ')
LINE_BREAK_PATTERN_2 = SubstituteTagPattern(LINE_BREAK_2_RE, 'br ')
LINK_PATTERN = LinkPattern(LINK_RE)
LINK_ANGLED_PATTERN = LinkPattern(LINK_ANGLED_RE)
IMAGE_LINK_PATTERN = ImagePattern(IMAGE_LINK_RE)
IMAGE_REFERENCE_PATTERN = ImageReferencePattern(IMAGE_REFERENCE_RE)
REFERENCE_PATTERN = ReferencePattern(REFERENCE_RE)
HTML_PATTERN = HtmlPattern(HTML_RE)
ENTITY_PATTERN = HtmlPattern(ENTITY_RE)
AUTOLINK_PATTERN = AutolinkPattern(AUTOLINK_RE)
AUTOMAIL_PATTERN = AutomailPattern(AUTOMAIL_RE)
"""
======================================================================
========================== POST-PROCESSORS ===========================
======================================================================
Markdown also allows post-processors, which are similar to
preprocessors in that they need to implement a "run" method. However,
they are run after core processing.
There are two types of post-processors: Postprocessor and TextPostprocessor
"""
class Postprocessor:
'''
Postprocessors are run before the dom it converted back into text.
Each Postprocessor implements a "run" method that takes a pointer to a
NanoDom document, modifies it as necessary and returns a NanoDom
document.
Postprocessors must extend markdown.Postprocessor.
There are currently no standard post-processors, but the footnote
extension uses one.
'''
def run(self, dom):
pass
class TextPostprocessor:
'''
TextPostprocessors are run after the dom it converted back into text.
Each TextPostprocessor implements a "run" method that takes a pointer to a
text string, modifies it as necessary and returns a text string.
TextPostprocessors must extend markdown.TextPostprocessor.
'''
def run(self, text):
pass
class RawHtmlTextPostprocessor(TextPostprocessor):
def __init__(self):
pass
def run(self, text):
for i in range(self.stash.html_counter):
html, safe = self.stash.rawHtmlBlocks[i]
if self.safeMode and not safe:
if str(self.safeMode).lower() == 'escape':
html = self.escape(html)
elif str(self.safeMode).lower() == 'remove':
html = ''
else:
html = HTML_REMOVED_TEXT
text = text.replace("<p>%s\n</p>" % (HTML_PLACEHOLDER % i),
html + "\n")
text = text.replace(HTML_PLACEHOLDER % i, html)
return text
def escape(self, html):
''' Basic html escaping '''
html = html.replace('&', '&')
html = html.replace('<', '<')
html = html.replace('>', '>')
return html.replace('"', '"')
RAWHTMLTEXTPOSTPROCESSOR = RawHtmlTextPostprocessor()
"""
======================================================================
========================== MISC AUXILIARY CLASSES ====================
======================================================================
"""
class HtmlStash:
"""This class is used for stashing HTML objects that we extract
in the beginning and replace with place-holders."""
def __init__ (self):
self.html_counter = 0 # for counting inline html segments
self.rawHtmlBlocks=[]
def store(self, html, safe=False):
"""Saves an HTML segment for later reinsertion. Returns a
placeholder string that needs to be inserted into the
document.
@param html: an html segment
@param safe: label an html segment as safe for safemode
@param inline: label a segmant as inline html
@returns : a placeholder string """
self.rawHtmlBlocks.append((html, safe))
placeholder = HTML_PLACEHOLDER % self.html_counter
self.html_counter += 1
return placeholder
class BlockGuru:
def _findHead(self, lines, fn, allowBlank=0):
"""Functional magic to help determine boundaries of indented
blocks.
@param lines: an array of strings
@param fn: a function that returns a substring of a string
if the string matches the necessary criteria
@param allowBlank: specifies whether it's ok to have blank
lines between matching functions
@returns: a list of post processes articles and the unused
remainder of the original list"""
articles = []
article = -1
i = 0 # to keep track of where we are
for line in lines:
if not line.strip() and not allowBlank:
return articles, lines[i:]
if not line.strip() and allowBlank:
# If we see a blank line, this _might_ be the end
i += 1
# Find the next non-blank line
for j in range(i, len(lines)):
if lines[j].strip():
next = lines[j]
break
else:
# There is no more text => this is the end
break
# Check if the next non-blank line is still a part of the list
part = fn(next)
if part:
articles.append("")
continue
else:
break # found end of the list
part = fn(line)
if part:
articles.append(part)
i += 1
continue
else:
return articles, lines[i:]
else:
i += 1
return articles, lines[i:]
def detabbed_fn(self, line):
""" An auxiliary method to be passed to _findHead """
m = RE.regExp['tabbed'].match(line)
if m:
return m.community(4)
else:
return None
def detectTabbed(self, lines):
return self._findHead(lines, self.detabbed_fn,
allowBlank = 1)
def print_error(string):
"""Print an error string to stderr"""
sys.stderr.write(string +'\n')
def dequote(string):
""" Removes quotes from around a string """
if ( ( string.startswith('"') and string.endswith('"'))
or (string.startswith("'") and string.endswith("'")) ):
return string[1:-1]
else:
return string
"""
======================================================================
========================== CORE MARKDOWN =============================
======================================================================
This stuff is ugly, so if you are thinking of extending the syntax,
see first if you can do it via pre-processors, post-processors,
inline patterns or a combination of the three.
"""
class CorePatterns:
"""This class is scheduled for removal as part of a refactoring
effort."""
patterns = {
'header': r'(#*)([^#]*)(#*)', # # A title
'reference-def': r'(\ ?\ ?\ ?)\[([^\]]*)\]:\s*([^ ]*)(.*)',
# [Google]: http://www.google.com/
'containsline': r'([-]*)$|^([=]*)', # -----, =====, etc.
'ol': r'[ ]{0,3}[\d]*\.\s+(.*)', # 1. text
'ul': r'[ ]{0,3}[*+-]\s+(.*)', # "* text"
'isline1': r'(\**)', # ***
'isline2': r'(\-*)', # ---
'isline3': r'(\_*)', # ___
'tabbed': r'((\t)|( ))(.*)', # an indented line
'quoted': r'> ?(.*)', # a quoted block ("> ...")
}
def __init__ (self):
self.regExp = {}
for key in self.patterns.keys():
self.regExp[key] = re.compile("^%s$" % self.patterns[key],
re.DOTALL)
self.regExp['containsline'] = re.compile(r'^([-]*)$|^([=]*)$', re.M)
RE = CorePatterns()
class Markdown:
""" Markdown formatter class for creating an html document from
Markdown text """
def __init__(self, source=None, # depreciated
extensions=[],
extension_configs=None,
safe_mode = False):
"""Creates a new Markdown instance.
@param source: The text in Markdown format. Depreciated!
@param extensions: A list if extensions.
@param extension-configs: Configuration setting for extensions.
@param safe_mode: Disallow raw html. """
self.source = source
if source is not None:
message(WARN, "The `source` arg of Markdown.__init__() is depreciated and will be removed in the future. Use `instance.convert(source)` instead.")
self.safeMode = safe_mode
self.blockGuru = BlockGuru()
self.registeredExtensions = []
self.stripTopLevelTags = 1
self.docType = ""
self.textPreprocessors = [HTML_BLOCK_PREPROCESSOR]
self.preprocessors = [HEADER_PREPROCESSOR,
LINE_PREPROCESSOR,
# A footnote preprocessor will
# get inserted here
REFERENCE_PREPROCESSOR]
self.postprocessors = [] # a footnote postprocessor will get
# inserted later
self.textPostprocessors = [# a footnote postprocessor will get
# inserted here
RAWHTMLTEXTPOSTPROCESSOR]
self.prePatterns = []
self.inlinePatterns = [DOUBLE_BACKTICK_PATTERN,
BACKTICK_PATTERN,
ESCAPE_PATTERN,
REFERENCE_PATTERN,
LINK_ANGLED_PATTERN,
LINK_PATTERN,
IMAGE_LINK_PATTERN,
IMAGE_REFERENCE_PATTERN,
AUTOLINK_PATTERN,
AUTOMAIL_PATTERN,
LINE_BREAK_PATTERN_2,
LINE_BREAK_PATTERN,
HTML_PATTERN,
ENTITY_PATTERN,
NOT_STRONG_PATTERN,
STRONG_EM_PATTERN,
STRONG_EM_PATTERN_2,
STRONG_PATTERN,
STRONG_PATTERN_2,
EMPHASIS_PATTERN,
EMPHASIS_PATTERN_2
# The order of the handlers matters!!!
]
self.registerExtensions(extensions = extensions,
configs = extension_configs)
self.reset()
def registerExtensions(self, extensions, configs):
if not configs:
configs = {}
for ext in extensions:
extension_module_name = "mdx_" + ext
try:
module = __import__(extension_module_name)
except:
message(CRITICAL,
"couldn't load extension %s (looking for %s module)"
% (ext, extension_module_name) )
else:
if configs.has_key(ext):
configs_for_ext = configs[ext]
else:
configs_for_ext = []
extension = module.makeExtension(configs_for_ext)
extension.extendMarkdown(self, globals())
def registerExtension(self, extension):
""" This gets called by the extension """
self.registeredExtensions.append(extension)
def reset(self):
"""Resets all state variables so that we can start
with a new text."""
self.references={}
self.htmlStash = HtmlStash()
HTML_BLOCK_PREPROCESSOR.stash = self.htmlStash
LINE_PREPROCESSOR.stash = self.htmlStash
REFERENCE_PREPROCESSOR.references = self.references
HTML_PATTERN.stash = self.htmlStash
ENTITY_PATTERN.stash = self.htmlStash
REFERENCE_PATTERN.references = self.references
IMAGE_REFERENCE_PATTERN.references = self.references
RAWHTMLTEXTPOSTPROCESSOR.stash = self.htmlStash
RAWHTMLTEXTPOSTPROCESSOR.safeMode = self.safeMode
for extension in self.registeredExtensions:
extension.reset()
def _transform(self):
"""Transforms the Markdown text into a XHTML body document
@returns: A NanoDom Document """
# Setup the document
self.doc = Document()
self.top_element = self.doc.createElement("span")
self.top_element.appendChild(self.doc.createTextNode('\n'))
self.top_element.setAttribute('class', 'markdown')
self.doc.appendChild(self.top_element)
# Fixup the source text
text = self.source
text = text.replace("\r\n", "\n").replace("\r", "\n")
text += "\n\n"
text = text.expandtabs(TAB_LENGTH)
# Split into lines and run the preprocessors that will work with
# self.lines
self.lines = text.split("\n")
# Run the pre-processors on the lines
for prep in self.preprocessors :
self.lines = prep.run(self.lines)
# Create a NanoDom tree from the lines and attach it to Document
buffer = []
for line in self.lines:
if line.startswith("#"):
self._processSection(self.top_element, buffer)
buffer = [line]
else:
buffer.append(line)
self._processSection(self.top_element, buffer)
#self._processSection(self.top_element, self.lines)
# Not sure why I put this in but let's leave it for now.
self.top_element.appendChild(self.doc.createTextNode('\n'))
# Run the post-processors
for postprocessor in self.postprocessors:
postprocessor.run(self.doc)
return self.doc
def _processSection(self, parent_elem, lines,
inList = 0, looseList = 0):
"""Process a section of a source document, looking for high
level structural elements like lists, block quotes, code
segments, html blocks, etc. Some those then get stripped
of their high level markup (e.g. get unindented) and the
lower-level markup is processed recursively.
@param parent_elem: A NanoDom element to which the content
will be added
@param lines: a list of lines
@param inList: a level
@returns: None"""
# Loop through lines until none left.
while lines:
# Check if this section starts with a list, a blockquote or
# a code block
processFn = { 'ul': self._processUList,
'ol': self._processOList,
'quoted': self._processQuote,
'tabbed': self._processCodeBlock}
for regexp in ['ul', 'ol', 'quoted', 'tabbed']:
m = RE.regExp[regexp].match(lines[0])
if m:
processFn[regexp](parent_elem, lines, inList)
return
# We are NOT looking at one of the high-level structures like
# lists or blockquotes. So, it's just a regular paragraph
# (though perhaps nested inside a list or something else). If
# we are NOT inside a list, we just need to look for a blank
# line to find the end of the block. If we ARE inside a
# list, however, we need to consider that a sublist does not
# need to be separated by a blank line. Rather, the following
# markup is legal:
#
# * The top level list article
#
# Another paragraph of the list. This is where we are now.
# * Underneath we might have a sublist.
#
if inList:
start, lines = self._linesUntil(lines, (lambda line:
RE.regExp['ul'].match(line)
or RE.regExp['ol'].match(line)
or not line.strip()))
self._processSection(parent_elem, start,
inList - 1, looseList = looseList)
inList = inList-1
else: # Ok, so it's just a simple block
paragraph, lines = self._linesUntil(lines, lambda line:
not line.strip())
if len(paragraph) and paragraph[0].startswith('#'):
self._processHeader(parent_elem, paragraph)
elif paragraph:
self._processParagraph(parent_elem, paragraph,
inList, looseList)
if lines and not lines[0].strip():
lines = lines[1:] # skip the first (blank) line
def _processHeader(self, parent_elem, paragraph):
m = RE.regExp['header'].match(paragraph[0])
if m:
level = len(m.community(1))
h = self.doc.createElement("h%d" % level)
parent_elem.appendChild(h)
for article in self._handleInline(m.community(2).strip()):
h.appendChild(article)
else:
message(CRITICAL, "We've got a problem header!")
def _processParagraph(self, parent_elem, paragraph, inList, looseList):
list = self._handleInline("\n".join(paragraph))
if ( parent_elem.nodeName == 'li'
and not (looseList or parent_elem.childNodes)):
# If this is the first paragraph inside "li", don't
# put <p> around it - append the paragraph bits directly
# onto parent_elem
el = parent_elem
else:
# Otherwise make a "p" element
el = self.doc.createElement("p")
parent_elem.appendChild(el)
for article in list:
el.appendChild(article)
def _processUList(self, parent_elem, lines, inList):
self._processList(parent_elem, lines, inList,
listexpr='ul', tag = 'ul')
def _processOList(self, parent_elem, lines, inList):
self._processList(parent_elem, lines, inList,
listexpr='ol', tag = 'ol')
def _processList(self, parent_elem, lines, inList, listexpr, tag):
"""Given a list of document lines starting with a list article,
finds the end of the list, breaks it up, and recursively
processes each list article and the remainder of the text file.
@param parent_elem: A dom element to which the content will be added
@param lines: a list of lines
@param inList: a level
@returns: None"""
ul = self.doc.createElement(tag) # ul might actually be '<ol>'
parent_elem.appendChild(ul)
looseList = 0
# Make a list of list articles
articles = []
article = -1
i = 0 # a counter to keep track of where we are
for line in lines:
loose = 0
if not line.strip():
# If we see a blank line, this _might_ be the end of the list
i += 1
loose = 1
# Find the next non-blank line
for j in range(i, len(lines)):
if lines[j].strip():
next = lines[j]
break
else:
# There is no more text => end of the list
break
# Check if the next non-blank line is still a part of the list
if ( RE.regExp['ul'].match(next) or
RE.regExp['ol'].match(next) or
RE.regExp['tabbed'].match(next) ):
# get rid of any white space in the line
articles[article].append(line.strip())
looseList = loose or looseList
continue
else:
break # found end of the list
# Now we need to detect list articles (at the current level)
# while also detabing child elements if necessary
for expr in ['ul', 'ol', 'tabbed']:
m = RE.regExp[expr].match(line)
if m:
if expr in ['ul', 'ol']: # We are looking at a new article
#if m.community(1) :
# Removed the check to allow for a blank line
# at the beginning of the list article
articles.append([m.community(1)])
article += 1
elif expr == 'tabbed': # This line needs to be detabbed
articles[article].append(m.community(4)) #after the 'tab'
i += 1
break
else:
articles[article].append(line) # Just regular continuation
i += 1 # added on 2006.02.25
else:
i += 1
# Add the dom elements
for article in articles:
li = self.doc.createElement("li")
ul.appendChild(li)
self._processSection(li, article, inList + 1, looseList = looseList)
# Process the remaining part of the section
self._processSection(parent_elem, lines[i:], inList)
def _linesUntil(self, lines, condition):
""" A utility function to break a list of lines upon the
first line that satisfied a condition. The condition
argument should be a predicate function.
"""
i = -1
for line in lines:
i += 1
if condition(line): break
else:
i += 1
return lines[:i], lines[i:]
def _processQuote(self, parent_elem, lines, inList):
"""Given a list of document lines starting with a quote finds
the end of the quote, unindents it and recursively
processes the body of the quote and the remainder of the
text file.
@param parent_elem: DOM element to which the content will be added
@param lines: a list of lines
@param inList: a level
@returns: None """
dequoted = []
i = 0
blank_line = False # allow one blank line between paragraphs
for line in lines:
m = RE.regExp['quoted'].match(line)
if m:
dequoted.append(m.community(1))
i += 1
blank_line = False
elif not blank_line and line.strip() != '':
dequoted.append(line)
i += 1
elif not blank_line and line.strip() == '':
dequoted.append(line)
i += 1
blank_line = True
else:
break
blockquote = self.doc.createElement('blockquote')
parent_elem.appendChild(blockquote)
self._processSection(blockquote, dequoted, inList)
self._processSection(parent_elem, lines[i:], inList)
def _processCodeBlock(self, parent_elem, lines, inList):
"""Given a list of document lines starting with a code block
finds the end of the block, puts it into the dom verbatim
wrapped in ("<pre><code>") and recursively processes the
the remainder of the text file.
@param parent_elem: DOM element to which the content will be added
@param lines: a list of lines
@param inList: a level
@returns: None"""
detabbed, theRest = self.blockGuru.detectTabbed(lines)
pre = self.doc.createElement('pre')
code = self.doc.createElement('code')
parent_elem.appendChild(pre)
pre.appendChild(code)
text = "\n".join(detabbed).rstrip()+"\n"
#text = text.replace("&", "&")
code.appendChild(self.doc.createTextNode(text))
self._processSection(parent_elem, theRest, inList)
def _handleInline (self, line, patternIndex=0):
"""Transform a Markdown line with inline elements to an XHTML
fragment.
This function uses auxiliary objects called inline patterns.
See notes on inline patterns above.
@param line: A line of Markdown text
@param patternIndex: The index of the inlinePattern to start with
@return: A list of NanoDom nodes """
parts = [line]
while patternIndex < len(self.inlinePatterns):
i = 0
while i < len(parts):
x = parts[i]
if isinstance(x, (str, unicode)):
result = self._applyPattern(x, \
self.inlinePatterns[patternIndex], \
patternIndex)
if result:
i -= 1
parts.remove(x)
for y in result:
parts.insert(i+1,y)
i += 1
patternIndex += 1
for i in range(len(parts)):
x = parts[i]
if isinstance(x, (str, unicode)):
parts[i] = self.doc.createTextNode(x)
return parts
def _applyPattern(self, line, pattern, patternIndex):
""" Given a pattern name, this function checks if the line
fits the pattern, creates the necessary elements, and returns
back a list consisting of NanoDom elements and/or strings.
@param line: the text to be processed
@param pattern: the pattern to be checked
@returns: the appropriate newly created NanoDom element if the
pattern matches, None otherwise.
"""
# match the line to pattern's pre-compiled reg exp.
# if no match, move on.
m = pattern.getCompiledRegExp().match(line)
if not m:
return None
# if we got a match let the pattern make us a NanoDom node
# if it doesn't, move on
node = pattern.handleMatch(m, self.doc)
# check if any of this nodes have children that need processing
if isinstance(node, Element):
if not node.nodeName in ["code", "pre"]:
for child in node.childNodes:
if isinstance(child, TextNode):
result = self._handleInline(child.value, patternIndex+1)
if result:
if result == [child]:
continue
result.reverse()
#to make insertion easier
position = node.childNodes.index(child)
node.removeChild(child)
for article in result:
if isinstance(article, (str, unicode)):
if len(article) > 0:
node.insertChild(position,
self.doc.createTextNode(article))
else:
node.insertChild(position, article)
if node:
# Those are in the reverse order!
return ( m.communities()[-1], # the string to the left
node, # the new node
m.community(1)) # the string to the right of the match
else:
return None
def convert (self, source = None):
"""Return the document in XHTML format.
@returns: A serialized XHTML body."""
if source is not None: #Allow blank string
self.source = source
if not self.source:
return u""
try:
self.source = unicode(self.source)
except UnicodeDecodeError:
message(CRITICAL, 'UnicodeDecodeError: Markdown only accepts unicode or ascii input.')
return u""
for pp in self.textPreprocessors:
self.source = pp.run(self.source)
doc = self._transform()
xml = doc.toxml()
# Return everything but the top level tag
if self.stripTopLevelTags:
xml = xml.strip()[23:-7] + "\n"
for pp in self.textPostprocessors:
xml = pp.run(xml)
return (self.docType + xml).strip()
def __str__(self):
''' Report info about instance. Markdown always returns unicode. '''
if self.source is None:
status = 'in which no source text has been assinged.'
else:
status = 'which contains %d chars and %d line(s) of source.'%\
(len(self.source), self.source.count('\n')+1)
return 'An instance of "%s" %s'% (self.__class__, status)
__unicode__ = convert # markdown should always return a unicode string
# ====================================================================
def markdownFromFile(input = None,
output = None,
extensions = [],
encoding = None,
message_threshold = CRITICAL,
safe = False):
global console_hndlr
console_hndlr.setLevel(message_threshold)
message(DEBUG, "input file: %s" % input)
if not encoding:
encoding = "utf-8"
input_file = codecs.open(input, mode="r", encoding=encoding)
text = input_file.read()
input_file.close()
text = removeBOM(text, encoding)
new_text = markdown(text, extensions, safe_mode = safe)
if output:
output_file = codecs.open(output, "w", encoding=encoding)
output_file.write(new_text)
output_file.close()
else:
sys.stdout.write(new_text.encode(encoding))
def markdown(text,
extensions = [],
safe_mode = False):
message(DEBUG, "in markdown.markdown(), received text:\n%s" % text)
extension_names = []
extension_configs = {}
for ext in extensions:
pos = ext.find("(")
if pos == -1:
extension_names.append(ext)
else:
name = ext[:pos]
extension_names.append(name)
pairs = [x.split("=") for x in ext[pos+1:-1].split(",")]
configs = [(x.strip(), y.strip()) for (x, y) in pairs]
extension_configs[name] = configs
md = Markdown(extensions=extension_names,
extension_configs=extension_configs,
safe_mode = safe_mode)
return md.convert(text)
class Extension:
def __init__(self, configs = {}):
self.config = configs
def getConfig(self, key):
if self.config.has_key(key):
return self.config[key][0]
else:
return ""
def getConfigInfo(self):
return [(key, self.config[key][1]) for key in self.config.keys()]
def setConfig(self, key, value):
self.config[key][0] = value
OPTPARSE_WARNING = """
Python 2.3 or higher required for advanced command line options.
For lower versions of Python use:
%s INPUT_FILE > OUTPUT_FILE
""" % EXECUTABLE_NAME_FOR_USAGE
def parse_options():
try:
optparse = __import__("optparse")
except:
if len(sys.argv) == 2:
return {'input': sys.argv[1],
'output': None,
'message_threshold': CRITICAL,
'safe': False,
'extensions': [],
'encoding': None }
else:
print OPTPARSE_WARNING
return None
parser = optparse.OptionParser(usage="%prog INPUTFILE [options]")
parser.add_option("-f", "--file", dest="filename",
help="write output to OUTPUT_FILE",
metavar="OUTPUT_FILE")
parser.add_option("-e", "--encoding", dest="encoding",
help="encoding for input and output files",)
parser.add_option("-q", "--quiet", default = CRITICAL,
action="store_const", const=60, dest="verbose",
help="suppress all messages")
parser.add_option("-v", "--verbose",
action="store_const", const=INFO, dest="verbose",
help="print info messages")
parser.add_option("-s", "--safe", dest="safe", default=False,
metavar="SAFE_MODE",
help="same mode ('replace', 'remove' or 'escape' user's HTML tag)")
parser.add_option("--noisy",
action="store_const", const=DEBUG, dest="verbose",
help="print debug messages")
parser.add_option("-x", "--extension", action="append", dest="extensions",
help = "load extension EXTENSION", metavar="EXTENSION")
(options, args) = parser.parse_args()
if not len(args) == 1:
parser.print_help()
return None
else:
input_file = args[0]
if not options.extensions:
options.extensions = []
return {'input': input_file,
'output': options.filename,
'message_threshold': options.verbose,
'safe': options.safe,
'extensions': options.extensions,
'encoding': options.encoding }
if __name__ == '__main__':
""" Run Markdown from the command line. """
options = parse_options()
#if os.access(inFile, os.R_OK):
if not options:
sys.exit(0)
markdownFromFile(**options)
| [
[
14,
0,
0.0016,
0.0005,
0,
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0,
623,
1,
0,
0,
0,
0,
3,
0
],
[
14,
0,
0.0021,
0.0005,
0,
0.66,
0.0079,
342,
0,
0,
0,
0,
0,
8,
0
],
[
14,
0,
0.0026,
0.0005,
0,
0... | [
"version = \"1.7\"",
"version_info = (1,7,0,\"rc-2\")",
"__revision__ = \"$Rev: 72 $\"",
"\"\"\"\nPython-Markdown\n===============\n\nConverts Markdown to HTML. Basic usage as a module:\n\n import markdown\n md = Markdown()",
"import re, sys, codecs",
"from logging import getLogger, StreamHandler, ... |
#!/usr/bin/python
# -*- coding: utf-8 -*-
##
# (C) Copyright 2011 Jose Blanco <jose.blanco[a]vikuit.com>
#
# This file is part of "vikuit".
#
# "vikuit" is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# "vikuit" is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Affero General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with "vikuit". If not, see <http://www.gnu.org/licenses/>.
##
import wsgiref.handlers
import os
from handlers import *
from google.appengine.ext import webapp
from google.appengine.ext.webapp import template
class NotAvailable(webapp.RequestHandler):
def get(self):
self.response.clear()
self.response.set_status(501)
self.response.headers['Content-Type'] = 'text/html;charset=UTF-8'
self.response.headers['Pragma'] = 'no-cache'
self.response.headers['Cache-Control'] = 'no-cache'
self.response.headers['Expires'] = 'Sat, 1 Jan 2011 00:00:00 GMT'
self.response.out.write(template.render('static/sorry.html', {}))
def main():
application = webapp.WSGIApplication(
[('/.*', NotAvailable)],
debug=True)
wsgiref.handlers.CGIHandler().run(application)
if __name__ == "__main__":
main()
| [
[
1,
0,
0.4694,
0.0204,
0,
0.66,
0,
709,
0,
1,
0,
0,
709,
0,
0
],
[
1,
0,
0.5102,
0.0204,
0,
0.66,
0.1429,
688,
0,
1,
0,
0,
688,
0,
0
],
[
1,
0,
0.5306,
0.0204,
0,
... | [
"import wsgiref.handlers",
"import os",
"from handlers import *",
"from google.appengine.ext import webapp",
"from google.appengine.ext.webapp import template",
"class NotAvailable(webapp.RequestHandler):\n\n\tdef get(self):\n\t\tself.response.clear()\n\t\tself.response.set_status(501)\n\t\tself.response.... |
#!/usr/bin/env python
import struct
from StringIO import StringIO
from google.appengine.api import images
def resize(image, maxwidth, maxheight):
imageinfo = getimageinfo(image)
width = float(imageinfo[1])
height = float(imageinfo[2])
ratio = width / height
dwidth = maxheight * ratio
dheight = maxheight
if dwidth > maxwidth:
dwidth = maxwidth
dheight = maxwidth / ratio
return images.resize(image, int(dwidth), int(dheight))
def getimageinfo(data):
data = str(data)
size = len(data)
height = -1
width = -1
content_type = ''
# handle GIFs
if (size >= 10) and data[:6] in ('GIF87a', 'GIF89a'):
# Check to see if content_type is correct
content_type = 'image/gif'
w, h = struct.unpack("<HH", data[6:10])
width = int(w)
height = int(h)
# See PNG 2. Edition spec (http://www.w3.org/TR/PNG/)
# Bytes 0-7 are below, 4-byte chunk length, then 'IHDR'
# and finally the 4-byte width, height
elif ((size >= 24) and data.startswith('\211PNG\r\n\032\n')
and (data[12:16] == 'IHDR')):
content_type = 'image/png'
w, h = struct.unpack(">LL", data[16:24])
width = int(w)
height = int(h)
# Maybe this is for an older PNG version.
elif (size >= 16) and data.startswith('\211PNG\r\n\032\n'):
# Check to see if we have the right content type
content_type = 'image/png'
w, h = struct.unpack(">LL", data[8:16])
width = int(w)
height = int(h)
# handle JPEGs
elif (size >= 2) and data.startswith('\377\330'):
content_type = 'image/jpeg'
jpeg = StringIO(data)
jpeg.read(2)
b = jpeg.read(1)
try:
while (b and ord(b) != 0xDA):
while (ord(b) != 0xFF): b = jpeg.read
while (ord(b) == 0xFF): b = jpeg.read(1)
if (ord(b) >= 0xC0 and ord(b) <= 0xC3):
jpeg.read(3)
h, w = struct.unpack(">HH", jpeg.read(4))
break
else:
jpeg.read(int(struct.unpack(">H", jpeg.read(2))[0])-2)
b = jpeg.read(1)
width = int(w)
height = int(h)
except struct.error:
pass
except ValueError:
pass
return content_type, width, height | [
[
1,
0,
0.026,
0.013,
0,
0.66,
0,
399,
0,
1,
0,
0,
399,
0,
0
],
[
1,
0,
0.039,
0.013,
0,
0.66,
0.25,
609,
0,
1,
0,
0,
609,
0,
0
],
[
1,
0,
0.0649,
0.013,
0,
0.66,
... | [
"import struct",
"from StringIO import StringIO",
"from google.appengine.api import images",
"def resize(image, maxwidth, maxheight):\n\timageinfo = getimageinfo(image)\n\twidth = float(imageinfo[1])\n\theight = float(imageinfo[2])\n\tratio = width / height\n\t\n\tdwidth = maxheight * ratio\n\tdheight = maxhe... |
import simplejson
import cgi
class JSONFilter(object):
def __init__(self, app, mime_type='text/x-json'):
self.app = app
self.mime_type = mime_type
def __call__(self, environ, start_response):
# Read JSON POST input to jsonfilter.json if matching mime type
response = {'status': '200 OK', 'headers': []}
def json_start_response(status, headers):
response['status'] = status
response['headers'].extend(headers)
environ['jsonfilter.mime_type'] = self.mime_type
if environ.get('REQUEST_METHOD', '') == 'POST':
if environ.get('CONTENT_TYPE', '') == self.mime_type:
args = [_ for _ in [environ.get('CONTENT_LENGTH')] if _]
data = environ['wsgi.input'].read(*map(int, args))
environ['jsonfilter.json'] = simplejson.loads(data)
res = simplejson.dumps(self.app(environ, json_start_response))
jsonp = cgi.parse_qs(environ.get('QUERY_STRING', '')).get('jsonp')
if jsonp:
content_type = 'text/javascript'
res = ''.join(jsonp + ['(', res, ')'])
elif 'Opera' in environ.get('HTTP_USER_AGENT', ''):
# Opera has bunk XMLHttpRequest support for most mime types
content_type = 'text/plain'
else:
content_type = self.mime_type
headers = [
('Content-type', content_type),
('Content-length', len(res)),
]
headers.extend(response['headers'])
start_response(response['status'], headers)
return [res]
def factory(app, global_conf, **kw):
return JSONFilter(app, **kw)
| [
[
1,
0,
0.025,
0.025,
0,
0.66,
0,
386,
0,
1,
0,
0,
386,
0,
0
],
[
1,
0,
0.05,
0.025,
0,
0.66,
0.3333,
934,
0,
1,
0,
0,
934,
0,
0
],
[
3,
0,
0.5125,
0.85,
0,
0.66,
... | [
"import simplejson",
"import cgi",
"class JSONFilter(object):\n def __init__(self, app, mime_type='text/x-json'):\n self.app = app\n self.mime_type = mime_type\n\n def __call__(self, environ, start_response):\n # Read JSON POST input to jsonfilter.json if matching mime type\n r... |
"""
Implementation of JSONDecoder
"""
import re
import sys
from simplejson.scanner import Scanner, pattern
try:
from simplejson import _speedups
except:
_speedups = None
FLAGS = re.VERBOSE | re.MULTILINE | re.DOTALL
def _floatconstants():
import struct
import sys
_BYTES = '7FF80000000000007FF0000000000000'.decode('hex')
if sys.byteorder != 'big':
_BYTES = _BYTES[:8][::-1] + _BYTES[8:][::-1]
nan, inf = struct.unpack('dd', _BYTES)
return nan, inf, -inf
NaN, PosInf, NegInf = _floatconstants()
def linecol(doc, pos):
lineno = doc.count('\n', 0, pos) + 1
if lineno == 1:
colno = pos
else:
colno = pos - doc.rindex('\n', 0, pos)
return lineno, colno
def errmsg(msg, doc, pos, end=None):
lineno, colno = linecol(doc, pos)
if end is None:
return '%s: line %d column %d (char %d)' % (msg, lineno, colno, pos)
endlineno, endcolno = linecol(doc, end)
return '%s: line %d column %d - line %d column %d (char %d - %d)' % (
msg, lineno, colno, endlineno, endcolno, pos, end)
_CONSTANTS = {
'-Infinity': NegInf,
'Infinity': PosInf,
'NaN': NaN,
'true': True,
'false': False,
'null': None,
}
def JSONConstant(match, context, c=_CONSTANTS):
s = match.group(0)
fn = getattr(context, 'parse_constant', None)
if fn is None:
rval = c[s]
else:
rval = fn(s)
return rval, None
pattern('(-?Infinity|NaN|true|false|null)')(JSONConstant)
def JSONNumber(match, context):
match = JSONNumber.regex.match(match.string, *match.span())
integer, frac, exp = match.groups()
if frac or exp:
fn = getattr(context, 'parse_float', None) or float
res = fn(integer + (frac or '') + (exp or ''))
else:
fn = getattr(context, 'parse_int', None) or int
res = fn(integer)
return res, None
pattern(r'(-?(?:0|[1-9]\d*))(\.\d+)?([eE][-+]?\d+)?')(JSONNumber)
STRINGCHUNK = re.compile(r'(.*?)(["\\\x00-\x1f])', FLAGS)
BACKSLASH = {
'"': u'"', '\\': u'\\', '/': u'/',
'b': u'\b', 'f': u'\f', 'n': u'\n', 'r': u'\r', 't': u'\t',
}
DEFAULT_ENCODING = "utf-8"
def scanstring(s, end, encoding=None, strict=True, _b=BACKSLASH, _m=STRINGCHUNK.match):
if encoding is None:
encoding = DEFAULT_ENCODING
chunks = []
_append = chunks.append
begin = end - 1
while 1:
chunk = _m(s, end)
if chunk is None:
raise ValueError(
errmsg("Unterminated string starting at", s, begin))
end = chunk.end()
content, terminator = chunk.groups()
if content:
if not isinstance(content, unicode):
content = unicode(content, encoding)
_append(content)
if terminator == '"':
break
elif terminator != '\\':
if strict:
raise ValueError(errmsg("Invalid control character %r at", s, end))
else:
_append(terminator)
continue
try:
esc = s[end]
except IndexError:
raise ValueError(
errmsg("Unterminated string starting at", s, begin))
if esc != 'u':
try:
m = _b[esc]
except KeyError:
raise ValueError(
errmsg("Invalid \\escape: %r" % (esc,), s, end))
end += 1
else:
esc = s[end + 1:end + 5]
next_end = end + 5
msg = "Invalid \\uXXXX escape"
try:
if len(esc) != 4:
raise ValueError
uni = int(esc, 16)
if 0xd800 <= uni <= 0xdbff and sys.maxunicode > 65535:
msg = "Invalid \\uXXXX\\uXXXX surrogate pair"
if not s[end + 5:end + 7] == '\\u':
raise ValueError
esc2 = s[end + 7:end + 11]
if len(esc2) != 4:
raise ValueError
uni2 = int(esc2, 16)
uni = 0x10000 + (((uni - 0xd800) << 10) | (uni2 - 0xdc00))
next_end += 6
m = unichr(uni)
except ValueError:
raise ValueError(errmsg(msg, s, end))
end = next_end
_append(m)
return u''.join(chunks), end
# Use speedup
if _speedups is not None:
scanstring = _speedups.scanstring
def JSONString(match, context):
encoding = getattr(context, 'encoding', None)
strict = getattr(context, 'strict', True)
return scanstring(match.string, match.end(), encoding, strict)
pattern(r'"')(JSONString)
WHITESPACE = re.compile(r'\s*', FLAGS)
def JSONObject(match, context, _w=WHITESPACE.match):
pairs = {}
s = match.string
end = _w(s, match.end()).end()
nextchar = s[end:end + 1]
# trivial empty object
if nextchar == '}':
return pairs, end + 1
if nextchar != '"':
raise ValueError(errmsg("Expecting property name", s, end))
end += 1
encoding = getattr(context, 'encoding', None)
strict = getattr(context, 'strict', True)
iterscan = JSONScanner.iterscan
while True:
key, end = scanstring(s, end, encoding, strict)
end = _w(s, end).end()
if s[end:end + 1] != ':':
raise ValueError(errmsg("Expecting : delimiter", s, end))
end = _w(s, end + 1).end()
try:
value, end = iterscan(s, idx=end, context=context).next()
except StopIteration:
raise ValueError(errmsg("Expecting object", s, end))
pairs[key] = value
end = _w(s, end).end()
nextchar = s[end:end + 1]
end += 1
if nextchar == '}':
break
if nextchar != ',':
raise ValueError(errmsg("Expecting , delimiter", s, end - 1))
end = _w(s, end).end()
nextchar = s[end:end + 1]
end += 1
if nextchar != '"':
raise ValueError(errmsg("Expecting property name", s, end - 1))
object_hook = getattr(context, 'object_hook', None)
if object_hook is not None:
pairs = object_hook(pairs)
return pairs, end
pattern(r'{')(JSONObject)
def JSONArray(match, context, _w=WHITESPACE.match):
values = []
s = match.string
end = _w(s, match.end()).end()
# look-ahead for trivial empty array
nextchar = s[end:end + 1]
if nextchar == ']':
return values, end + 1
iterscan = JSONScanner.iterscan
while True:
try:
value, end = iterscan(s, idx=end, context=context).next()
except StopIteration:
raise ValueError(errmsg("Expecting object", s, end))
values.append(value)
end = _w(s, end).end()
nextchar = s[end:end + 1]
end += 1
if nextchar == ']':
break
if nextchar != ',':
raise ValueError(errmsg("Expecting , delimiter", s, end))
end = _w(s, end).end()
return values, end
pattern(r'\[')(JSONArray)
ANYTHING = [
JSONObject,
JSONArray,
JSONString,
JSONConstant,
JSONNumber,
]
JSONScanner = Scanner(ANYTHING)
class JSONDecoder(object):
"""
Simple JSON <http://json.org> decoder
Performs the following translations in decoding by default:
+---------------+-------------------+
| JSON | Python |
+===============+===================+
| object | dict |
+---------------+-------------------+
| array | list |
+---------------+-------------------+
| string | unicode |
+---------------+-------------------+
| number (int) | int, long |
+---------------+-------------------+
| number (real) | float |
+---------------+-------------------+
| true | True |
+---------------+-------------------+
| false | False |
+---------------+-------------------+
| null | None |
+---------------+-------------------+
It also understands ``NaN``, ``Infinity``, and ``-Infinity`` as
their corresponding ``float`` values, which is outside the JSON spec.
"""
_scanner = Scanner(ANYTHING)
__all__ = ['__init__', 'decode', 'raw_decode']
def __init__(self, encoding=None, object_hook=None, parse_float=None,
parse_int=None, parse_constant=None, strict=True):
"""
``encoding`` determines the encoding used to interpret any ``str``
objects decoded by this instance (utf-8 by default). It has no
effect when decoding ``unicode`` objects.
Note that currently only encodings that are a superset of ASCII work,
strings of other encodings should be passed in as ``unicode``.
``object_hook``, if specified, will be called with the result
of every JSON object decoded and its return value will be used in
place of the given ``dict``. This can be used to provide custom
deserializations (e.g. to support JSON-RPC class hinting).
``parse_float``, if specified, will be called with the string
of every JSON float to be decoded. By default this is equivalent to
float(num_str). This can be used to use another datatype or parser
for JSON floats (e.g. decimal.Decimal).
``parse_int``, if specified, will be called with the string
of every JSON int to be decoded. By default this is equivalent to
int(num_str). This can be used to use another datatype or parser
for JSON integers (e.g. float).
``parse_constant``, if specified, will be called with one of the
following strings: -Infinity, Infinity, NaN, null, true, false.
This can be used to raise an exception if invalid JSON numbers
are encountered.
"""
self.encoding = encoding
self.object_hook = object_hook
self.parse_float = parse_float
self.parse_int = parse_int
self.parse_constant = parse_constant
self.strict = strict
def decode(self, s, _w=WHITESPACE.match):
"""
Return the Python representation of ``s`` (a ``str`` or ``unicode``
instance containing a JSON document)
"""
obj, end = self.raw_decode(s, idx=_w(s, 0).end())
end = _w(s, end).end()
if end != len(s):
raise ValueError(errmsg("Extra data", s, end, len(s)))
return obj
def raw_decode(self, s, **kw):
"""
Decode a JSON document from ``s`` (a ``str`` or ``unicode`` beginning
with a JSON document) and return a 2-tuple of the Python
representation and the index in ``s`` where the document ended.
This can be used to decode a JSON document from a string that may
have extraneous data at the end.
"""
kw.setdefault('context', self)
try:
obj, end = self._scanner.iterscan(s, **kw).next()
except StopIteration:
raise ValueError("No JSON object could be decoded")
return obj, end
__all__ = ['JSONDecoder']
| [
[
8,
0,
0.006,
0.0091,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.0121,
0.003,
0,
0.66,
0.0333,
540,
0,
1,
0,
0,
540,
0,
0
],
[
1,
0,
0.0151,
0.003,
0,
0.66,
... | [
"\"\"\"\nImplementation of JSONDecoder\n\"\"\"",
"import re",
"import sys",
"from simplejson.scanner import Scanner, pattern",
"try:\n from simplejson import _speedups\nexcept:\n _speedups = None",
" from simplejson import _speedups",
" _speedups = None",
"FLAGS = re.VERBOSE | re.MULTILINE... |
"""
Iterator based sre token scanner
"""
import sre_parse, sre_compile, sre_constants
from sre_constants import BRANCH, SUBPATTERN
from re import VERBOSE, MULTILINE, DOTALL
import re
__all__ = ['Scanner', 'pattern']
FLAGS = (VERBOSE | MULTILINE | DOTALL)
class Scanner(object):
def __init__(self, lexicon, flags=FLAGS):
self.actions = [None]
# combine phrases into a compound pattern
s = sre_parse.Pattern()
s.flags = flags
p = []
for idx, token in enumerate(lexicon):
phrase = token.pattern
try:
subpattern = sre_parse.SubPattern(s,
[(SUBPATTERN, (idx + 1, sre_parse.parse(phrase, flags)))])
except sre_constants.error:
raise
p.append(subpattern)
self.actions.append(token)
s.groups = len(p)+1 # NOTE(guido): Added to make SRE validation work
p = sre_parse.SubPattern(s, [(BRANCH, (None, p))])
self.scanner = sre_compile.compile(p)
def iterscan(self, string, idx=0, context=None):
"""
Yield match, end_idx for each match
"""
match = self.scanner.scanner(string, idx).match
actions = self.actions
lastend = idx
end = len(string)
while True:
m = match()
if m is None:
break
matchbegin, matchend = m.span()
if lastend == matchend:
break
action = actions[m.lastindex]
if action is not None:
rval, next_pos = action(m, context)
if next_pos is not None and next_pos != matchend:
# "fast forward" the scanner
matchend = next_pos
match = self.scanner.scanner(string, matchend).match
yield rval, matchend
lastend = matchend
def pattern(pattern, flags=FLAGS):
def decorator(fn):
fn.pattern = pattern
fn.regex = re.compile(pattern, flags)
return fn
return decorator
| [
[
8,
0,
0.0312,
0.0469,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.0625,
0.0156,
0,
0.66,
0.125,
22,
0,
3,
0,
0,
22,
0,
0
],
[
1,
0,
0.0781,
0.0156,
0,
0.66,
... | [
"\"\"\"\nIterator based sre token scanner\n\"\"\"",
"import sre_parse, sre_compile, sre_constants",
"from sre_constants import BRANCH, SUBPATTERN",
"from re import VERBOSE, MULTILINE, DOTALL",
"import re",
"__all__ = ['Scanner', 'pattern']",
"FLAGS = (VERBOSE | MULTILINE | DOTALL)",
"class Scanner(obj... |
"""
Implementation of JSONEncoder
"""
import re
try:
from simplejson import _speedups
except ImportError:
_speedups = None
ESCAPE = re.compile(r'[\x00-\x1f\\"\b\f\n\r\t]')
ESCAPE_ASCII = re.compile(r'([\\"/]|[^\ -~])')
ESCAPE_DCT = {
'\\': '\\\\',
'"': '\\"',
'\b': '\\b',
'\f': '\\f',
'\n': '\\n',
'\r': '\\r',
'\t': '\\t',
}
for i in range(0x20):
ESCAPE_DCT.setdefault(chr(i), '\\u%04x' % (i,))
# assume this produces an infinity on all machines (probably not guaranteed)
INFINITY = float('1e66666')
FLOAT_REPR = repr
def floatstr(o, allow_nan=True):
# Check for specials. Note that this type of test is processor- and/or
# platform-specific, so do tests which don't depend on the internals.
if o != o:
text = 'NaN'
elif o == INFINITY:
text = 'Infinity'
elif o == -INFINITY:
text = '-Infinity'
else:
return FLOAT_REPR(o)
if not allow_nan:
raise ValueError("Out of range float values are not JSON compliant: %r"
% (o,))
return text
def encode_basestring(s):
"""
Return a JSON representation of a Python string
"""
def replace(match):
return ESCAPE_DCT[match.group(0)]
return '"' + ESCAPE.sub(replace, s) + '"'
def encode_basestring_ascii(s):
def replace(match):
s = match.group(0)
try:
return ESCAPE_DCT[s]
except KeyError:
n = ord(s)
if n < 0x10000:
return '\\u%04x' % (n,)
else:
# surrogate pair
n -= 0x10000
s1 = 0xd800 | ((n >> 10) & 0x3ff)
s2 = 0xdc00 | (n & 0x3ff)
return '\\u%04x\\u%04x' % (s1, s2)
return '"' + str(ESCAPE_ASCII.sub(replace, s)) + '"'
try:
encode_basestring_ascii = _speedups.encode_basestring_ascii
_need_utf8 = True
except AttributeError:
_need_utf8 = False
class JSONEncoder(object):
"""
Extensible JSON <http://json.org> encoder for Python data structures.
Supports the following objects and types by default:
+-------------------+---------------+
| Python | JSON |
+===================+===============+
| dict | object |
+-------------------+---------------+
| list, tuple | array |
+-------------------+---------------+
| str, unicode | string |
+-------------------+---------------+
| int, long, float | number |
+-------------------+---------------+
| True | true |
+-------------------+---------------+
| False | false |
+-------------------+---------------+
| None | null |
+-------------------+---------------+
To extend this to recognize other objects, subclass and implement a
``.default()`` method with another method that returns a serializable
object for ``o`` if possible, otherwise it should call the superclass
implementation (to raise ``TypeError``).
"""
__all__ = ['__init__', 'default', 'encode', 'iterencode']
item_separator = ', '
key_separator = ': '
def __init__(self, skipkeys=False, ensure_ascii=True,
check_circular=True, allow_nan=True, sort_keys=False,
indent=None, separators=None, encoding='utf-8', default=None):
"""
Constructor for JSONEncoder, with sensible defaults.
If skipkeys is False, then it is a TypeError to attempt
encoding of keys that are not str, int, long, float or None. If
skipkeys is True, such items are simply skipped.
If ensure_ascii is True, the output is guaranteed to be str
objects with all incoming unicode characters escaped. If
ensure_ascii is false, the output will be unicode object.
If check_circular is True, then lists, dicts, and custom encoded
objects will be checked for circular references during encoding to
prevent an infinite recursion (which would cause an OverflowError).
Otherwise, no such check takes place.
If allow_nan is True, then NaN, Infinity, and -Infinity will be
encoded as such. This behavior is not JSON specification compliant,
but is consistent with most JavaScript based encoders and decoders.
Otherwise, it will be a ValueError to encode such floats.
If sort_keys is True, then the output of dictionaries will be
sorted by key; this is useful for regression tests to ensure
that JSON serializations can be compared on a day-to-day basis.
If indent is a non-negative integer, then JSON array
elements and object members will be pretty-printed with that
indent level. An indent level of 0 will only insert newlines.
None is the most compact representation.
If specified, separators should be a (item_separator, key_separator)
tuple. The default is (', ', ': '). To get the most compact JSON
representation you should specify (',', ':') to eliminate whitespace.
If specified, default is a function that gets called for objects
that can't otherwise be serialized. It should return a JSON encodable
version of the object or raise a ``TypeError``.
If encoding is not None, then all input strings will be
transformed into unicode using that encoding prior to JSON-encoding.
The default is UTF-8.
"""
self.skipkeys = skipkeys
self.ensure_ascii = ensure_ascii
self.check_circular = check_circular
self.allow_nan = allow_nan
self.sort_keys = sort_keys
self.indent = indent
self.current_indent_level = 0
if separators is not None:
self.item_separator, self.key_separator = separators
if default is not None:
self.default = default
self.encoding = encoding
def _newline_indent(self):
return '\n' + (' ' * (self.indent * self.current_indent_level))
def _iterencode_list(self, lst, markers=None):
if not lst:
yield '[]'
return
if markers is not None:
markerid = id(lst)
if markerid in markers:
raise ValueError("Circular reference detected")
markers[markerid] = lst
yield '['
if self.indent is not None:
self.current_indent_level += 1
newline_indent = self._newline_indent()
separator = self.item_separator + newline_indent
yield newline_indent
else:
newline_indent = None
separator = self.item_separator
first = True
for value in lst:
if first:
first = False
else:
yield separator
for chunk in self._iterencode(value, markers):
yield chunk
if newline_indent is not None:
self.current_indent_level -= 1
yield self._newline_indent()
yield ']'
if markers is not None:
del markers[markerid]
def _iterencode_dict(self, dct, markers=None):
if not dct:
yield '{}'
return
if markers is not None:
markerid = id(dct)
if markerid in markers:
raise ValueError("Circular reference detected")
markers[markerid] = dct
yield '{'
key_separator = self.key_separator
if self.indent is not None:
self.current_indent_level += 1
newline_indent = self._newline_indent()
item_separator = self.item_separator + newline_indent
yield newline_indent
else:
newline_indent = None
item_separator = self.item_separator
first = True
if self.ensure_ascii:
encoder = encode_basestring_ascii
else:
encoder = encode_basestring
allow_nan = self.allow_nan
if self.sort_keys:
keys = dct.keys()
keys.sort()
items = [(k, dct[k]) for k in keys]
else:
items = dct.iteritems()
_encoding = self.encoding
_do_decode = (_encoding is not None
and not (_need_utf8 and _encoding == 'utf-8'))
for key, value in items:
if isinstance(key, str):
if _do_decode:
key = key.decode(_encoding)
elif isinstance(key, basestring):
pass
# JavaScript is weakly typed for these, so it makes sense to
# also allow them. Many encoders seem to do something like this.
elif isinstance(key, float):
key = floatstr(key, allow_nan)
elif isinstance(key, (int, long)):
key = str(key)
elif key is True:
key = 'true'
elif key is False:
key = 'false'
elif key is None:
key = 'null'
elif self.skipkeys:
continue
else:
raise TypeError("key %r is not a string" % (key,))
if first:
first = False
else:
yield item_separator
yield encoder(key)
yield key_separator
for chunk in self._iterencode(value, markers):
yield chunk
if newline_indent is not None:
self.current_indent_level -= 1
yield self._newline_indent()
yield '}'
if markers is not None:
del markers[markerid]
def _iterencode(self, o, markers=None):
if isinstance(o, basestring):
if self.ensure_ascii:
encoder = encode_basestring_ascii
else:
encoder = encode_basestring
_encoding = self.encoding
if (_encoding is not None and isinstance(o, str)
and not (_need_utf8 and _encoding == 'utf-8')):
o = o.decode(_encoding)
yield encoder(o)
elif o is None:
yield 'null'
elif o is True:
yield 'true'
elif o is False:
yield 'false'
elif isinstance(o, (int, long)):
yield str(o)
elif isinstance(o, float):
yield floatstr(o, self.allow_nan)
elif isinstance(o, (list, tuple)):
for chunk in self._iterencode_list(o, markers):
yield chunk
elif isinstance(o, dict):
for chunk in self._iterencode_dict(o, markers):
yield chunk
else:
if markers is not None:
markerid = id(o)
if markerid in markers:
raise ValueError("Circular reference detected")
markers[markerid] = o
for chunk in self._iterencode_default(o, markers):
yield chunk
if markers is not None:
del markers[markerid]
def _iterencode_default(self, o, markers=None):
newobj = self.default(o)
return self._iterencode(newobj, markers)
def default(self, o):
"""
Implement this method in a subclass such that it returns
a serializable object for ``o``, or calls the base implementation
(to raise a ``TypeError``).
For example, to support arbitrary iterators, you could
implement default like this::
def default(self, o):
try:
iterable = iter(o)
except TypeError:
pass
else:
return list(iterable)
return JSONEncoder.default(self, o)
"""
raise TypeError("%r is not JSON serializable" % (o,))
def encode(self, o):
"""
Return a JSON string representation of a Python data structure.
>>> JSONEncoder().encode({"foo": ["bar", "baz"]})
'{"foo": ["bar", "baz"]}'
"""
# This is for extremely simple cases and benchmarks...
if isinstance(o, basestring):
if isinstance(o, str):
_encoding = self.encoding
if (_encoding is not None
and not (_encoding == 'utf-8' and _need_utf8)):
o = o.decode(_encoding)
return encode_basestring_ascii(o)
# This doesn't pass the iterator directly to ''.join() because it
# sucks at reporting exceptions. It's going to do this internally
# anyway because it uses PySequence_Fast or similar.
chunks = list(self.iterencode(o))
return ''.join(chunks)
def iterencode(self, o):
"""
Encode the given object and yield each string
representation as available.
For example::
for chunk in JSONEncoder().iterencode(bigobject):
mysocket.write(chunk)
"""
if self.check_circular:
markers = {}
else:
markers = None
return self._iterencode(o, markers)
__all__ = ['JSONEncoder']
| [
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"\"\"\"\nImplementation of JSONEncoder\n\"\"\"",
"import re",
"try:\n from simplejson import _speedups\nexcept ImportError:\n _speedups = None",
" from simplejson import _speedups",
" _speedups = None",
"ESCAPE = re.compile(r'[\\x00-\\x1f\\\\\"\\b\\f\\n\\r\\t]')",
"ESCAPE_ASCII = re.compile(... |
#!/usr/bin/python
# -*- coding: utf-8 -*-
##
# (C) Copyright 2011 Jose Blanco <jose.blanco[a]vikuit.com>
# (C) Copyright 2011 Jose Carrasco <jose.carrasco[a]vikuit.com>
#
# This file is part of "vikuit".
#
# "vikuit" is free software: you can redistribute it and/or modify
# it under the terms of the GNU Affero General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# "vikuit" is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Affero General Public License for more details.
#
# You should have received a copy of the GNU Affero General Public License
# along with "vikuit". If not, see <http://www.gnu.org/licenses/>.
##
from google.appengine.ext import db
from google.appengine.api import users
from google.appengine.ext import search
class UserData(search.SearchableModel):
nickname = db.StringProperty(required=True)
personal_message = db.StringProperty()
email = db.StringProperty(required=True)
avatar = db.BlobProperty()
thumbnail = db.BlobProperty()
image_version = db.IntegerProperty()
list_urls = db.StringListProperty()
im_addresses = db.StringListProperty()
about_user = db.TextProperty()
password = db.StringProperty(required=False)#mod to accept Google account
registrationType = db.IntegerProperty()#0 -local, 1 - google
rol = db.StringProperty()
google_adsense = db.StringProperty()
google_adsense_channel = db.StringProperty()
token = db.StringProperty()
checked = db.BooleanProperty()
# articles
articles = db.IntegerProperty(required=True)
draft_articles = db.IntegerProperty(required=True)
# messages
messages = db.IntegerProperty(required=True)
draft_messages = db.IntegerProperty(required=True)
unread_messages = db.IntegerProperty()
sent_messages = db.IntegerProperty()
# comments
comments = db.IntegerProperty(required=True)
# rating
rating_count = db.IntegerProperty(required=True)
rating_total = db.IntegerProperty(required=True)
rating_average = db.IntegerProperty(required=True)
# forums
threads = db.IntegerProperty(required=True)
responses = db.IntegerProperty(required=True)
# communities
communities = db.IntegerProperty(required=True)
# favourites
favourites = db.IntegerProperty(required=True)
# others
real_name = db.StringProperty()
country = db.StringProperty()
city = db.StringProperty()
public = db.BooleanProperty(required=True)
contacts = db.IntegerProperty()
last_update = db.DateTimeProperty(auto_now=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
deletion_date = db.DateTimeProperty()
last_login = db.DateTimeProperty()
banned_date = db.DateTimeProperty()
not_full_rss = db.BooleanProperty()
class ArticleHtml(db.Model):
content = db.TextProperty(required=True)
class Article(search.SearchableModel):
author = db.ReferenceProperty(UserData,required=True)
author_nickname = db.StringProperty()
title = db.StringProperty(required=True)
description = db.StringProperty(required=True)
content = db.TextProperty(required=True)
content_html = db.ReferenceProperty(ArticleHtml)
lic = db.StringProperty(required=True)
views = db.IntegerProperty(required=True)
rating_count = db.IntegerProperty(required=True)
rating_total = db.IntegerProperty(required=True)
rating_average = db.IntegerProperty()
url_path = db.StringProperty(required=True)
responses = db.IntegerProperty(required=True)
tags = db.StringListProperty()
favourites = db.IntegerProperty(required=True)
draft = db.BooleanProperty(required=True)
article_type = db.StringProperty(required=True)
subscribers = db.StringListProperty()
last_update = db.DateTimeProperty(auto_now=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
deletion_date = db.DateTimeProperty()
deletion_message = db.StringProperty()
deletion_user = db.ReferenceProperty(UserData,collection_name='du')
class Mblog(search.SearchableModel):
author = db.ReferenceProperty(UserData,required=True)
author_nickname = db.StringProperty()
content = db.TextProperty(required=True)
responses = db.IntegerProperty(required=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
deletion_date = db.DateTimeProperty()
deletion_user_nick = db.StringProperty()
class Module(db.Model):
name = db.TextProperty(required=True)
active = db.BooleanProperty()
class Comment(db.Model):
content = db.TextProperty(required=True)
article = db.ReferenceProperty(Article,required=True)
author = db.ReferenceProperty(UserData,required=True)
author_nickname = db.StringProperty()
response_number = db.IntegerProperty()
last_update = db.DateTimeProperty(auto_now=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
deletion_date = db.DateTimeProperty()
editions = db.IntegerProperty()
last_edition = db.DateTimeProperty()
class Vote(db.Model):
user = db.ReferenceProperty(UserData,required=True)
article = db.ReferenceProperty(Article,required=True)
rating = db.IntegerProperty(required=True)
class Tag(db.Model):
tag = db.StringProperty(required=True)
count = db.IntegerProperty(required=True)
class Category(db.Model):
parent_category = db.SelfReferenceProperty()
title = db.StringProperty(required=True)
url_path = db.StringProperty()
description = db.StringProperty(required=True)
communities = db.IntegerProperty(required=True)
articles = db.IntegerProperty(required=True)
subcategories = None
class Community(search.SearchableModel):
owner = db.ReferenceProperty(UserData,required=True)
owner_nickname = db.StringProperty()
title = db.StringProperty(required=True)
description = db.StringProperty(required=True, multiline=True)
url_path = db.StringProperty(required=True)
old_url_path = db.StringProperty()
subscribers = db.StringListProperty()
members = db.IntegerProperty(required=True)
articles = db.IntegerProperty(required=True)
threads = db.IntegerProperty(required=True)
responses = db.IntegerProperty(required=True)
last_update = db.DateTimeProperty(auto_now=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
deletion_date = db.DateTimeProperty()
avatar = db.BlobProperty()
thumbnail = db.BlobProperty()
image_version = db.IntegerProperty()
all_users = db.BooleanProperty()
category = db.ReferenceProperty(Category, collection_name='communities_set')
activity = db.IntegerProperty()
class CommunityUser(db.Model):
user = db.ReferenceProperty(UserData,required=True)
community = db.ReferenceProperty(Community,required=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
# denormalizationzation
user_nickname = db.StringProperty()
community_title = db.StringProperty()
community_url_path = db.StringProperty()
class CommunityArticle(db.Model):
article = db.ReferenceProperty(Article,required=True)
community = db.ReferenceProperty(Community,required=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
# denormalization
article_author_nickname = db.StringProperty()
article_title = db.StringProperty()
article_url_path = db.StringProperty()
community_title = db.StringProperty()
community_url_path = db.StringProperty()
class Thread(search.SearchableModel):
community = db.ReferenceProperty(Community,required=True)
community_title = db.StringProperty()
community_url_path = db.StringProperty()
author = db.ReferenceProperty(UserData,required=True)
author_nickname = db.StringProperty()
title = db.StringProperty(required=True)
url_path = db.StringProperty()
content = db.TextProperty(required=True)
subscribers = db.StringListProperty()
last_response_date = db.DateTimeProperty()
response_number = db.IntegerProperty()
editions = db.IntegerProperty()
last_edition = db.DateTimeProperty()
# responses
parent_thread = db.SelfReferenceProperty()
responses = db.IntegerProperty(required=True)
latest_response = db.DateTimeProperty()
last_update = db.DateTimeProperty(auto_now=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
deletion_date = db.DateTimeProperty()
deletion_message = db.StringProperty()
views = db.IntegerProperty()
class Favourite(db.Model):
article = db.ReferenceProperty(Article,required=True)
user = db.ReferenceProperty(UserData,required=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
# denormalize
article_author_nickname = db.StringProperty()
article_title = db.StringProperty()
article_url_path = db.StringProperty()
user_nickname = db.StringProperty()
class Contact(db.Model):
user_from = db.ReferenceProperty(UserData,required=True,collection_name='cf')
user_to = db.ReferenceProperty(UserData,required=True,collection_name='ct')
creation_date = db.DateTimeProperty(auto_now_add=True)
# denormalize
user_from_nickname = db.StringProperty()
user_to_nickname = db.StringProperty()
class Application(db.Model):
name = db.StringProperty()
logo = db.BlobProperty()
theme = db.StringProperty()
subject = db.StringProperty()
locale = db.StringProperty()
users = db.IntegerProperty()
communities = db.IntegerProperty()
articles = db.IntegerProperty()
threads = db.IntegerProperty()
url = db.StringProperty()
mail_contact = db.StringProperty()
mail_subject_prefix = db.StringProperty()
mail_sender = db.StringProperty()
mail_footer = db.StringProperty()
recaptcha_public_key = db.StringProperty()
recaptcha_private_key = db.StringProperty()
google_adsense = db.StringProperty()
google_adsense_channel = db.StringProperty()
google_analytics = db.StringProperty()
max_results = db.IntegerProperty()
max_results_sublist = db.IntegerProperty()
session_seed = db.StringProperty()
version = db.StringProperty()
class Message(db.Model):
user_from = db.ReferenceProperty(UserData,required=True,collection_name='mf')
user_to = db.ReferenceProperty(UserData,required=True,collection_name='mt')
creation_date = db.DateTimeProperty(auto_now_add=True)
title = db.StringProperty(required=True)
url_path = db.StringProperty(required=True)
content = db.TextProperty(required=True)
read = db.BooleanProperty(required=True)
from_deletion_date = db.DateTimeProperty()
to_deletion_date = db.DateTimeProperty()
user_from_nickname = db.StringProperty()
user_to_nickname = db.StringProperty()
class RelatedCommunity(db.Model):
community_from = db.ReferenceProperty(Community,required=True,collection_name='gf')
community_to = db.ReferenceProperty(Community,required=True,collection_name='gt')
creation_date = db.DateTimeProperty(auto_now_add=True)
# denormalization
community_from_title = db.StringProperty(required=True)
community_from_url_path = db.StringProperty(required=True)
community_to_title = db.StringProperty(required=True)
community_to_url_path = db.StringProperty(required=True)
class UserSubscription(db.Model):
user = db.ReferenceProperty(UserData,required=True)
user_email = db.StringProperty(required=True)
user_nickname = db.StringProperty(required=True)
subscription_type = db.StringProperty(required=True)
subscription_id = db.IntegerProperty(required=True)
creation_date = db.DateTimeProperty()
class Follower(db.Model):
object_type = db.StringProperty(required=True)
object_id = db.IntegerProperty(required=True)
followers = db.StringListProperty()
class Event(db.Model):
event_type = db.StringProperty(required=True)
followers = db.StringListProperty()
user = db.ReferenceProperty(UserData,required=True)
user_nickname = db.StringProperty(required=True)
user_to = db.ReferenceProperty(UserData,collection_name='events_user_to')
user_to_nickname = db.StringProperty()
community = db.ReferenceProperty(Community)
community_title = db.StringProperty()
community_url_path = db.StringProperty()
article = db.ReferenceProperty(Article)
article_author_nickname = db.StringProperty()
article_title = db.StringProperty()
article_url_path = db.StringProperty()
thread = db.ReferenceProperty(Thread)
thread_title = db.StringProperty()
thread_url_path = db.StringProperty()
response_number = db.IntegerProperty()
creation_date = db.DateTimeProperty(auto_now_add=True)
class MailQueue(db.Model):
subject = db.StringProperty(required=True)
body = db.TextProperty(required=True)
to = db.StringListProperty()
bcc = db.StringListProperty()
class Recommendation(db.Model):
article_from = db.ReferenceProperty(Article,collection_name='recommendations_from')
article_to = db.ReferenceProperty(Article,collection_name='recommendations_to')
value = db.FloatProperty()
article_from_title = db.StringProperty(required=True)
article_to_title = db.StringProperty(required=True)
article_from_author_nickname = db.StringProperty(required=True)
article_to_author_nickname = db.StringProperty(required=True)
article_from_url_path = db.StringProperty(required=True)
article_to_url_path = db.StringProperty(required=True)
class Task(db.Model):
task_type = db.StringProperty(required=True)
priority = db.IntegerProperty(required=True)
data = db.StringProperty(required=True, multiline=True)
creation_date = db.DateTimeProperty(auto_now_add=True)
class Image(db.Model):
# No restrictions by community or user
# All files are public, but only owner or admin can browse them
# Due image size, those must be deleted.
author = db.ReferenceProperty(UserData,required=True)
author_nickname = db.StringProperty(required=True)
thumbnail = db.BlobProperty(required=True)
url_path = db.StringProperty(required=True)#Unique
image_version = db.IntegerProperty()
creation_date = db.DateTimeProperty(auto_now_add=True)
| [
[
1,
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0,
167,
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0,
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0,
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],
[
1,
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0,
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[
1,
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0.0026,
0,
0... | [
"from google.appengine.ext import db",
"from google.appengine.api import users",
"from google.appengine.ext import search",
"class UserData(search.SearchableModel):\n\tnickname = db.StringProperty(required=True)\n\tpersonal_message = db.StringProperty()\n\temail = db.StringProperty(required=True)\n\tavatar = ... |
import copy
from logging_mixin import LoggingMixin
import os
from simple_api_mixin import SimpleAPIMixin
class ScriptInterface(SimpleAPIMixin, LoggingMixin):
def __init__(self, devide_app):
self.devide_app = devide_app
# initialise logging mixin
LoggingMixin.__init__(self)
print "Initialising script interface..."
def handler_post_app_init(self):
"""DeVIDE-required method for interfaces."""
pass
def quit(self):
pass
def start_main_loop(self):
self.log_message('Starting to execute script.')
sv = self.devide_app.main_config.script
script_params = self.devide_app.main_config.script_params
if sv is None:
self.log_error('No script name specified with --script.')
self.log_error('Nothing to run, will exit.')
else:
g2 = {}
g2.update(globals())
g2['interface'] = self
g2['script_params'] = script_params
execfile(sv, g2)
self.log_message('Shutting down.')
self.quit()
| [
[
1,
0,
0.0233,
0.0233,
0,
0.66,
0,
739,
0,
1,
0,
0,
739,
0,
0
],
[
1,
0,
0.0465,
0.0233,
0,
0.66,
0.25,
424,
0,
1,
0,
0,
424,
0,
0
],
[
1,
0,
0.0698,
0.0233,
0,
0.... | [
"import copy",
"from logging_mixin import LoggingMixin",
"import os",
"from simple_api_mixin import SimpleAPIMixin",
"class ScriptInterface(SimpleAPIMixin, LoggingMixin):\n\n def __init__(self, devide_app):\n self.devide_app = devide_app\n\n # initialise logging mixin\n LoggingMixin.... |
# simple api mixin to be used by RPC and command line interfaces
# of DeVIDE that require simple methods for speaking to a running
# instance
class SimpleAPIMixin:
def __init__(self, devide_app):
self.devide_app = devide_app
def close(self):
del self.devide_app
def load_and_realise_network(self, filename):
"""Load and instantiate a network from a given dvn filename.
e.g. module_dict, conn = load_and_realise_network('test.dvn')
@param filename: name of .dvn network file.
@returns: dictionary mapping from serialised instance name to
meta_module. dict.values() returns the the list of MetaModule
instances in the instantiated network. Also list of connections.
"""
ln = self.devide_app.network_manager.load_network
pms_dict, connection_list, glyph_pos_dict = ln(filename)
rn = self.devide_app.network_manager.realise_network
new_modules_dict, new_connections = rn(pms_dict, connection_list)
mm = self.devide_app.get_module_manager()
new_modules_dict2 = {}
for k in new_modules_dict:
instance = new_modules_dict[k]
meta_module = mm.get_meta_module(instance)
new_modules_dict2[k] = meta_module
return new_modules_dict2, new_connections
def execute_network(self, meta_modules):
"""Given a list of MetaModule instances, execute the network
represented by those modules.
List of metamodules can be found for example in the values() of the
"""
self.devide_app.network_manager.execute_network(meta_modules)
def clear_network(self):
# graphEditor.clear_all_glyphs_from_canvas() - delete network func
# has to be moved to NetworkManager
self.devide_app.network_manager.clear_network()
def get_module_instance(self, module_name):
mm = self.devide_app.get_module_manager()
return mm.get_instance(module_name)
def get_module_config(self, module_name):
mi = self.get_module_instance(module_name)
return mi.get_config()
def set_module_config(self, module_name, config):
mi = self.get_module_instance(module_name)
mi.set_config(config)
| [
[
3,
0,
0.5397,
0.9365,
0,
0.66,
0,
850,
0,
8,
0,
0,
0,
0,
12
],
[
2,
1,
0.119,
0.0317,
1,
0.67,
0,
555,
0,
2,
0,
0,
0,
0,
0
],
[
14,
2,
0.127,
0.0159,
2,
0.61,
... | [
"class SimpleAPIMixin:\n\n def __init__(self, devide_app):\n self.devide_app = devide_app\n\n def close(self):\n del self.devide_app",
" def __init__(self, devide_app):\n self.devide_app = devide_app",
" self.devide_app = devide_app",
" def close(self):\n del sel... |
# logging mixin for use by DeVIDE interfaces
import logging
import sys
class LoggingMixin:
def __init__(self):
# this sets things up for logging to stderr
logging.basicConfig(level=logging.DEBUG,
format='%(asctime)s %(levelname)s %(message)s',
stream=sys.stdout)
file_handler = logging.FileHandler('devide.log', 'w')
file_handler.setLevel(logging.DEBUG)
formatter = logging.Formatter('%(asctime)s %(levelname)s %(message)s')
file_handler.setFormatter(formatter)
# add file handler to root logger
logging.getLogger('').addHandler(file_handler)
def log_error_list(self, msgs):
"""Log a list of strings as error.
This method must be supplied by all interfaces.
"""
for msg in msgs:
logging.error(msg)
def log_error(self, message):
"""Log a single string as error.
This method must be supplied by all interfaces.
"""
logging.error(message)
def log_info(self, message, timeStamp=True):
"""Log information.
This will simply go into the log window.
"""
# we'll always follow the format set by the logger setup in the ctor
logging.info(message)
def log_message(self, message, timeStamp=True):
"""Use this to log a message that has to be shown to the user in
for example a message box.
"""
logging.info('MESSAGE: %s' % (message,))
def log_warning(self, message, timeStamp=True):
logging.warning(message)
def set_progress(self, progress, message, noTime=False):
# we also output an informative message to standard out
# in cases where DeVIDE is very busy, this is quite
# handy.
logging.info( "PROGRESS: %s: %.2f" % (message, progress) )
| [
[
1,
0,
0.0476,
0.0159,
0,
0.66,
0,
715,
0,
1,
0,
0,
715,
0,
0
],
[
1,
0,
0.0635,
0.0159,
0,
0.66,
0.5,
509,
0,
1,
0,
0,
509,
0,
0
],
[
3,
0,
0.5317,
0.8889,
0,
0.6... | [
"import logging",
"import sys",
"class LoggingMixin:\n\n def __init__(self):\n # this sets things up for logging to stderr\n logging.basicConfig(level=logging.DEBUG,\n format='%(asctime)s %(levelname)s %(message)s',\n stream=sys.stdout)",
... |
from logging_mixin import LoggingMixin
from SimpleXMLRPCServer import SimpleXMLRPCServer
import time
class ServerProxy:
def test_function(self):
return "Hello World!"
class XMLRPCInterface(LoggingMixin):
def __init__(self, devide_app):
self._devide_app = devide_app
# initialise logging mixin
LoggingMixin.__init__(self)
print "Initialising XMLRPC..."
# without real IP number, this is only available via localhost
self.server = SimpleXMLRPCServer(('localhost', 8000))
self.server.register_instance(ServerProxy())
#server.register_function()
def handler_post_app_init(self):
"""DeVIDE-required method for interfaces."""
pass
def quit(self):
self.server.server_close()
def start_main_loop(self):
self.log_message('DeVIDE available at %s' % ('localhost:8000',))
self.log_message('Starting XMLRPC request loop.')
try:
self.server.serve_forever()
except KeyboardInterrupt:
self.log_message('Got keyboard interrupt.')
self.log_message('Shutting down.')
self.quit()
| [
[
1,
0,
0.0233,
0.0233,
0,
0.66,
0,
424,
0,
1,
0,
0,
424,
0,
0
],
[
1,
0,
0.0465,
0.0233,
0,
0.66,
0.25,
73,
0,
1,
0,
0,
73,
0,
0
],
[
1,
0,
0.0698,
0.0233,
0,
0.66... | [
"from logging_mixin import LoggingMixin",
"from SimpleXMLRPCServer import SimpleXMLRPCServer",
"import time",
"class ServerProxy:\n def test_function(self):\n return \"Hello World!\"",
" def test_function(self):\n return \"Hello World!\"",
" return \"Hello World!\"",
"class XM... |
# required for this dir to be recognised as package.
| [] | [] |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
# we use psutil for keeping an eye on memory (and crashes)
# if you don't have this yet, install with:
# dre shell
# pip install psutil
import psutil
import string
import sys
import time
import webbrowser
import wx
import wx.html
#import resources.python.mainFrame
import resources.graphics.images
import main_frame
class WXInterface(wx.App):
"""WX-based graphical user interface for DeVIDE.
This contains all functionality that used to be in the main devide WX
interface. I'm still working on the division between this class and
the graph editor.
For now: we keep this class as small as possible; it only handles WX-app
central events. The GraphEditor does everything else.
An alternative view would be that the GraphEditor is only concerned with
the actual network editor canvas. As I said, I'm still working on this.
NOTE: I'm leaning towards the latter approach.
A third approach would be to factor out a third class responsible for the
rest of the main UI. Then we'd have: WXInterface, GraphEditor,
MysteryClass.
"""
def __init__(self, devide_app):
self._devide_app = devide_app
self._main_frame = None
wx.App.__init__(self, 0)
self._graph_editor = None
self._python_shell = None
def OnInit(self):
"""Standard WX OnInit() method, called during construction.
"""
# set the wx.GetApp() application name
self.SetAppName('DeVIDE')
#self._main_frame = resources.python.mainFrame.mainFrame(
# None, -1, "dummy", name="DeVIDE")
self._title = 'DeVIDE v%s' % (self._devide_app.get_devide_version(),)
self._main_frame = main_frame.MainWXFrame(None, -1, self._title, (-1,-1),
(800,600))
wx.InitAllImageHandlers()
self._main_frame.SetIcon(self.getApplicationIcon())
wx.EVT_MENU(self._main_frame, self._main_frame.fileExitId,
self.exitCallback)
#wx.EVT_MENU(self._main_frame, self._main_frame.windowGraphEditorId,
# self._handlerMenuGraphEditor)
wx.EVT_MENU(self._main_frame, self._main_frame.window_python_shell_id,
self._handler_menu_python_shell)
#wx.EVT_MENU(self._main_frame, self._main_frame.windowMinimiseChildrenId,
# lambda e: self._windowIconizeAllChildren())
#wx.EVT_MENU(self._main_frame, self._main_frame.windowRestoreChildrenId,
# lambda e: self._windowRestoreAllChildren())
#wx.EVT_MENU(self._main_frame, self._main_frame.testingAllTestsId,
# self._handlerTestingAllTests)
wx.EVT_MENU(self._main_frame, self._main_frame.helpShowHelpId,
self._handlerHelpContents)
wx.EVT_MENU(self._main_frame, self._main_frame.helpAboutId,
self.aboutCallback)
# timer to update memory monitor every FIVE seconds
self.timer = wx.PyTimer(self._handler_update_memory_display)
self.timer.Start(5000)
self._handler_update_memory_display()
self._main_frame.Show(1)
# here we also show twice: in wxPython 2.4.2.4 the TextCtrls sometimes
# have difficulty completely drawing themselves at startup
self._main_frame.Show(1)
# with these calls, we force an immediate draw of the full window
# if we don't do this, some of the controls are only drawn when
# startup progress is 100% (this is on wxPython 2.6.0.1)
self._main_frame.Refresh()
self._main_frame.Update()
self.SetTopWindow(self._main_frame)
return True
def OnExit(self):
pass
def getApplicationIcon(self):
icon = wx.EmptyIcon()
icon.CopyFromBitmap(
resources.graphics.images.getdevidelogo32x32Bitmap())
return icon
def getMainWindow(self):
return self._main_frame
def get_main_window(self):
return self.getMainWindow()
def _handlerHelpContents(self, event):
self.showHelp()
def _handler_load_network_at_startup(self, event):
ge = self._graph_editor
fn = self._devide_app.main_config.load_network
ge._load_and_realise_network(fn)
ge.canvas.reset_view()
ge.set_current_filename(fn)
def _handler_test_all(self, event):
import testing
reload(testing)
dt = testing.DeVIDETesting(self._devide_app)
dt.runAllTests()
# after testing, we have to quit...
self.quit()
def handler_post_app_init(self):
"""AFTER we've started the GUI and performed all pre-imports, this
method makes sure that all other dependencies are imported into the
module namespace. We want these imports here, else the pre-imports
can't do their thing.
"""
global GraphEditor, PythonShell
from graph_editor import GraphEditor
import module_kits
from module_kits.wx_kit.python_shell import PythonShell
self.start_graph_editor()
# setup wx-based testing if necessary
if self._devide_app.main_config.test:
wx.EVT_TIMER(self, 999999, self._handler_test_all)
self.timer = wx.Timer(self, 999999)
self.timer.Start(150, True)
if self._devide_app.main_config.load_network:
# you have to keep a binding to the timer like this, or it
# doesn't work at all.
self.timer_ln = wx.Timer(self, -1)
# now bind the timer event
self.Bind(
wx.EVT_TIMER,
self._handler_load_network_at_startup,
self.timer_ln)
# then tell the timer to trigger it in 150ms
self.timer_ln.Start(150, True)
def _handler_update_memory_display(self):
vmu = psutil.virtmem_usage() # SWAP / pagefile memory
pmu = psutil.phymem_usage() # physical RAM
# we show the user how much physical+swap they're using out of the total available
total_used = (vmu[1]+pmu[1]) / 1024 / 1024 / 1024.0
total_avail = (vmu[0]+vmu[0]) / 1024 / 1024 / 1024.0
mem_msg = "%.1f / %.1f GB" % (total_used , total_avail)
# write into the second section of the statusbar
self._main_frame.GetStatusBar().SetStatusText(mem_msg, 1)
# and log a warning to the message window
if (total_avail > 0) and (total_used / total_avail > 0.95):
self.log_info("You have almost exhausted all available memory. Free up memory to prevent crashing.")
def quit(self):
"""Event handler for quit request.
Calls close on the app class, which will in turn call our close()
handler.
"""
self._devide_app.close()
def close(self):
# python shell and all its sub-windows need to be closed as well
if self._python_shell:
self._python_shell.close()
# take care of the graphEditor if it exists
if self._graph_editor:
self._graph_editor.close()
# take care of main window
self._main_frame.Close()
def showHelp(self):
webbrowser.open('http://code.google.com/p/devide/wiki/HelpIndex',
new=1, autoraise=1)
def start_python_shell(self):
if self._python_shell == None:
self._python_shell = PythonShell(self.getMainWindow(),
'Main DeVIDE Python Introspection',
self.getApplicationIcon(),
self._devide_app)
self._python_shell.inject_locals({'devide_app' : self._devide_app,
'obj' : self._python_shell})
self._python_shell.set_statusbar_message(
"'devide_app' is bound to the main app class, "
"'obj' to the shell.")
else:
self._python_shell.show()
def start_graph_editor(self):
if self._graph_editor == None:
self._graph_editor = GraphEditor(self, self._devide_app)
else:
self._graph_editor.show()
def log_error_list(self, msgs):
"""Log a list of strings as error.
This method must be supplied by all interfaces.
"""
for msg in msgs:
wx.LogError(msg)
wx.Log_FlushActive()
def log_error(self, message):
"""Log a single string as error.
This method must be supplied by all interfaces.
"""
self.log_error_list([message])
def log_info(self, message, timeStamp=True):
"""Log information.
This will simply go into the log window.
"""
if timeStamp:
msg = "%s: %s" % (
time.strftime("%X", time.localtime(time.time())),
message)
else:
msg = message
self._main_frame.message_log_text_ctrl.AppendText(
msg + '\n')
def log_message(self, message, timeStamp=True):
"""Use this to log a message that has to be shown to the user in
for example a message box.
"""
wx.LogMessage(message)
wx.Log_FlushActive()
def log_warning(self, message, timeStamp=True):
wx.LogWarning(message)
wx.Log_FlushActive()
def set_progress(self, progress, message, noTime=False):
self._main_frame.set_progress(int(round(progress)), message)
# we also output an informative message to standard out
# in cases where DeVIDE is very busy, this is quite
# handy.
print "%s: %.2f" % (message, progress)
# activate the busy cursor (we're a bit more lenient
# on its epsilon)
if abs(progress - 100.0) > 1:
if not wx.IsBusy():
wx.BeginBusyCursor()
# or switch it off
else:
if wx.IsBusy():
wx.EndBusyCursor()
# let's also show the completion message in the
# message log...
self.log_info(message)
# bring this window to the top if the user wants it
#if self._main_frame.progressRaiseCheckBox.GetValue():
# self._main_frame.Raise()
# we want wx to update its UI, but it shouldn't accept any
# user input, else things can get really crazy. -
# we do keep interaction for the main window enabled,
# but we disable all menus.
menuCount = self._main_frame.GetMenuBar().GetMenuCount()
for menuPos in range(menuCount):
self._main_frame.GetMenuBar().EnableTop(menuPos, False)
wx.SafeYield(win=self._main_frame)
for menuPos in range(menuCount):
self._main_frame.GetMenuBar().EnableTop(menuPos, True)
def set_status_message(self, msg):
self._main_frame.GetStatusBar().SetStatusText(msg)
def start_main_loop(self):
self.MainLoop()
def aboutCallback(self, event):
from resources.python.aboutDialog import aboutDialog
about = aboutDialog(self._main_frame, -1, 'dummy')
about.icon_bitmap.SetBitmap(
resources.graphics.images.getdevidelogo64x64Bitmap())
# set the main name and version
about.name_version_text.SetLabel(
'DeVIDE v%s' % (self._devide_app.get_devide_version(),))
# now get all other versions we require
pyver = string.split(sys.version)[0]
about.versions_listbox.Append('Python %s' % (pyver,))
# get versions of all included kits; by this time ModuleManager
# has been imported
kits_and_versions = []
import module_kits
for module_kit in module_kits.module_kit_list:
v = getattr(module_kits, module_kit).VERSION
about.versions_listbox.Append('%s: %s' % (module_kit, v))
about.GetSizer().Fit(about)
about.Layout()
about.CentreOnParent(wx.BOTH)
about.ShowModal()
about.Destroy()
def exitCallback(self, event):
self.quit()
def _handlerMenuGraphEditor(self, event):
self.start_graph_editor()
def _handler_menu_python_shell(self, event):
self.start_python_shell()
def set_current_filename(self, filename):
"""Change the window title to reflect the current network
filename. This is purely for display purposes and is used by
the Graph Editor.
"""
self._main_frame.SetTitle('%s - %s' % (self._title, filename))
def _windowIconizeAllChildren(self):
children = self._main_frame.GetChildren()
for w in children:
try:
if w.IsShown() and not w.IsIconized():
try:
w.Iconize()
except wx.PyAssertionError:
# we get this if it's not created yet
pass
except AttributeError:
# it's a panel for instance
pass
def _windowRestoreAllChildren(self):
children = self._main_frame.GetChildren()
for w in children:
try:
# we don't want to attempt to restore things that are
# hidden... only iconized
if w.IsShown() and w.IsIconized():
try:
w.Restore()
# after a restore, we have to do a show,
# or windows go crazy under Weendows.
w.Show()
except wx.PyAssertionError:
# this is usually "not implemented" on gtk, so we
# do an ugly work-around: store the window
# position, hide it, show it, reposition it -
# this even works under KDE
p = w.GetPosition()
w.Hide()
w.Show()
w.SetPosition(p)
except AttributeError:
# panels and stuff simply don't have this method
pass
| [
[
1,
0,
0.0211,
0.0023,
0,
0.66,
0,
155,
0,
1,
0,
0,
155,
0,
0
],
[
1,
0,
0.0258,
0.0023,
0,
0.66,
0.1111,
890,
0,
1,
0,
0,
890,
0,
0
],
[
1,
0,
0.0281,
0.0023,
0,
... | [
"import psutil",
"import string",
"import sys",
"import time",
"import webbrowser",
"import wx",
"import wx.html",
"import resources.graphics.images",
"import main_frame",
"class WXInterface(wx.App):\n \"\"\"WX-based graphical user interface for DeVIDE.\n\n This contains all functionality th... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import vtk
from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor
import wx
from module_kits.wx_kit import utils as wxutils
import wx.lib.agw.aui as aui
wx.aui = aui
from wx.html import HtmlWindow
class SimpleHTMLListBox(wx.HtmlListBox):
"""Simple class to emulate normal wx.ListBox (Append, Clear, GetClientData
and GetString methods) with the super-powers of the wx.HtmlListBox.
@author Charl P. Botha <http://cpbotha.net/>
"""
def __init__(self, *args, **kwargs):
wx.HtmlListBox.__init__(self, *args, **kwargs)
self.items = []
self.Clear()
def Append(self, text, data=None, refresh=True):
"""Emulates wx.ListBox Append method, except for refresh bit.
Set refresh to False if you're going to be appending bunches of
items. When you're done, call the DoRefresh() method explicitly.
"""
self.items.append((text, data))
if refresh:
self.SetItemCount(len(self.items))
self.Refresh()
def DoRefresh(self):
"""To be used after adding large amounts of items with Append and
refresh=False.
"""
self.SetItemCount(len(self.items))
self.Refresh()
def Clear(self):
del self.items[:]
self.SetSelection(-1)
self.SetItemCount(0)
def GetClientData(self, n):
if n >= 0 and n < len(self.items):
return self.items[n][1]
else:
return None
def GetCount(self):
return len(self.items)
def GetSelections(self):
"""Return list of selected indices just like the wx.ListBox.
"""
# coded up this method purely to see if we could use SimpleHTMLListBox also
# for the module categories thingy
sels = []
item, cookie = self.GetFirstSelected()
while item != wx.NOT_FOUND:
sels.append(item)
# ... process item ...
item = self.GetNextSelected(cookie)
return sels
def GetString(self, n):
if n >= 0 and n < len(self.items):
return self.items[n][0]
else:
return None
def OnGetItem(self, n):
try:
return '<font size=-1>%s</font>' % (self.items[n][0],)
except IndexError:
return ''
class ProgressStatusBar(wx.StatusBar):
"""
StatusBar with progress gauge embedded.
Code adapted from wxPython demo.py | CustomStatusBar.
"""
def __init__(self, parent):
wx.StatusBar.__init__(self, parent, -1)
# This status bar has three fields
self.SetFieldsCount(3)
# Sets the three fields to be relative widths to each other.
# status message gets the most room, then memory counter, then progress bar
self.SetStatusWidths([-4, -1, -2])
self.sizeChanged = False
self.Bind(wx.EVT_SIZE, self.OnSize)
self.Bind(wx.EVT_IDLE, self.OnIdle)
# This will fall into field 1 (the second field)
# check the Reposition method to see how this is positioned
self.gauge = wx.Gauge(self, -1, 100)
self.gauge.SetValue(50)
# set the initial position of the checkbox
self.Reposition()
def OnSize(self, evt):
self.Reposition() # for normal size events
# Set a flag so the idle time handler will also do the repositioning.
# It is done this way to get around a buglet where GetFieldRect is not
# accurate during the EVT_SIZE resulting from a frame maximize.
self.sizeChanged = True
def OnIdle(self, evt):
if self.sizeChanged:
self.Reposition()
# reposition the checkbox
def Reposition(self):
border = 3
rect = self.GetFieldRect(2)
self.gauge.SetPosition((rect.x+border, rect.y+border))
self.gauge.SetSize((rect.width-border*2, rect.height-border*2))
self.sizeChanged = False
class MainWXFrame(wx.Frame):
"""Class for building main user interface frame.
All event handling and other intelligence should be elsewhere.
"""
def __init__(self, parent, id=-1, title="", pos=wx.DefaultPosition,
size=wx.DefaultSize, style=wx.DEFAULT_FRAME_STYLE |
wx.SUNKEN_BORDER |
wx.CLIP_CHILDREN):
wx.Frame.__init__(self, parent, id, title, pos, size, style)
# tell FrameManager to manage this frame
self._mgr = wx.aui.AuiManager()
self._mgr.SetManagedWindow(self)
self._make_menu()
# statusbar
self.statusbar = ProgressStatusBar(self)
self.SetStatusBar(self.statusbar)
self.SetMinSize(wx.Size(400, 300))
# could make toolbars here
# now we need to add panes
# on GTK, this sequence is flipped! search panel is at the
# bottom, module list at the top.
sp = self._create_module_search_panel()
self._mgr.AddPane(
sp,
wx.aui.AuiPaneInfo().Name('module_search').
Caption('Module Search and Categories').Left().Position(0).
MinSize(sp.GetSize()).
CloseButton(False))
# a little trick I found in the PyAUI source code. This will make
# sure that the pane is as low (small y) as it can be
p = self._mgr.GetPane('module_search')
p.dock_proportion = 0
self.module_list = self._create_module_list()
self._mgr.AddPane(
self.module_list,
wx.aui.AuiPaneInfo().Name('module_list').Caption('Module List').
Left().CloseButton(False))
##################################################################
# setup VTK rendering pipeline for the graph editor
self._rwi, self._ren = self._create_graph_canvas()
self._mgr.AddPane(
self._rwi,
wx.aui.AuiPaneInfo().Name('graph_canvas').
Caption('Graph Canvas').CenterPane())
##################################################################
# these two also get swapped on GTK
self._mgr.AddPane(
self._create_documentation_window(),
wx.aui.AuiPaneInfo().Name('doc_window').
Caption('Module Help').Bottom().CloseButton(False))
self._mgr.AddPane(
self._create_log_window(),
wx.aui.AuiPaneInfo().Name('log_window').
Caption('Log Messages').Bottom().CloseButton(False))
self._mgr.Update()
# save this perspective
self.perspective_default = self._mgr.SavePerspective()
wx.EVT_MENU(self, self.window_default_view_id,
lambda e: self._mgr.LoadPerspective(
self.perspective_default) and self._mgr.Update())
def close(self):
self._ren.RemoveAllViewProps()
del self._ren
self._rwi.GetRenderWindow().Finalize()
self._rwi.SetRenderWindow(None)
del self._rwi
self.Destroy()
def _create_documentation_window(self):
self.doc_window = HtmlWindow(self, -1, size=(200,80))
fsa = wxutils.create_html_font_size_array()
self.doc_window.SetFonts("", "", fsa)
return self.doc_window
def _create_graph_canvas(self):
rwi = wxVTKRenderWindowInteractor(self, -1,
size=(400,400))
# we have to call this, else moving a modal dialogue over the
# graph editor will result in trails. Usually, a wxVTKRWI
# refuses to render if its top-level parent is disabled. This
# is to stop VTK pipeline updates whilst wx.SafeYield() is
# being called. In _this_ case, the VTK pipeline is safe, so
# we can disable this check.
rwi.SetRenderWhenDisabled(True)
ren = vtk.vtkRenderer()
rwi.GetRenderWindow().AddRenderer(ren)
rw = rwi.GetRenderWindow()
rw.SetLineSmoothing(1)
rw.SetPointSmoothing(1)
# PolygonSmoothing is not really necessary for the GraphEditor
# (yet), and on a GeForce 4600 Ti on Linux with driver version
# 1.0-9639, you can see triangle lines bisecting quads. Not
# a nice artifact, so I've disabled this for now.
#rw.SetPolygonSmoothing(1)
return (rwi, ren)
def _create_log_window(self):
tc = wx.TextCtrl(
self, -1, "", size=(200, 80),
style=wx.TE_MULTILINE|wx.TE_READONLY|wx.HSCROLL)
self.message_log_text_ctrl = tc
return tc
def _create_module_list(self):
self.module_list_box = SimpleHTMLListBox(
self, -1, size=(200,200),
style=wx.LB_SINGLE|wx.LB_NEEDED_SB)
return self.module_list_box
def _create_module_search_panel(self):
search_panel = wx.Panel(self, -1)
self.search = wx.SearchCtrl(search_panel, size=(200,-1), style=wx.TE_PROCESS_ENTER)
self.search.ShowSearchButton(1)
self.search.ShowCancelButton(1)
self.module_cats_choice = wx.Choice(search_panel,-1, size=(200,-1))
tl_sizer = wx.BoxSizer(wx.VERTICAL)
# option=0 so it doesn't fill vertically
tl_sizer.Add(self.search, 0, wx.EXPAND|wx.TOP|wx.LEFT|wx.RIGHT, 4)
tl_sizer.Add(self.module_cats_choice, 0, wx.EXPAND|wx.ALL, 4)
search_panel.SetAutoLayout(True)
search_panel.SetSizer(tl_sizer)
search_panel.GetSizer().Fit(search_panel)
search_panel.GetSizer().SetSizeHints(search_panel)
return search_panel
def _create_progress_panel(self):
progress_panel = wx.Panel(self, -1)#, size=wx.Size(100, 50))
self.progress_text = wx.StaticText(progress_panel, -1, "...")
self.progress_text.SetFont(
wx.Font(12, wx.DEFAULT, wx.NORMAL, wx.NORMAL, 0, ""))
self.progress_gauge = wx.Gauge(progress_panel, -1, 100)
self.progress_gauge.SetValue(50)
#self.progress_gauge.SetBackgroundColour(wx.Colour(50, 50, 204))
tl_sizer = wx.BoxSizer(wx.HORIZONTAL)
sizer = wx.BoxSizer(wx.VERTICAL)
# these are in a vertical sizer, so expand will make them draw
# out horizontally as well
sizer.Add(self.progress_text, 0, wx.EXPAND | wx.BOTTOM, 4)
sizer.Add(self.progress_gauge, 0, wx.EXPAND)
tl_sizer.Add(sizer, 1, wx.EXPAND | wx.ALL, 7)
#sizer.SetMinSize((100, 50))
progress_panel.SetAutoLayout(True)
progress_panel.SetSizer(tl_sizer)
progress_panel.GetSizer().Fit(progress_panel)
progress_panel.GetSizer().SetSizeHints(progress_panel)
return progress_panel
def _make_menu(self):
# Menu Bar
self.menubar = wx.MenuBar()
self.SetMenuBar(self.menubar)
self.fileNewId = wx.NewId()
self.fileOpenId = wx.NewId()
self.fileOpenSegmentId = wx.NewId()
self.fileSaveId = wx.NewId()
self.id_file_save_as = wx.NewId()
self.id_file_export = wx.NewId()
self.fileSaveSelectedId = wx.NewId()
self.fileExportAsDOTId = wx.NewId()
self.fileExportSelectedAsDOTId = wx.NewId()
self.fileExitId = wx.NewId()
self.window_python_shell_id = wx.NewId()
self.helpShowHelpId = wx.NewId()
self.helpAboutId = wx.NewId()
file_menu = wx.Menu()
file_menu.Append(self.fileNewId, "&New\tCtrl-N",
"Create new network.", wx.ITEM_NORMAL)
file_menu.Append(self.fileOpenId, "&Open\tCtrl-O",
"Open and load existing network.", wx.ITEM_NORMAL)
file_menu.Append(
self.fileOpenSegmentId, "Open as Se&gment\tCtrl-G",
"Open a DeVIDE network as a segment in the copy buffer.",
wx.ITEM_NORMAL)
file_menu.Append(self.fileSaveId, "&Save\tCtrl-S",
"Save the current network.", wx.ITEM_NORMAL)
file_menu.Append(self.id_file_save_as, "Save &As",
"Save the current network with a new filename.", wx.ITEM_NORMAL)
file_menu.Append(self.id_file_export, "&Export\tCtrl-E",
"Export the current network with relative filenames",
wx.ITEM_NORMAL)
file_menu.Append(self.fileSaveSelectedId,
"Save se&lected Glyphs\tCtrl-L",
"Save the selected glyphs as a network.",
wx.ITEM_NORMAL)
file_menu.AppendSeparator()
file_menu.Append(
self.fileExportAsDOTId, "Export as DOT file",
"Export the current network as a GraphViz DOT file.",
wx.ITEM_NORMAL)
file_menu.Append(self.fileExportSelectedAsDOTId,
"Export selection as DOT file",
"Export the selected glyphs as a GraphViz DOT file.",
wx.ITEM_NORMAL)
file_menu.AppendSeparator()
file_menu.Append(self.fileExitId, "E&xit\tCtrl-Q",
"Exit DeVIDE!", wx.ITEM_NORMAL)
self.menubar.Append(file_menu, "&File")
self.edit_menu = wx.Menu()
self.menubar.Append(self.edit_menu, "&Edit")
modules_menu = wx.Menu()
self.id_modules_search = wx.NewId()
modules_menu.Append(
self.id_modules_search, "Search for modules\tCtrl-F",
"Change input "
"focus to module search box.", wx.ITEM_NORMAL)
self.id_rescan_modules = wx.NewId()
modules_menu.Append(
self.id_rescan_modules, "Rescan modules", "Recheck all module "
"directories for new modules and metadata.", wx.ITEM_NORMAL)
self.id_refresh_module_kits = wx.NewId()
modules_menu.Append(
self.id_refresh_module_kits, "Refresh module kits",
"Attempt to refresh / reload all module_kits.", wx.ITEM_NORMAL)
self.menubar.Append(modules_menu, "&Modules")
self.network_menu = wx.Menu()
self.menubar.Append(self.network_menu, "&Network")
window_menu = wx.Menu()
self.window_default_view_id = wx.NewId()
window_menu.Append(
self.window_default_view_id, "Restore &default view",
"Restore default perspective / window configuration.",
wx.ITEM_NORMAL)
window_menu.Append(self.window_python_shell_id, "&Python Shell",
"Show the Python Shell interface.",
wx.ITEM_NORMAL)
self.menubar.Append(window_menu, "&Window")
help_menu = wx.Menu()
help_menu.Append(self.helpShowHelpId, "Show &Help\tF1", "",
wx.ITEM_NORMAL)
help_menu.Append(self.helpAboutId, "About", "",
wx.ITEM_NORMAL)
self.menubar.Append(help_menu, "&Help")
# Menu Bar end
def set_progress(self, percentage, message):
self.statusbar.gauge.SetValue(percentage)
self.statusbar.SetStatusText(message, 0)
| [
[
1,
0,
0.0114,
0.0023,
0,
0.66,
0,
665,
0,
1,
0,
0,
665,
0,
0
],
[
1,
0,
0.0137,
0.0023,
0,
0.66,
0.1111,
201,
0,
1,
0,
0,
201,
0,
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],
[
1,
0,
0.016,
0.0023,
0,
0... | [
"import vtk",
"from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor",
"import wx",
"from module_kits.wx_kit import utils as wxutils",
"import wx.lib.agw.aui as aui",
"wx.aui = aui",
"from wx.html import HtmlWindow",
"class SimpleHTMLListBox(wx.HtmlListBox):\n \"\"\"Simple clas... |
from main import WXInterface
| [
[
1,
0,
1,
1,
0,
0.66,
0,
624,
0,
1,
0,
0,
624,
0,
0
]
] | [
"from main import WXInterface"
] |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
"""Collection of module utility functions.
@author: Charl P. Botha <http://cpbotha.net/>
"""
import wx
import resources.graphics.images
def create_eoca_buttons(d3module, viewFrame, viewFramePanel,
ok_default=True,
cancel_hotkey=True):
"""Add Execute, OK, Cancel and Apply buttons to the viewFrame.
d3module is the module for which these buttons are being added.
viewFrame is the actual dialog frame.
viewFramePanel is the top-level panel in the frame, i.e. the panel
completely filling the top-level sizer.
IMPORTANT: viewFrame must have a top-level sizer that contains ONLY
the viewFramePanel. This is the default for wxGlade created dialogs
with a top-level panel. The viewFramePanel's sizer must be a
vertical box sizer that contains ANOTHER sizer with a 7 pixel border
all around. These ECAS buttons will be in a sibling sizer to that
ANOTHER sizer.
The buttons will be created with the viewFramePanel as their
parent. They will be added to a horizontal sizer which will then
be added to viewFramePanel.GetSizer(). The viewFramePanel sizer
will then be used to fit the viewFramePanel.
After this, the viewFrame.GetSizer() will be used to fit and
layout the frame itself.
"""
# create the buttons
viewFrame.executeButtonId = wx.NewId()
viewFrame.executeButton = wx.Button(viewFramePanel,
viewFrame.executeButtonId,
"&Execute")
viewFrame.executeButton.SetToolTip(wx.ToolTip(
"Apply all changes, then execute the whole network "\
"(F5 or Alt-E)."))
viewFrame.id_ok_button = wx.ID_OK
viewFrame.ok_button = wx.Button(
viewFramePanel, viewFrame.id_ok_button, "OK")
viewFrame.ok_button.SetToolTip(wx.ToolTip(
"Apply all changes, then close this dialogue (Enter)."))
viewFrame.id_cancel_button = wx.ID_CANCEL
viewFrame.cancel_button = wx.Button(
viewFramePanel, viewFrame.id_cancel_button, "Cancel")
viewFrame.cancel_button.SetToolTip(wx.ToolTip(
"Cancel all changes, then close this dialogue (Esc)."))
viewFrame.applyButtonId = wx.NewId()
viewFrame.applyButton = wx.Button(viewFramePanel,
viewFrame.applyButtonId,
"Apply")
viewFrame.applyButton.SetToolTip(wx.ToolTip(
"Apply all changes, keep this dialogue open."))
# add them to their own sizer, each with a border of 4 pixels on the right
buttonSizer = wx.BoxSizer(wx.HORIZONTAL)
for button in (viewFrame.executeButton, viewFrame.ok_button,
viewFrame.cancel_button):
buttonSizer.Add(button, 0, wx.RIGHT, 7)
# except for the right-most button, which has no border
buttonSizer.Add(viewFrame.applyButton, 0)
# add the buttonSizer to the viewFramePanel sizer with a border of 7 pixels
# on the left, right and bottom... remember, this is below a sizer with
# a 7 pixel border all around!
# (we do it with 8, because the default execute button is quite big!)
viewFramePanel.GetSizer().Add(buttonSizer, 0,
wx.LEFT|wx.RIGHT|wx.BOTTOM|wx.ALIGN_RIGHT, 8)
# force the sizer to calculate new layout with all children (because
# we've just added something)
viewFramePanel.GetSizer().Layout()
# fit and setsizehints (autolayout should remain on)
viewFramePanel.GetSizer().Fit(viewFramePanel)
viewFramePanel.GetSizer().SetSizeHints(viewFramePanel)
# now we have to get the top level sizer to do its thing
# WORKAROUND - if we don't remove and add, the
# viewFrame.GetSizer().Layout() below doesn't do anything.
viewFrame.GetSizer().Remove(viewFramePanel)
viewFrame.GetSizer().Add(viewFramePanel, 1, wx.EXPAND, 0)
# WORKAROUND ENDS
viewFrame.GetSizer().Layout() # this should update the minimum size
viewFrame.GetSizer().Fit(viewFrame)
viewFrame.GetSizer().SetSizeHints(viewFrame)
# EVENT BINDINGS
mm = d3module._module_manager
# call back into the graphEditor, if it exists
ge = mm._devide_app.get_interface()._graph_editor
# execute
wx.EVT_BUTTON(viewFrame, viewFrame.executeButtonId,
lambda e: (mm.apply_module_view_to_logic(d3module),
mm.execute_network(d3module)))
# OK (apply and close)
wx.EVT_BUTTON(viewFrame, viewFrame.id_ok_button,
lambda e, vf=viewFrame:
(mm.apply_module_view_to_logic(d3module),
vf.Show(False)))
# Cancel
def helper_cancel():
mm.syncModuleViewWithLogic(d3module)
viewFrame.Show(False)
wx.EVT_BUTTON(viewFrame, viewFrame.id_cancel_button,
lambda e: helper_cancel())
# Apply
wx.EVT_BUTTON(viewFrame, viewFrame.applyButtonId,
lambda e: mm.apply_module_view_to_logic(d3module))
# make sure that OK is the default button
# unless the user specifies otherwise - in frames where we make
# use of an introspection shell, we don't want Enter to executeh
# or Ctrl-Enter to execute the whole network.
accel_list = []
if cancel_hotkey:
# this doesn't work for frames, but I'm keeping it here just
# in case. We use the EVT_CHAR_HOOK later to capture escape
accel_list.append(
(wx.ACCEL_NORMAL, wx.WXK_ESCAPE,
viewFrame.id_cancel_button))
# add F5 hotkey to this dialogue as well so that we can execute
accel_list.append(
(wx.ACCEL_NORMAL, wx.WXK_F5,
viewFrame.executeButtonId))
if ok_default:
viewFrame.ok_button.SetDefault()
accel_list.append(
(wx.ACCEL_NORMAL, wx.WXK_RETURN,
viewFrame.id_ok_button))
# setup some hotkeys as well
viewFrame.SetAcceleratorTable(wx.AcceleratorTable(accel_list))
def handler_evt_char_hook(event):
if event.KeyCode == wx.WXK_ESCAPE:
helper_cancel()
else:
event.Skip()
if cancel_hotkey:
# this is the only way to capture escape on a frame
viewFrame.Bind(wx.EVT_CHAR_HOOK, handler_evt_char_hook)
def create_standard_object_introspection(d3module,
viewFrame, viewFramePanel,
objectDict,
renderWindow=None):
"""Given a devide module and its viewframe, this will create a
standard wxChoice and wxButton (+ labels) UI for object and
introspection. In addition, it'll call setup_object_introspection
in order to bind events to these controls.
In order to use this, the module HAS to use the
IntrospectModuleMixin.
IMPORTANT: viewFrame must have a top-level sizer that contains ONLY
the viewFramePanel. This is the default for wxGlade created dialogs
with a top-level panel. The viewFramePanel's sizer must be a
vertical box sizer. That sizer must contain yet ANOTHER sizer with a 7
pixel border all around. The introspection controls will be created
as a sibling to the ANOTHER sizer. Also see the moduleWriting guide.
"""
introspect_button_id = wx.NewId()
introspect_button = wx.Button(viewFramePanel, introspect_button_id, "Introspect")
ocLabel = wx.StaticText(viewFramePanel, -1, "the")
objectChoiceId = wx.NewId()
objectChoice = wx.Choice(viewFramePanel, objectChoiceId, choices=[])
objectChoice.SetToolTip(wx.ToolTip(
"Select an object from the drop-down box to introspect it."))
hSizer = wx.BoxSizer(wx.HORIZONTAL)
hSizer.Add(introspect_button, 0, wx.RIGHT|wx.ALIGN_CENTER_VERTICAL, 4)
hSizer.Add(ocLabel, 0, wx.RIGHT|wx.ALIGN_CENTER_VERTICAL, 4)
hSizer.Add(objectChoice, 1, wx.RIGHT|wx.ALIGN_CENTER_VERTICAL, 4)
vSizer = wx.BoxSizer(wx.VERTICAL)
sl = wx.StaticLine(viewFramePanel, -1)
vSizer.Add(sl, 0, wx.CENTER|wx.EXPAND|wx.BOTTOM, 7)
vSizer.Add(hSizer, 0, wx.CENTER|wx.EXPAND)
# this will usually get added right below an existing sizer with 7 points
# border all around. Below us the ECAS buttons will be added and these
# assume that there is a 7 pixel border above them, which is why we
# supply a 7 pixel below us.
viewFramePanel.GetSizer().Add(vSizer, 0,
wx.LEFT|wx.RIGHT|wx.BOTTOM|wx.EXPAND, 7)
# force the sizer to calculate new layout with all children (because
# we've just added something)
viewFramePanel.GetSizer().Layout()
# fit and setsizehints (autolayout should remain on)
viewFramePanel.GetSizer().Fit(viewFramePanel)
viewFramePanel.GetSizer().SetSizeHints(viewFramePanel)
# now we have to get the top level sizer to do its thing
# WORKAROUND - if we don't remove and add, the
# viewFrame.GetSizer().Layout() below doesn't do anything.
viewFrame.GetSizer().Remove(viewFramePanel)
viewFrame.GetSizer().Add(viewFramePanel, 1, wx.EXPAND, 0)
# WORKAROUND ENDS
viewFrame.GetSizer().Layout() # this should update the minimum size
viewFrame.GetSizer().Fit(viewFrame)
viewFrame.GetSizer().SetSizeHints(viewFrame)
# finally do the actual event setup
setup_object_introspection(d3module, viewFrame, objectDict,
renderWindow,
objectChoice, introspect_button_id)
def get_module_icon():
icon = wx.EmptyIcon()
icon.CopyFromBitmap(
resources.graphics.images.getdevidelogom32x32Bitmap())
return icon
def create_module_view_frame_title(d3module):
mm = d3module._module_manager
return '%s View (%s)' % \
(d3module.__class__.__name__,
mm.get_instance_name(d3module))
def instantiate_module_view_frame(d3module, module_manager, frameClass):
# instantiate the frame
pw = module_manager.get_module_view_parent_window()
# name becomes the WM_CLASS under X
viewFrame = frameClass(pw, -1, 'dummy', name='DeVIDE')
# make sure that it's only hidden when it's closed
wx.EVT_CLOSE(viewFrame,
lambda e: viewFrame.Show(False))
# set its title (is there not an easier way to get the class name?)
viewFrame.SetTitle(create_module_view_frame_title(d3module))
# set its icon!
viewFrame.SetIcon(get_module_icon())
return viewFrame
def setup_object_introspection(d3module, viewFrame, objectDict,
renderWindow,
objectChoice, introspect_button_id,
):
"""Setup all object introspection for standard module views with a
choice for object introspection. Call this if you have a
wx.Choice and wx.Button ready!
viewFrame is the actual window of the module view.
objectDict is a dictionary with object name strings as keys and object
instances as values.
renderWindow is an optional renderWindow that'll be used for updating,
pass as None if you don't have this.
objectChoice is the object choice widget.
objectChoiceId is the event id connected to the objectChoice widget.
In order to use this, the module HAS to use the
IntrospectModuleMixin.
"""
# fill out the objectChoice with the object names
objectChoice.Clear()
for objectName in objectDict.keys():
objectChoice.Append(objectName)
# default on first object
objectChoice.SetSelection(0)
# setup the two default callbacks
wx.EVT_BUTTON(viewFrame, introspect_button_id,
lambda e: d3module._defaultObjectChoiceCallback(
viewFrame, renderWindow, objectChoice, objectDict))
def setup_vtk_object_progress(d3module, obj, progressText):
# we DON'T use SetProgressMethod, as the handler object then needs
# to store a binding to the vtkProcessObject, which means that
# the objects never die... this way, there are no refs
# in addition, the AddObserver is the standard way for doing this
# we should probably not use ProgressText though...
obj.SetProgressText(progressText)
mm = d3module._module_manager
obj.AddObserver(
'ProgressEvent', lambda vtko, name:
mm.generic_progress_callback(vtko,
vtko.GetClassName(),
vtko.GetProgress(),
progressText))
| [
[
8,
0,
0.0207,
0.0127,
0,
0.66,
0,
0,
1,
0,
0,
0,
0,
0,
0
],
[
1,
0,
0.0318,
0.0032,
0,
0.66,
0.1111,
666,
0,
1,
0,
0,
666,
0,
0
],
[
1,
0,
0.035,
0.0032,
0,
0.66,... | [
"\"\"\"Collection of module utility functions.\n\n@author: Charl P. Botha <http://cpbotha.net/>\n\"\"\"",
"import wx",
"import resources.graphics.images",
"def create_eoca_buttons(d3module, viewFrame, viewFramePanel,\n ok_default=True, \n cancel_hotkey=True):\n ... |
# python rules. severely.
# (c) 2007 cpbotha
import glob
import sys
import os
import shutil
import zipfile
def main():
cwd = os.path.abspath(os.curdir)
hhp_dir = os.path.join(cwd, 'devidehelp_tmphhp')
os.chdir(hhp_dir)
htb_list = glob.glob('*.html') + \
glob.glob('*.png') + \
glob.glob('devide.hh?') + \
['CSHelp.txt']
zf = zipfile.ZipFile('../../devide.htb', 'w', zipfile.ZIP_DEFLATED)
for fn in htb_list:
zf.write(fn)
zf.close()
# also copy the CHM file for the windows people.
shutil.copy('devide.chm', '../../')
if __name__ == '__main__':
main()
| [
[
1,
0,
0.1212,
0.0303,
0,
0.66,
0,
958,
0,
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0,
0,
958,
0,
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],
[
1,
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0,
0,
509,
0,
0
],
[
1,
0,
0.1818,
0.0303,
0,
... | [
"import glob",
"import sys",
"import os",
"import shutil",
"import zipfile",
"def main():\n cwd = os.path.abspath(os.curdir)\n hhp_dir = os.path.join(cwd, 'devidehelp_tmphhp')\n\n os.chdir(hhp_dir)\n\n htb_list = glob.glob('*.html') + \\\n glob.glob('*.png') + \\",
" cwd = os.path... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
import module_utils
import vtk
import math
class MarschnerLobb(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# setup config
self._config.resolution = 40
# and then our scripted config
configList = [
('Resolution: ', 'resolution', 'base:int', 'text',
'x, y and z resolution of sampled volume. '
'According to the article, should be 40 to be '
'at Nyquist.')]
# now create the necessary VTK modules
self._es = vtk.vtkImageEllipsoidSource()
self._es.SetOutputScalarTypeToFloat()
self._ic = vtk.vtkImageChangeInformation()
self._ic.SetInputConnection(self._es.GetOutputPort())
self._output = vtk.vtkImageData()
# mixin ctor
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._es
del self._ic
def execute_module(self):
e = self._config.resolution
self._es.SetWholeExtent(0,e-1,0,e-1,0,e-1)
spc = 2.0 / (e - 1)
self._ic.SetOutputSpacing(spc, spc, spc)
self._ic.SetOutputOrigin(-1.0, -1.0, -1.0)
self._ic.Update()
data = self._ic.GetOutput()
fm = 6
alpha = 0.25
topa = 2.0 * (1.0 + alpha)
dimx,dimy,dimz = data.GetDimensions()
dx,dy,dz = data.GetSpacing()
ox,oy,oz = data.GetOrigin()
progress = 0.0
pinc = 100.0 / dimz
for k in range(dimz):
z = oz + k * dz
for j in range(dimy):
y = oy + j * dy
for i in range(dimx):
x = ox + i * dx
rho_r = math.cos(2 * math.pi * fm *
math.cos(math.pi * math.hypot(x,y) / 2.0))
rho = (1.0 - math.sin(math.pi * z / 2.0) + alpha *
(1.0 + rho_r)) / topa
data.SetScalarComponentFromDouble(i,j,k,0,rho)
progress += pinc
self._module_manager.set_progress(progress, 'Sampling function.')
self._output.ShallowCopy(data)
def get_input_descriptions(self):
return ()
def set_input(self, idx, input_stream):
raise Exception
def get_output_descriptions(self):
return ('Marschner-Lobb volume',)
def get_output(self, idx):
return self._output
def config_to_logic(self):
pass
def logic_to_config(self):
pass
| [
[
1,
0,
0.0446,
0.0089,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0536,
0.0089,
0,
0.66,
0.2,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0625,
0.0089,
0,
0.6... | [
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"import module_utils",
"import vtk",
"import math",
"class MarschnerLobb(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\n\n ... |
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
import module_utils
import vtk
class manualTransform(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.scale = (1.0, 1.0, 1.0)
self._config.orientation = (0.0, 0.0, 0.0)
self._config.translation = (0.0, 0.0, 0.0)
configList = [
('Scaling:', 'scale', 'tuple:float,3', 'tupleText',
'Scale factor in the x, y and z directions in world units.'),
('Orientation:', 'orientation', 'tuple:float,3', 'tupleText',
'Rotation, in order, around the x, the new y and the new z axes '
'in degrees.'),
('Translation:', 'translation', 'tuple:float,3', 'tupleText',
'Translation in the x,y,z directions.')]
self._transform = vtk.vtkTransform()
# we want changes here to happen AFTER the transformations
# represented by the input
self._transform.PostMultiply()
# has no progress!
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'vtkTransform' : self._transform})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# get rid of our reference
del self._transform
def execute_module(self):
self._transform.Update()
def get_input_descriptions(self):
return ()
def set_input(self, idx, inputStream):
raise Exception
def get_output_descriptions(self):
return ('VTK Transform',)
def get_output(self, idx):
return self._transform
def logic_to_config(self):
self._config.scale = self._transform.GetScale()
self._config.orientation = self._transform.GetOrientation()
self._config.translation = self._transform.GetPosition()
def config_to_logic(self):
# we have to reset the transform firstn
self._transform.Identity()
self._transform.Scale(self._config.scale)
self._transform.RotateX(self._config.orientation[0])
self._transform.RotateY(self._config.orientation[1])
self._transform.RotateZ(self._config.orientation[2])
self._transform.Translate(self._config.translation)
| [
[
1,
0,
0.012,
0.012,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0241,
0.012,
0,
0.66,
0.25,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0361,
0.012,
0,
0.66,
... | [
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"import module_utils",
"import vtk",
"class manualTransform(ScriptedConfigModuleMixin, ModuleBase):\n\n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\n\n self._conf... |
# $Id$
class advectionProperties:
kits = ['vtk_kit']
cats = ['Sources']
help = """Given a series of prepared advection volumes (each input is a
timestep), calculate a number of metrics.
The first input HAS to have a VolumeIndex PointData attribute/array. For
example, the output of the pointsToSpheres that you used BEFORE having
passed through the first probeFilters. This first input will NOT be used
for the actual calculations, but only for point -> volume lookups.
Calculations will be performed for the second input and onwards.
This module writes a CSV file with the volume centroids over time, and
secretly writes a python file with all data as a python nested list.
This can easily be loaded in a Python script for further analysis.
"""
class cptDistanceField:
kits = ['vtk_kit']
cats = ['Sources']
help = """Driver module for Mauch's CPT code.
This takes an image data and a mesh input. The imagedata is only used
to determine the bounds of the output distance field. The mesh
is converted to the CPT brep format using the DeVIDE cptBrepWRT module.
A geom file is created. The CPT driver is executed with the geom and
brep files. The output distance field is read, y-axis is flipped, and
the whole shebang is made available at the output.
Contributions to module code by Stef Busking.
Suggestion: On Windows, your driver.bat could make use of plink /
pscp to copy data to a linux server and run Mauch's code there,
and then copy everything back. On Linux you can run Mauch's code
directly.
"""
class implicitToVolume:
kits = ['vtk_kit']
cats = ['Sources']
help = """Given an implicit function, this module will evaluate it over
a volume and yield that volume as output.
"""
class manualTransform:
kits = ['vtk_kit']
cats = ['Sources']
help = """Manually create linear transform by entering scale factors,
rotation angles and translations.
Scaling is performed, then rotation, then translation. It is often easier
to chain manualTransform modules than performing all transformations at
once.
"""
class MarschnerLobb:
kits = ['vtk_kit']
cats = ['Sources']
help = """Pure Python filter to generate Marschner-Lobb test
volume.
When resolution is left at the default value of 40, the generated
volume should be at the Nyquist frequency of the signal (analytic
function) that it has sampled.
Pure Python implementation: for the default resolution, takes a
second or two, 200 cubed takes about 20 seconds on Core2 hardware.
"""
class PassThrough:
kits = []
cats = ['Filters', 'System']
help = """Simple pass-through filter.
This is quite useful if you have a source that connects to a
number of consumers, and you want to be able to change sources
easily. Connect the source to the PassThrough, and the
PassThrough output to all the consumers. Now when you replace the
source, you only have to reconnect one module.
"""
class pointsToSpheres:
kits = ['vtk_kit']
cats = ['Sources']
help = """Given a set of selected points (for instance from a slice3dVWR),
generate polydata spheres centred at these points with user-specified
radius. The spheres' interiors are filled with smaller spheres. This is
useful when using selected points to generate points for seeding
streamlines or calculating advection by a vector field.
Each point's sphere has an array associated to its pointdata called
'VolumeIndex'. All values in this array are equal to the corresponding
point's index in the input points list.
"""
class superQuadric:
kits = ['vtk_kit']
cats = ['Sources']
help = """Generates a SuperQuadric implicit function and polydata as
outputs.
"""
| [
[
3,
0,
0.0972,
0.1481,
0,
0.66,
0,
13,
0,
0,
0,
0,
0,
0,
0
],
[
14,
1,
0.037,
0.0093,
1,
0.38,
0,
190,
0,
0,
0,
0,
0,
5,
0
],
[
14,
1,
0.0463,
0.0093,
1,
0.38,
... | [
"class advectionProperties:\n kits = ['vtk_kit']\n cats = ['Sources']\n help = \"\"\"Given a series of prepared advection volumes (each input is a\n timestep), calculate a number of metrics.\n\n The first input HAS to have a VolumeIndex PointData attribute/array. For\n example, the output of the ... |
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
import module_utils
class PassThrough(NoConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
# initialise our base class
ModuleBase.__init__(self, module_manager)
NoConfigModuleMixin.__init__(
self, {'Module (self)' : self})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
NoConfigModuleMixin.close(self)
def get_input_descriptions(self):
return ('Anything',)
def set_input(self, idx, input_stream):
self._input = input_stream
def get_output_descriptions(self):
return ('Same as input', )
def get_output(self, idx):
return self._input
def execute_module(self):
pass
| [
[
1,
0,
0.027,
0.027,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0541,
0.027,
0,
0.66,
0.3333,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0811,
0.027,
0,
0.66... | [
"from module_base import ModuleBase",
"from module_mixins import NoConfigModuleMixin",
"import module_utils",
"class PassThrough(NoConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n # initialise our base class\n ModuleBase.__init__(self, module_manager)\n\n NoConfi... |
# dumy __init__ so this directory can function as a package
| [] | [] |
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
import vtk
import vtkdevide
import wx
class histogramSegment(IntrospectModuleMixin, ModuleBase):
"""Mooooo! I'm a cow.
$Revision: 1.9 $
"""
_gridCols = [('Type', 0), ('Number of Handles',0)]
_gridTypeCol = 0
_gridNOHCol = 1
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._createViewFrame()
self._grid = self._viewFrame.selectorGrid
self._buildPipeline()
self._selectors = []
self._config.selectorList = []
self._initialiseGrid()
self._bindEvents()
# display the window
self._viewFrame.Show(True)
def close(self):
# disconnect our inputs
for i in range(len(self.get_input_descriptions())):
self.set_input(i, None)
self._renderer.RemoveAllViewProps()
self._viewFrame.rwi.GetRenderWindow().Finalize()
self._viewFrame.rwi.SetRenderWindow(None)
del self._viewFrame.rwi
self._viewFrame.Destroy()
# call close method of base class
ModuleBase.close(self)
def get_config(self):
return self._config
def set_config(self, config):
pass
def set_configPostConnect(self, config):
# first nuke all current selectors (but prevent updates to config
# and the stencil)
indices = range(len(self._selectors))
self._removeSelector(indices, preventSync=True)
for d in config.selectorList:
self._addSelector(d['type'], len(d['handlePositions']))
for hidx in range(len(d['handlePositions'])):
self._selectors[-1]['widget'].SetHandlePosition(
hidx, d['handlePositions'][hidx])
# we've now added all selectors, sync up everything!
self._postSelectorChange()
def get_input_descriptions(self):
return ('Image Data 1', 'Imaga Data 2')
def set_input(self, idx, inputStream):
def checkTypeAndReturnInput(inputStream):
"""Check type of input. None gets returned. The input is
returned if it has a valid type. An exception is thrown if
the input is invalid.
"""
if inputStream == None:
# disconnect
return None
else:
# first check the type
validType = False
try:
if inputStream.IsA('vtkImageData'):
validType = True
except AttributeError:
# validType is already False
pass
if not validType:
raise TypeError, 'Input has to be of type vtkImageData.'
else:
return inputStream
if idx == 0:
input0 = checkTypeAndReturnInput(inputStream)
if input0 == None:
# we HAVE to destroy the overlayipw first (the stencil
# logic is NOT well-behaved)
self._deactivateOverlayIPW()
self._histogram.SetInput1(input0)
self._lookupAppend.SetInput(0, input0)
elif idx == 1:
input1 = checkTypeAndReturnInput(inputStream)
if input1 == None:
# we HAVE to destroy the overlayipw first (the stencil
# logic is NOT well-behaved)
self._deactivateOverlayIPW()
self._histogram.SetInput2(input1)
if self._lookupAppend.GetNumberOfInputPorts() < 2:
self._lookupAppend.AddInput(input1)
else:
self._lookupAppend.SetInput(1, input1)
if self._histogram.GetInput(0) and self._histogram.GetInput(1):
if self._ipw == None:
self._createIPW()
self._activateOverlayIPW()
else:
# this means at least one input is not valid - so we can disable
# the primary IPW. The overlay is dead by this time.
if self._ipw != None:
self._ipw.Off()
self._ipw.SetInteractor(None)
self._ipw.SetInput(None)
self._ipw = None
self._renderer.RemoveActor(self._axes)
self._axes = None
if 0:
# also disable scalarBarWidget
self._scalarBarWidget.Off()
self._scalarBarWidget.SetInteractor(None)
self._scalarBarWidget.GetScalarBarActor().SetLookupTable(
None)
self._scalarBarWidget = None
def get_output_descriptions(self):
return ('Segmented vtkImageData', 'Histogram Stencil')
def get_output(self, idx):
if idx == 0:
return self._lookup.GetOutput()
else:
return self._stencil.GetOutput()
def execute_module(self):
pass
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
pass
def config_to_view(self):
pass
def view(self):
self._viewFrame.Show(True)
self._viewFrame.Raise()
# -------------------------------------------------------
# END OF API METHODS
# -------------------------------------------------------
def _activateOverlayIPW(self):
if self._overlayipw == None and \
self._ipw and \
self._histogram.GetInput(0) and \
self._histogram.GetInput(1) and \
len(self._selectors) > 0:
# we only do this if absolutely necessary
# connect these two up ONLY if we have valid selectors
self._stencil.SetStencil(self._pdToImageStencil.GetOutput())
self._overlayipw = vtk.vtkImagePlaneWidget()
self._overlayipw.SetInput(self._stencil.GetOutput())
self._stencil.GetOutput().Update()
self._overlayipw.SetInput(self._stencil.GetOutput())
self._overlayipw.SetInteractor(self._viewFrame.rwi)
self._overlayipw.SetPlaneOrientation(2)
self._overlayipw.SetSliceIndex(0)
# build the lut
lut = vtk.vtkLookupTable()
lut.SetTableRange(0, 1)
lut.SetHueRange(0.0, 0.0)
lut.SetSaturationRange(1.0, 1.0)
lut.SetValueRange(1.0, 1.0)
lut.SetAlphaRange(0.0, 0.3)
lut.Build()
self._overlayipw.SetUserControlledLookupTable(1)
self._overlayipw.SetLookupTable(lut)
self._overlayipw.On()
self._overlayipw.InteractionOff()
self._render()
def _deactivateOverlayIPW(self):
if self._overlayipw:
print "switching off overlayipw"
self._overlayipw.Off()
self._overlayipw.SetInteractor(None)
self._overlayipw.SetInput(None)
self._overlayipw = None
print "disconnecting stencil"
# also disconnect this guy, or we crash!
self._stencil.SetStencil(None)
def _addSelector(self, selectorType, numPoints):
if selectorType == 'Spline':
sw = vtk.vtkSplineWidget()
else:
sw = vtkdevide.vtkPolyLineWidget()
sw.SetCurrentRenderer(self._renderer)
sw.SetDefaultRenderer(self._renderer)
sw.SetInput(self._histogram.GetOutput())
sw.SetInteractor(self._viewFrame.rwi)
sw.PlaceWidget()
sw.ProjectToPlaneOn()
sw.SetProjectionNormalToZAxes()
sw.SetProjectionPosition(0.00)
sw.SetPriority(0.6)
sw.SetNumberOfHandles(numPoints)
sw.SetClosed(1)
sw.On()
swPolyData = vtk.vtkPolyData()
self._selectors.append({'type' : selectorType,
'widget' : sw,
'polyData' : swPolyData})
# add it to the appendPd
self._appendPD.AddInput(swPolyData)
nrGridRows = self._grid.GetNumberRows()
self._grid.AppendRows()
self._grid.SetCellValue(nrGridRows, self._gridTypeCol, selectorType)
self._grid.SetCellValue(nrGridRows, self._gridNOHCol,
str(sw.GetNumberOfHandles()))
self._postSelectorChange()
sw.AddObserver('EndInteractionEvent',
self._observerSelectorEndInteraction)
# make sure this is on
self._activateOverlayIPW()
def _bindEvents(self):
# fix the broken grid
wx.grid.EVT_GRID_RANGE_SELECT(
self._grid, self._handlerGridRangeSelect)
wx.EVT_BUTTON(self._viewFrame, self._viewFrame.addButton.GetId(),
self._handlerAddSelector)
wx.EVT_BUTTON(self._viewFrame, self._viewFrame.removeButton.GetId(),
self._handlerRemoveSelector)
wx.EVT_BUTTON(self._viewFrame,
self._viewFrame.changeHandlesButton.GetId(),
self._handlerChangeNumberOfHandles)
def _buildPipeline(self):
"""Build underlying pipeline and configure rest of pipeline-dependent
UI.
"""
# add the renderer
self._renderer = vtk.vtkRenderer()
self._renderer.SetBackground(0.5, 0.5, 0.5)
self._viewFrame.rwi.GetRenderWindow().AddRenderer(
self._renderer)
self._histogram = vtkdevide.vtkImageHistogram2D()
# make sure the user can't do anything entirely stupid
istyle = vtk.vtkInteractorStyleImage()
self._viewFrame.rwi.SetInteractorStyle(istyle)
# we'll use this to keep track of our ImagePlaneWidget
self._ipw = None
self._overlayipw = None
self._scalarBarWidget = None
#
self._appendPD = vtk.vtkAppendPolyData()
self._extrude = vtk.vtkLinearExtrusionFilter()
self._extrude.SetInput(self._appendPD.GetOutput())
self._extrude.SetScaleFactor(1)
self._extrude.SetExtrusionTypeToNormalExtrusion()
self._extrude.SetVector(0,0,1)
self._pdToImageStencil = vtk.vtkPolyDataToImageStencil()
self._pdToImageStencil.SetInput(self._extrude.GetOutput())
# stupid trick to make image with all ones, but as large as its
# input
self._allOnes = vtk.vtkImageThreshold()
self._allOnes.ThresholdByLower(0.0)
self._allOnes.ThresholdByUpper(0.0)
self._allOnes.SetInValue(1.0)
self._allOnes.SetOutValue(1.0)
self._allOnes.SetInput(self._histogram.GetOutput())
self._stencil = vtk.vtkImageStencil()
self._stencil.SetInput(self._allOnes.GetOutput())
#self._stencil.SetStencil(self._pdToImageStencil.GetOutput())
self._stencil.ReverseStencilOff()
self._stencil.SetBackgroundValue(0)
self._lookupAppend = vtk.vtkImageAppendComponents()
self._lookup = vtkdevide.vtkHistogramLookupTable()
self._lookup.SetInput1(self._lookupAppend.GetOutput())
self._lookup.SetInput2(self._stencil.GetOutput())
module_utils.create_standard_object_introspection(
self, self._viewFrame, self._viewFrame.viewFramePanel,
{'Module (self)' : self,
'vtkHistogram2D' : self._histogram,
'vtkRenderer' : self._renderer},
self._renderer.GetRenderWindow())
# add the ECASH buttons
module_utils.create_eoca_buttons(self, self._viewFrame,
self._viewFrame.viewFramePanel)
def _createIPW(self):
# we have to do this to get the correct log range
self._histogram.GetOutput().Update()
# this means we have newly valid input and should setup an ipw
self._ipw = vtk.vtkImagePlaneWidget()
self._histogram.GetOutput().Update()
self._ipw.SetInput(self._histogram.GetOutput())
self._ipw.SetInteractor(self._viewFrame.rwi)
# normal to the Z-axis
self._ipw.SetPlaneOrientation(2)
self._ipw.SetSliceIndex(0)
# setup specific lut
srange = self._histogram.GetOutput().GetScalarRange()
lut = vtk.vtkLookupTable()
lut.SetScaleToLog10()
lut.SetTableRange(srange)
lut.SetSaturationRange(1.0,1.0)
lut.SetValueRange(1.0, 1.0)
lut.SetHueRange(0.1, 1.0)
lut.Build()
self._ipw.SetUserControlledLookupTable(1)
self._ipw.SetLookupTable(lut)
self._ipw.SetDisplayText(1)
# if we use ContinousCursor, we get OffImage when zoomed
# on Linux (really irritating) but not on Windows. A VTK
# recompile might help, we'll see.
self._ipw.SetUseContinuousCursor(1)
# make sure the user can't twist the plane out of sight
self._ipw.SetMiddleButtonAction(0)
self._ipw.SetRightButtonAction(0)
# add an observer
self._ipw.AddObserver('StartInteractionEvent',
self._observerIPWInteraction)
self._ipw.AddObserver('InteractionEvent',
self._observerIPWInteraction)
self._ipw.AddObserver('EndInteractionEvent',
self._observerIPWInteraction)
self._ipw.On()
self._axes = vtk.vtkCubeAxesActor2D()
self._axes.SetFlyModeToOuterEdges()
# NOBODY will ever know why we have to switch off the Y axis when
# we actually want the Z-axis to go away.
self._axes.YAxisVisibilityOff()
self._axes.SetBounds(self._ipw.GetResliceOutput().GetBounds())
self._renderer.AddActor(self._axes)
self._axes.SetCamera(self._renderer.GetActiveCamera())
self._axes.PickableOff()
if 0:
# now add a scalarbar
self._scalarBarWidget = vtk.vtkScalarBarWidget()
self._scalarBarWidget.SetInteractor(self._viewFrame.rwi)
self._scalarBarWidget.GetScalarBarActor().SetTitle('Frequency')
self._scalarBarWidget.GetScalarBarActor().SetLookupTable(
lut)
# and activate
self._scalarBarWidget.On()
self._resetCamera()
self._render()
def _createViewFrame(self):
# create the viewerFrame
import modules.viewers.resources.python.histogramSegmentFrames
# this reload is temporary during development
reload(modules.viewers.resources.python.histogramSegmentFrames)
viewFrame = modules.viewers.resources.python.histogramSegmentFrames.\
viewFrame
# DeVIDE takes care of the icon and the window close handlers
self._viewFrame = module_utils.instantiate_module_view_frame(
self, self._module_manager, viewFrame)
def _handlerAddSelector(self, event):
typeString = self._viewFrame.selectorTypeChoice.GetStringSelection()
self._addSelector(typeString, 5)
def _handlerChangeNumberOfHandles(self, event):
# first check that the user has actually selected something we
# can work with...
selectedRows = self._grid.GetSelectedRows()
if len(selectedRows) == 0:
return
nohText = wx.GetTextFromUser(
'Enter a new number of handles > 2 for all selected selectors.')
if nohText:
try:
nohInt = int(nohText)
except ValueError:
pass
else:
if nohInt < 2:
nohInt = 2
for row in selectedRows:
self._selectors[row]['widget'].SetNumberOfHandles(nohInt)
self._grid.SetCellValue(row, self._gridNOHCol,
str(nohInt))
# we've made changes to the selectors, so we have to
# notify the stencil.... (and other stuff)
self._postSelectorChange()
def _observerIPWInteraction(self, e, o):
if not self._ipw:
return
cd = 4 * [0.0]
if self._ipw.GetCursorData(cd):
if 0:
# get world position (at least for first two coords)
inp = self._ipw.GetInput()
spacing = inp.GetSpacing()
origin = inp.GetOrigin()
# calculate origin + spacing * discrete (only if we're getting
# discrete values from the IPW, which we aren't)
temp = [s * d for s,d in zip(spacing, cd[0:3])]
w = [o + t for o,t in zip(origin,temp)]
#
self._viewFrame.cursorValuesText.SetValue(
'%.2f, %.2f == %d' % (cd[0], cd[1], int(cd[3])))
def _handlerRemoveSelector(self, event):
selectedRows = self._grid.GetSelectedRows()
if len(selectedRows) > 0:
self._removeSelector(selectedRows)
# after that, we have to sync
self._postSelectorChange()
self._render()
def _handlerGridRangeSelect(self, event):
"""This event handler is a fix for the fact that the row
selection in the wxGrid is deliberately broken. It's also
used to activate and deactivate relevant menubar items.
Whenever a user clicks on a cell, the grid SHOWS its row
to be selected, but GetSelectedRows() doesn't think so.
This event handler will travel through the Selected Blocks
and make sure the correct rows are actually selected.
Strangely enough, this event always gets called, but the
selection is empty when the user has EXPLICITLY selected
rows. This is not a problem, as then the GetSelectedRows()
does return the correct information.
"""
# both of these are lists of (row, column) tuples
tl = self._grid.GetSelectionBlockTopLeft()
br = self._grid.GetSelectionBlockBottomRight()
# this means that the user has most probably clicked on the little
# block at the top-left corner of the grid... in this case,
# SelectRow has no frikking effect (up to wxPython 2.4.2.4) so we
# detect this situation and clear the selection (we're going to be
# selecting the whole grid in anycase.
if tl == [(0,0)] and br == [(self._grid.GetNumberRows() - 1,
self._grid.GetNumberCols() - 1)]:
self._grid.ClearSelection()
for (tlrow, tlcolumn), (brrow, brcolumn) in zip(tl, br):
for row in range(tlrow,brrow + 1):
self._grid.SelectRow(row, True)
def _initialiseGrid(self):
# delete all existing columns
self._grid.DeleteCols(0, self._grid.GetNumberCols())
# we need at least one row, else adding columns doesn't work (doh)
self._grid.AppendRows()
# setup columns
self._grid.AppendCols(len(self._gridCols))
for colIdx in range(len(self._gridCols)):
# add labels
self._grid.SetColLabelValue(colIdx, self._gridCols[colIdx][0])
# set size according to labels
self._grid.AutoSizeColumns()
for colIdx in range(len(self._gridCols)):
# now set size overrides
size = self._gridCols[colIdx][1]
if size > 0:
self._grid.SetColSize(colIdx, size)
# make sure we have no rows again...
self._grid.DeleteRows(0, self._grid.GetNumberRows())
def _observerSelectorEndInteraction(self, obj, evt):
# we don't HAVE to do this immediately, but it's fun
self._postSelectorChange()
def _postSelectorChange(self):
self._syncStencilMask()
self._syncConfigWithSelectors()
def _removeSelector(self, indices, preventSync=False):
if indices:
# we have to delete these things from behind (he he he)
indices.sort()
indices.reverse()
for idx in indices:
# take care of the selector
w = self._selectors[idx]['widget']
wpd = self._selectors[idx]['polyData']
w.Off()
w.SetInteractor(None)
w.SetInput(None)
self._appendPD.RemoveInput(wpd)
del(self._selectors[idx])
# reflect the removal in the grid
self._grid.DeleteRows(idx, 1)
if len(self._selectors) == 0:
self._deactivateOverlayIPW()
if not preventSync:
# sometimes, we don't want this to be called, as it will cause
# unnecessary updates, for example when we nuke ALL selectors
# during a set_config
self._postSelectorChange()
def _render(self):
self._renderer.GetRenderWindow().Render()
def _resetCamera(self):
# make sure camera is cool
cam = self._renderer.GetActiveCamera()
cam.ParallelProjectionOn()
self._renderer.ResetCamera()
ps = cam.GetParallelScale()
# get the camera a tad closer than VTK default
cam.SetParallelScale(ps / 2.9)
def _syncStencilMask(self):
for d in self._selectors:
sw = d['widget']
spd = d['polyData']
# transfer polydata
sw.GetPolyData(spd)
if self._overlayipw:
# the stencil is a bitch - we have to be very careful about when
# we talk to it...
self._stencil.Update()
def _syncConfigWithSelectors(self):
# we could get the data from the selector polydata, but we'll rather
# get it from the handles, because that's ultimately how we'll
# restore it again
del self._config.selectorList[:]
for d in self._selectors:
handlePositions = []
widget = d['widget']
for hidx in range(widget.GetNumberOfHandles()):
# it's important that we create a new var everytime
thp = [0.0, 0.0, 0.0]
widget.GetHandlePosition(hidx, thp)
handlePositions.append(thp)
self._config.selectorList.append(
{'type' : d['type'],
'handlePositions' : handlePositions})
| [
[
1,
0,
0.0016,
0.0016,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0031,
0.0016,
0,
0.66,
0.1667,
676,
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1,
0,
0,
676,
0,
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],
[
1,
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0,
... | [
"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin",
"import module_utils",
"import vtk",
"import vtkdevide",
"import wx",
"class histogramSegment(IntrospectModuleMixin, ModuleBase):\n \"\"\"Mooooo! I'm a cow.\n\n $Revision: 1.9 $\n \"\"\"\n\n _gridCols =... |
from external import wxPyPlot
import gen_utils
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
try:
import Numeric
except:
import numarray as Numeric
import vtk
import wx
class histogram1D(IntrospectModuleMixin, ModuleBase):
"""Calculates and shows 1D histogram (occurrences over value) of its
input data.
$Revision: 1.3 $
"""
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._imageAccumulate = vtk.vtkImageAccumulate()
module_utils.setup_vtk_object_progress(self, self._imageAccumulate,
'Calculating histogram')
self._viewFrame = None
self._createViewFrame()
self._bindEvents()
self._config.numberOfBins = 256
self._config.minValue = 0.0
self._config.maxValue = 256.0
self.config_to_logic()
self.logic_to_config()
self.config_to_view()
self.view()
def close(self):
for i in range(len(self.get_input_descriptions())):
self.set_input(i, None)
self._viewFrame.Destroy()
del self._viewFrame
del self._imageAccumulate
ModuleBase.close(self)
def get_input_descriptions(self):
return ('VTK Image Data',)
def set_input(self, idx, inputStream):
self._imageAccumulate.SetInput(inputStream)
def get_output_descriptions(self):
return ()
def logic_to_config(self):
# for now, we work on the first component (of a maximum of three)
# we could make this configurable
minValue = self._imageAccumulate.GetComponentOrigin()[0]
cs = self._imageAccumulate.GetComponentSpacing()
ce = self._imageAccumulate.GetComponentExtent()
numberOfBins = ce[1] - ce[0] + 1
# again we use nob - 1 so that maxValue is also part of a bin
maxValue = minValue + (numberOfBins-1) * cs[0]
self._config.numberOfBins = numberOfBins
self._config.minValue = minValue
self._config.maxValue = maxValue
def config_to_logic(self):
co = list(self._imageAccumulate.GetComponentOrigin())
co[0] = self._config.minValue
self._imageAccumulate.SetComponentOrigin(co)
ce = list(self._imageAccumulate.GetComponentExtent())
ce[0] = 0
ce[1] = self._config.numberOfBins - 1
self._imageAccumulate.SetComponentExtent(ce)
cs = list(self._imageAccumulate.GetComponentSpacing())
# we divide by nob - 1 because we want maxValue to fall in the
# last bin...
cs[0] = (self._config.maxValue - self._config.minValue) / \
(self._config.numberOfBins - 1)
self._imageAccumulate.SetComponentSpacing(cs)
def view_to_config(self):
self._config.numberOfBins = gen_utils.textToInt(
self._viewFrame.numBinsSpinCtrl.GetValue(),
self._config.numberOfBins)
self._config.minValue = gen_utils.textToFloat(
self._viewFrame.minValueText.GetValue(),
self._config.minValue)
self._config.maxValue = gen_utils.textToFloat(
self._viewFrame.maxValueText.GetValue(),
self._config.maxValue)
if self._config.minValue > self._config.maxValue:
self._config.maxValue = self._config.minValue
def config_to_view(self):
self._viewFrame.numBinsSpinCtrl.SetValue(
self._config.numberOfBins)
self._viewFrame.minValueText.SetValue(
str(self._config.minValue))
self._viewFrame.maxValueText.SetValue(
str(self._config.maxValue))
def execute_module(self):
if self._imageAccumulate.GetInput() == None:
return
self._imageAccumulate.Update()
# get histogram params directly from logic
minValue = self._imageAccumulate.GetComponentOrigin()[0]
cs = self._imageAccumulate.GetComponentSpacing()
ce = self._imageAccumulate.GetComponentExtent()
numberOfBins = ce[1] - ce[0] + 1
maxValue = minValue + numberOfBins * cs[0]
# end of param extraction
histArray = Numeric.arange(numberOfBins * 2)
histArray.shape = (numberOfBins, 2)
od = self._imageAccumulate.GetOutput()
for i in range(numberOfBins):
histArray[i,0] = minValue + i * cs[0]
histArray[i,1] = od.GetScalarComponentAsDouble(i,0,0,0)
lines = wxPyPlot.PolyLine(histArray, colour='blue')
self._viewFrame.plotCanvas.Draw(
wxPyPlot.PlotGraphics([lines], "Histogram", "Value", "Occurrences")
)
def view(self):
self._viewFrame.Show()
self._viewFrame.Raise()
# ---------------------------------------------------------------
# END of API methods
# ---------------------------------------------------------------
def _createViewFrame(self):
# create the viewerFrame
import modules.viewers.resources.python.histogram1DFrames
reload(modules.viewers.resources.python.histogram1DFrames)
self._viewFrame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
modules.viewers.resources.python.histogram1DFrames.\
histogram1DFrame)
self._viewFrame.plotCanvas.SetEnableZoom(True)
self._viewFrame.plotCanvas.SetEnableGrid(True)
objectDict = {'Module (self)' : self,
'vtkImageAccumulate' : self._imageAccumulate}
module_utils.create_standard_object_introspection(
self, self._viewFrame, self._viewFrame.viewFramePanel,
objectDict, None)
module_utils.create_eoca_buttons(self, self._viewFrame,
self._viewFrame.viewFramePanel)
def _bindEvents(self):
wx.EVT_BUTTON(self._viewFrame,
self._viewFrame.autoRangeButton.GetId(),
self._handlerAutoRangeButton)
def _handlerAutoRangeButton(self, event):
if self._imageAccumulate.GetInput() == None:
return
self._imageAccumulate.GetInput().Update()
sr = self._imageAccumulate.GetInput().GetScalarRange()
self._viewFrame.minValueText.SetValue(str(sr[0]))
self._viewFrame.maxValueText.SetValue(str(sr[1]))
| [
[
1,
0,
0.005,
0.005,
0,
0.66,
0,
924,
0,
1,
0,
0,
924,
0,
0
],
[
1,
0,
0.0099,
0.005,
0,
0.66,
0.125,
714,
0,
1,
0,
0,
714,
0,
0
],
[
1,
0,
0.0149,
0.005,
0,
0.66,... | [
"from external import wxPyPlot",
"import gen_utils",
"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin",
"import module_utils",
"try:\n import Numeric\nexcept:\n import numarray as Numeric",
" import Numeric",
" import numarray as Numeric",
"import vt... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
import cStringIO
from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor
import wx
# wxPython 2.8.8.1 wx.aui bugs severely on GTK. See:
# http://trac.wxwidgets.org/ticket/9716
# Until this is fixed, use this PyAUI to which I've added a
# wx.aui compatibility layer.
if wx.Platform == "__WXGTK__":
from external import PyAUI
wx.aui = PyAUI
else:
import wx.aui
# one could have loaded a wxGlade created resource like this:
#from resources.python import DICOMBrowserPanels
#reload(DICOMBrowserPanels)
class SkeletonAUIViewerFrame(wx.Frame):
"""wx.Frame child class used by SkeletonAUIViewer for its
interface.
This is an AUI-managed window, so we create the top-level frame,
and then populate it with AUI panes.
"""
def __init__(self, parent, id=-1, title="", name=""):
wx.Frame.__init__(self, parent, id=id, title=title,
pos=wx.DefaultPosition, size=(800,800), name=name)
self.menubar = wx.MenuBar()
self.SetMenuBar(self.menubar)
file_menu = wx.Menu()
self.id_file_open = wx.NewId()
file_menu.Append(self.id_file_open, "&Open\tCtrl-O",
"Open a file", wx.ITEM_NORMAL)
self.menubar.Append(file_menu, "&File")
views_menu = wx.Menu()
views_default_id = wx.NewId()
views_menu.Append(views_default_id, "&Default\tCtrl-0",
"Activate default view layout.", wx.ITEM_NORMAL)
views_max_image_id = wx.NewId()
views_menu.Append(views_max_image_id, "&Maximum image size\tCtrl-1",
"Activate maximum image view size layout.",
wx.ITEM_NORMAL)
self.menubar.Append(views_menu, "&Views")
# tell FrameManager to manage this frame
self._mgr = wx.aui.AuiManager()
self._mgr.SetManagedWindow(self)
self._mgr.AddPane(self._create_series_pane(), wx.aui.AuiPaneInfo().
Name("series").Caption("Series").Top().
BestSize(wx.Size(600, 100)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_files_pane(), wx.aui.AuiPaneInfo().
Name("files").Caption("Image Files").
Left().
BestSize(wx.Size(200,400)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_meta_pane(), wx.aui.AuiPaneInfo().
Name("meta").Caption("Image Metadata").
Left().
BestSize(wx.Size(200,400)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_rwi_pane(), wx.aui.AuiPaneInfo().
Name("rwi").Caption("3D Renderer").
Center().
BestSize(wx.Size(400,400)).
CloseButton(False).MaximizeButton(True))
self.SetMinSize(wx.Size(400, 300))
# first we save this default perspective with all panes
# visible
self._perspectives = {}
self._perspectives['default'] = self._mgr.SavePerspective()
# then we hide all of the panes except the renderer
self._mgr.GetPane("series").Hide()
self._mgr.GetPane("files").Hide()
self._mgr.GetPane("meta").Hide()
# save the perspective again
self._perspectives['max_image'] = self._mgr.SavePerspective()
# and put back the default perspective / view
self._mgr.LoadPerspective(self._perspectives['default'])
# finally tell the AUI manager to do everything that we've
# asked
self._mgr.Update()
# we bind the views events here, because the functionality is
# completely encapsulated in the frame and does not need to
# round-trip to the DICOMBrowser main module.
self.Bind(wx.EVT_MENU, self._handler_default_view,
id=views_default_id)
self.Bind(wx.EVT_MENU, self._handler_max_image_view,
id=views_max_image_id)
def close(self):
self.Destroy()
def _create_files_pane(self):
sl = wx.ListCtrl(self, -1,
style=wx.LC_REPORT)
sl.InsertColumn(0, "Full name")
# we'll autosize this column later
sl.SetColumnWidth(0, 300)
#sl.InsertColumn(SeriesColumns.modality, "Modality")
self.files_lc = sl
return sl
def _create_rwi_pane(self):
panel = wx.Panel(self, -1)
self.rwi = wxVTKRenderWindowInteractor(panel, -1, (400,400))
self.button1 = wx.Button(panel, -1, "Add Superquadric")
self.button2 = wx.Button(panel, -1, "Reset Camera")
self.button3 = wx.Button(panel, -1, "Start Timer Event")
button_sizer = wx.BoxSizer(wx.HORIZONTAL)
button_sizer.Add(self.button1)
button_sizer.Add(self.button2)
button_sizer.Add(self.button3)
sizer1 = wx.BoxSizer(wx.VERTICAL)
sizer1.Add(self.rwi, 1, wx.EXPAND|wx.BOTTOM, 7)
sizer1.Add(button_sizer)
tl_sizer = wx.BoxSizer(wx.VERTICAL)
tl_sizer.Add(sizer1, 1, wx.ALL|wx.EXPAND, 7)
panel.SetSizer(tl_sizer)
tl_sizer.Fit(panel)
return panel
def _create_meta_pane(self):
ml = wx.ListCtrl(self, -1,
style=wx.LC_REPORT |
wx.LC_HRULES | wx.LC_VRULES |
wx.LC_SINGLE_SEL)
ml.InsertColumn(0, "Key")
ml.SetColumnWidth(0, 70)
ml.InsertColumn(1, "Value")
ml.SetColumnWidth(1, 70)
self.meta_lc = ml
return ml
def _create_series_pane(self):
sl = wx.ListCtrl(self, -1,
style=wx.LC_REPORT | wx.LC_HRULES | wx.LC_SINGLE_SEL,
size=(600,120))
sl.InsertColumn(0, "Description")
sl.SetColumnWidth(1, 170)
sl.InsertColumn(2, "Modality")
sl.InsertColumn(3, "# Images")
sl.InsertColumn(4, "Size")
self.series_lc = sl
return sl
def render(self):
"""Update embedded RWI, i.e. update the image.
"""
self.rwi.Render()
def _handler_default_view(self, event):
"""Event handler for when the user selects View | Default from
the main menu.
"""
self._mgr.LoadPerspective(
self._perspectives['default'])
def _handler_max_image_view(self, event):
"""Event handler for when the user selects View | Max Image
from the main menu.
"""
self._mgr.LoadPerspective(
self._perspectives['max_image'])
| [
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0.0233,
0.0047,
0,
0.66,
0,
764,
0,
1,
0,
0,
764,
0,
0
],
[
1,
0,
0.0279,
0.0047,
0,
0.66,
0.25,
201,
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0,
0,
201,
0,
0
],
[
1,
0,
0.0326,
0.0047,
0,
0.... | [
"import cStringIO",
"from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor",
"import wx",
"if wx.Platform == \"__WXGTK__\":\n from external import PyAUI\n wx.aui = PyAUI\nelse:\n import wx.aui",
" from external import PyAUI",
" wx.aui = PyAUI",
" import wx.aui",
... |
# Modified by Francois Malan, LUMC / TU Delft
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor
import wx
import wx.lib.inspection
import vtk
# wxPython 2.8.8.1 wx.aui bugs severely on GTK. See:
# http://trac.wxwidgets.org/ticket/9716
# Until this is fixed, use this PyAUI to which I've added a
# wx.aui compatibility layer.
if wx.Platform == "__WXGTK__":
from external import PyAUI
wx.aui = PyAUI
else:
import wx.aui
import MaskComBinarPanels
reload(MaskComBinarPanels)
class MaskComBinarFrame(wx.Frame):
"""wx.Frame child class used by MaskComBinar for its
interface.
This is an AUI-managed window, so we create the top-level frame,
and then populate it with AUI panes.
"""
def __init__(self, parent, id=-1, title="", name=""):
wx.Frame.__init__(self, parent, id=id, title=title,
pos=wx.DefaultPosition, size=(800,600), name=name)
self._create_menubar()
# tell FrameManager to manage this frame
self._mgr = wx.aui.AuiManager()
self._mgr.SetManagedWindow(self)
self._mgr.AddPane(self._create_mask_operations_pane(), wx.aui.AuiPaneInfo().
Name("operations").Caption("Operations").Left().
BestSize(wx.Size(275, 65)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_mask_lists_pane(), wx.aui.AuiPaneInfo().
Name("masks").Caption("Masks").Left().
BestSize(wx.Size(275, 450)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_rwi2d_pane(), wx.aui.AuiPaneInfo().
Name("rwi2D").Caption("2D").
Right().
BestSize(wx.Size(300,500)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_rwi3d_pane(), wx.aui.AuiPaneInfo().
Name("rwi3D").Caption("3D").
Center().
BestSize(wx.Size(300,500)).
CloseButton(False).MaximizeButton(True))
self.SetMinSize(wx.Size(400, 300))
# first we save this default perspective with all panes
# visible
self._perspectives = {}
self._perspectives['default'] = self._mgr.SavePerspective()
# then we hide all of the panes except the renderer
#self._mgr.GetPane("Masks").Hide()
self._mgr.GetPane("files").Hide()
self._mgr.GetPane("meta").Hide()
# save the perspective again
self._perspectives['max_image'] = self._mgr.SavePerspective()
# and put back the default perspective / view
self._mgr.LoadPerspective(self._perspectives['default'])
# finally tell the AUI manager to do everything that we've
# asked
self._mgr.Update()
# # we bind the views events here, because the functionality is
# # completely encapsulated in the frame and does not need to
# # round-trip to the DICOMBrowser main module.
# self.Bind(wx.EVT_MENU, self._handler_default_view,
# id=views_default_id)
#
# self.Bind(wx.EVT_MENU, self._handler_max_image_view,
# id=views_max_image_id)
def close(self):
self.Destroy()
def _create_menubar(self):
self.menubar = wx.MenuBar()
self.SetMenuBar(self.menubar)
menu_file = wx.Menu()
self.id_open_binary_mask = wx.NewId()
menu_file.Append(self.id_open_binary_mask, "&Open binary Mask\tCtrl-O",
"Open a binary mask", wx.ITEM_NORMAL)
self.id_open_multi_mask = wx.NewId()
menu_file.Append(self.id_open_multi_mask, "&Open multilabel Mask\tCtrl-Alt-O",
"Open an integer-labeled mask", wx.ITEM_NORMAL)
self.id_open_mask_dir = wx.NewId()
menu_file.Append(self.id_open_mask_dir, "&Open Directory\tCtrl-Shift-O",
"Open all masks from a directory", wx.ITEM_NORMAL)
self.id_save_mask = wx.NewId()
menu_file.Append(self.id_save_mask, "&Save Mask\tCtrl-S",
"Save a mask", wx.ITEM_NORMAL)
self.id_save_multi_mask = wx.NewId()
menu_file.Append(self.id_save_multi_mask, "&Save multilabel Mask\tCtrl-Alt-S",
"Save selected (A) to multi-label (integer-labeled) mask", wx.ITEM_NORMAL)
self.id_quit = wx.NewId()
menu_file.Append(self.id_quit, "&Exit\tCtrl-Q",
"Exit MaskComBinar", wx.ITEM_NORMAL)
menu_advanced = wx.Menu()
self.id_introspect = wx.NewId()
menu_advanced.Append(self.id_introspect, "Introspect",
"Open an introspection window", wx.ITEM_NORMAL)
menu_help = wx.Menu()
self.id_about = wx.NewId()
menu_help.Append(self.id_about, "About",
"About MaskComBinar", wx.ITEM_NORMAL)
self.menubar.Append(menu_file, "&File")
self.menubar.Append(menu_advanced, "&Advanced")
self.menubar.Append(menu_help, "&Help")
def _create_rwi2d_pane(self):
panel = wx.Panel(self, -1)
self.rwi2d = wxVTKRenderWindowInteractor(panel, -1, (400,400))
self.reset_cam2d_button = wx.Button(panel, -1, "Reset View")
button_sizer = wx.BoxSizer(wx.HORIZONTAL)
button_sizer.Add(self.reset_cam2d_button)
sizer1 = wx.BoxSizer(wx.VERTICAL)
sizer1.Add(self.rwi2d, 1, wx.EXPAND|wx.BOTTOM, 7)
sizer1.Add(button_sizer)
tl_sizer = wx.BoxSizer(wx.VERTICAL)
tl_sizer.Add(sizer1, 1, wx.ALL|wx.EXPAND, 7)
panel.SetSizer(tl_sizer)
tl_sizer.Fit(panel)
return panel
def _create_rwi3d_pane(self):
panel = wx.Panel(self, -1)
self.rwi3d = wxVTKRenderWindowInteractor(panel, -1, (400,400))
istyle = vtk.vtkInteractorStyleTrackballCamera()
self.rwi3d.SetInteractorStyle(istyle)
self.reset_cam3d_button = wx.Button(panel, -1, "Reset Zoom")
button_sizer = wx.BoxSizer(wx.HORIZONTAL)
button_sizer.Add(self.reset_cam3d_button)
sizer1 = wx.BoxSizer(wx.VERTICAL)
sizer1.Add(self.rwi3d, 1, wx.EXPAND|wx.BOTTOM, 7)
sizer1.Add(button_sizer)
tl_sizer = wx.BoxSizer(wx.VERTICAL)
tl_sizer.Add(sizer1, 1, wx.ALL|wx.EXPAND, 7)
panel.SetSizer(tl_sizer)
tl_sizer.Fit(panel)
return panel
def _create_mask_lists_pane(self):
# instantiated wxGlade frame
iff = MaskComBinarPanels.MaskListsFrame(self, id=-1,size=(600,200))
panel = iff.mask_lists_panel
# reparent the panel to us
panel.Reparent(self)
self.list_ctrl_maskA = iff.list_ctrl_maskA
self.list_ctrl_maskB = iff.list_ctrl_maskB
self.clear_selection_button = iff.button_clear_selection
self.masks_pane = panel
iff.Destroy()
return panel
def _create_mask_operations_pane(self):
# instantiated wxGlade frame
iff = MaskComBinarPanels.MaskOperationsFrame(self, id=-1,size=(600,200))
panel = iff.mask_operations_panel
# reparent the panel to us
panel.Reparent(self)
self.mask_join_button = iff.add_button
self.mask_subtract_button = iff.subtract_button
self.mask_intersect_button = iff.and_button
self.mask_align_metadata_button = iff.align_metadata_button
self.mask_align_icp_button = iff.align_icp_button
self.split_disconnected_button = iff.split_disconnected_button
self.test_selected_dimensions_button = iff.check_selected_dimensions_button
self.test_all_dimensions_button = iff.check_all_dimensions_button
self.test_selected_intersections_button = iff.check_selected_overlaps_button
self.test_all_intersections_button = iff.check_all_overlaps_button
self.operations_pane = panel
self.volume_button = iff.volume_button
self.dice_coefficient_button = iff.dice_button
self.hausdorff_distance_button = iff.hausdorff_button
self.mean_hausdorff_distance_button = iff.mean_hausdorff_button
iff.Destroy()
return panel
def render(self):
"""Update embedded RWI, i.e. update the image.
"""
self.rwi2d.Render()
self.rwi3d.Render()
def _handler_default_view(self, event):
"""Event handler for when the user selects View | Default from
the main menu.
"""
self._mgr.LoadPerspective(
self._perspectives['default'])
def _handler_max_image_view(self, event):
"""Event handler for when the user selects View | Max Image
from the main menu.
"""
self._mgr.LoadPerspective(
self._perspectives['max_image'])
def clear_selections(self):
indices = self._get_selected_indices_in_listctrl(self.list_ctrl_maskA)
for i in indices:
self.list_ctrl_maskA.Select(i, 0)
indices = self._get_selected_indices_in_listctrl(self.list_ctrl_maskB)
for i in indices:
self.list_ctrl_maskB.Select(i, 0)
def _get_selected_indices_in_listctrl(self, listctrl):
'''Returns the indices of items selected in the provided listctrl'''
indices = set()
index = -1
while True:
index = listctrl.GetNextItem(index, wx.LIST_NEXT_ALL, wx.LIST_STATE_SELECTED)
if index == -1:
break
else:
indices.add(index)
return indices
def _get_all_indices_in_listctrl(self, listctrl):
'''Returns the indices of items selected in the provided listctrl'''
indices = set()
index = -1
while True:
index = listctrl.GetNextItem(index, wx.LIST_NEXT_ALL)
if index == -1:
break
else:
indices.add(index)
return indices
def _get_selected_mask_names_in_listctrl(self, listctrl):
'''Returns the unique identifying names of masks selected in the provided listctrl'''
indices = self._get_selected_indices_in_listctrl(listctrl)
mask_names = set()
for i in indices:
mask_names.add(listctrl.GetItem(i).GetText())
return mask_names
def get_selected_mask_names_a(self):
'''Returns the unique identifying names of masks selected in mask list A'''
return self._get_selected_mask_names_in_listctrl(self.list_ctrl_maskA)
def get_selected_mask_names_b(self):
'''Returns the unique identifying names of masks selected in mask list B'''
return self._get_selected_mask_names_in_listctrl(self.list_ctrl_maskB)
def add_mask(self, mask_name):
num_items = self.list_ctrl_maskA.GetItemCount() #Should be identical for list B
num_itemsB = self.list_ctrl_maskB.GetItemCount()
if num_items != num_itemsB:
self.dialog_error("Numer of items in Lists A doesn't match list B! (%d vs %d)" % (num_items, num_itemsB), "Mask list mismatch!")
self.list_ctrl_maskA.InsertStringItem(num_items, mask_name)
self.list_ctrl_maskB.InsertStringItem(num_items, mask_name)
def delete_mask(self, mask_name):
indices = self._get_all_indices_in_listctrl(self.list_ctrl_maskA)
for index in indices:
list_name = self.list_ctrl_maskA.GetItem(index).GetText()
if list_name == mask_name:
self.list_ctrl_maskA.DeleteItem(index)
self.list_ctrl_maskB.DeleteItem(index)
break
return
def dialog_info(self, message, title):
dlg = wx.MessageDialog(self, message,title,wx.OK)
dlg.ShowModal()
def dialog_exclaim(self, message, title):
dlg = wx.MessageDialog(self, message,title,wx.OK|wx.ICON_EXCLAMATION)
dlg.ShowModal()
def dialog_error(self, message, title):
dlg = wx.MessageDialog(self, message,title,wx.OK|wx.ICON_ERROR)
dlg.ShowModal()
def dialog_yesno(self, message, title):
dlg = wx.MessageDialog(self, message,title,wx.YES_NO|wx.NO_DEFAULT)
return (dlg.ShowModal() == wx.ID_YES)
def dialog_inputtext(self, message, title, default_text):
dlg = wx.TextEntryDialog(self, message, title, default_text)
return [(dlg.ShowModal() == wx.ID_OK), dlg.GetValue()]
def copy_text_to_clipboard(self, text_message):
clipdata = wx.TextDataObject()
clipdata.SetText(text_message)
wx.TheClipboard.Open()
wx.TheClipboard.SetData(clipdata)
wx.TheClipboard.Close()
print 'Text copied to clipboard: %s' % text_message
| [
[
1,
0,
0.0175,
0.0029,
0,
0.66,
0,
201,
0,
1,
0,
0,
201,
0,
0
],
[
1,
0,
0.0205,
0.0029,
0,
0.66,
0.1429,
666,
0,
1,
0,
0,
666,
0,
0
],
[
1,
0,
0.0234,
0.0029,
0,
... | [
"from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor",
"import wx",
"import wx.lib.inspection",
"import vtk",
"if wx.Platform == \"__WXGTK__\":\n from external import PyAUI\n wx.aui = PyAUI\nelse:\n import wx.aui",
" from external import PyAUI",
" wx.aui = PyAUI",
... |
# $Id$
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
import module_utils
import vtk
import vtkdevide
class histogram2D(ScriptedConfigModuleMixin, ModuleBase):
"""This module takes two inputs and creates a 2D histogram with input 2
vs input 1, i.e. input 1 on x-axis and input 2 on y-axis.
The inputs have to have identical dimensions.
"""
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._histogram = vtkdevide.vtkImageHistogram2D()
module_utils.setup_vtk_object_progress(self, self._histogram,
'Calculating 2D histogram')
self._config.input1Bins = 256
self._config.input2Bins = 256
self._config.maxSamplesPerBin = 512
configList = [
('Number of bins for input 1', 'input1Bins', 'base:int', 'text',
'The full range of input 1 values will be divided into this many '
'classes.'),
('Number of bins for input 2', 'input2Bins', 'base:int', 'text',
'The full range of input 2 values will be divided into this many '
'classes.'),
('Maximum samples per bin', 'maxSamplesPerBin', 'base:int', 'text',
'The number of samples per 2D bin/class will be truncated to '
'this value.')]
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'vtkImageHistogram2D' : self._histogram})
self.sync_module_logic_with_config()
self._input0 = None
self._input1 = None
def close(self):
self.set_input(0, None)
self.set_input(1, None)
ScriptedConfigModuleMixin.close(self)
ModuleBase.close(self)
del self._histogram
def get_input_descriptions(self):
return ('Image Data 1', 'Imaga Data 2')
def set_input(self, idx, inputStream):
def checkTypeAndReturnInput(inputStream):
"""Check type of input. None gets returned. The input is
returned if it has a valid type. An exception is thrown if
the input is invalid.
"""
if inputStream == None:
# disconnect
return None
else:
# first check the type
validType = False
try:
if inputStream.IsA('vtkImageData'):
validType = True
except AttributeError:
# validType is already False
pass
if not validType:
raise TypeError, 'Input has to be of type vtkImageData.'
else:
return inputStream
if idx == 0:
self._input0 = checkTypeAndReturnInput(inputStream)
self._histogram.SetInput1(self._input0)
elif idx == 1:
self._input1 = checkTypeAndReturnInput(inputStream)
self._histogram.SetInput2(self._input1)
def get_output_descriptions(self):
return (self._histogram.GetOutput().GetClassName(),)
def get_output(self, idx):
#raise NotImplementedError
return self._histogram.GetOutput()
def execute_module(self):
self._histogram.Update()
def logic_to_config(self):
self._config.input1Bins = self._histogram.GetInput1Bins()
self._config.input2Bins = self._histogram.GetInput2Bins()
self._config.maxSamplesPerBin = self._histogram.GetMaxSamplesPerBin()
def config_to_logic(self):
self._histogram.SetInput1Bins(self._config.input1Bins)
self._histogram.SetInput2Bins(self._config.input2Bins)
self._histogram.SetMaxSamplesPerBin(self._config.maxSamplesPerBin)
# ----------------------------------------------------------------------
# non-API methods start here -------------------------------------------
# ----------------------------------------------------------------------
def _histogramSourceExecute(self):
"""Execute callback for the vtkProgrammableSource histogram instance.
"""
self._histogramSource
| [
[
1,
0,
0.0238,
0.0079,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0317,
0.0079,
0,
0.66,
0.2,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0397,
0.0079,
0,
0.6... | [
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"import module_utils",
"import vtk",
"import vtkdevide",
"class histogram2D(ScriptedConfigModuleMixin, ModuleBase):\n \"\"\"This module takes two inputs and creates a 2D histogram with input 2\n vs input 1, ... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
# skeleton of an AUI-based viewer module
# copy and modify for your own purposes.
# set to False for 3D viewer, True for 2D image viewer
IMAGE_VIEWER = True
# import the frame, i.e. the wx window containing everything
import SkeletonAUIViewerFrame
# and do a reload, so that the GUI is also updated at reloads of this
# module.
reload(SkeletonAUIViewerFrame)
# from module_kits.misc_kit import misc_utils
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
import os
import sys
import traceback
import vtk
import wx
class SkeletonAUIViewer(IntrospectModuleMixin, ModuleBase):
def __init__(self, module_manager):
"""Standard constructor. All DeVIDE modules have these, we do
the required setup actions.
"""
# we record the setting here, in case the user changes it
# during the lifetime of this model, leading to different
# states at init and shutdown.
self.IMAGE_VIEWER = IMAGE_VIEWER
ModuleBase.__init__(self, module_manager)
# create the view frame
self._view_frame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
SkeletonAUIViewerFrame.SkeletonAUIViewerFrame)
# change the title to something more spectacular
self._view_frame.SetTitle('Skeleton AUI Viewer')
# create the necessary VTK objects: we only need a renderer,
# the RenderWindowInteractor in the view_frame has the rest.
self.ren = vtk.vtkRenderer()
self.ren.SetBackground(0.5,0.5,0.5)
self._view_frame.rwi.GetRenderWindow().AddRenderer(self.ren)
# hook up all event handlers
self._bind_events()
# anything you stuff into self._config will be saved
self._config.my_string = 'la la'
# make our window appear (this is a viewer after all)
self.view()
# all modules should toggle this once they have shown their
# views.
self.view_initialised = True
# apply config information to underlying logic
self.sync_module_logic_with_config()
# then bring it all the way up again to the view
self.sync_module_view_with_logic()
# the self.timer bits demonstrate how to use a timer to trigger some event
# every few milliseconds. this can for example be used to poll a
# tracking device.
# to see this in action in this example, do the following:
# 1. instantiate the SkeletonAUIViewer
# 2. click on "add superquadric" a few times
# 3. click on "reset camera" so that they are all in view
# 4. click on "start timer event" and see them rotate while you can do
# other things!
self.timer = None
def close(self):
"""Clean-up method called on all DeVIDE modules when they are
deleted.
"""
# we have to take care of de-initialising the timer as well
if self.timer:
self.timer.Stop()
del self.timer
# with this complicated de-init, we make sure that VTK is
# properly taken care of
self.ren.RemoveAllViewProps()
# this finalize makes sure we don't get any strange X
# errors when we kill the module.
self._view_frame.rwi.GetRenderWindow().Finalize()
self._view_frame.rwi.SetRenderWindow(None)
del self._view_frame.rwi
# done with VTK de-init
# now take care of the wx window
self._view_frame.close()
# then shutdown our introspection mixin
IntrospectModuleMixin.close(self)
def get_input_descriptions(self):
# define this as a tuple of input descriptions if you want to
# take input data e.g. return ('vtkPolyData', 'my kind of
# data')
return ()
def get_output_descriptions(self):
# define this as a tuple of output descriptions if you want to
# generate output data.
return ()
def set_input(self, idx, input_stream):
# this gets called right before you get executed. take the
# input_stream and store it so that it's available during
# execute_module()
pass
def get_output(self, idx):
# this can get called at any time when a consumer module wants
# you output data.
pass
def execute_module(self):
# when it's you turn to execute as part of a network
# execution, this gets called.
pass
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def config_to_view(self):
pass
def view_to_config(self):
pass
def view(self):
self._view_frame.Show()
self._view_frame.Raise()
# because we have an RWI involved, we have to do this
# SafeYield, so that the window does actually appear before we
# call the render. If we don't do this, we get an initial
# empty renderwindow.
wx.SafeYield()
self.render()
def add_superquadric(self):
"""Add a new superquadric at a random position.
This is called by the event handler for the 'Add Superquadric'
button.
"""
import random
# let's add a superquadric actor to the renderer
sqs = vtk.vtkSuperquadricSource()
sqs.ToroidalOn()
sqs.SetSize(0.1) # default is 0.5
m = vtk.vtkPolyDataMapper()
m.SetInput(sqs.GetOutput())
a = vtk.vtkActor()
a.SetMapper(m)
pos = [random.random() for _ in range(3)]
a.SetPosition(pos)
a.GetProperty().SetColor([random.random() for _ in range(3)])
self.ren.AddActor(a)
self.render()
# add string to files listcontrol showing where the
# superquadric was placed.
self._view_frame.files_lc.InsertStringItem(
sys.maxint, 'Position (%.2f, %.2f, %.2f)' % tuple(pos))
def _bind_events(self):
"""Bind wx events to Python callable object event handlers.
"""
vf = self._view_frame
vf.Bind(wx.EVT_MENU, self._handler_file_open,
id = vf.id_file_open)
self._view_frame.button1.Bind(wx.EVT_BUTTON,
self._handler_button1)
self._view_frame.button2.Bind(wx.EVT_BUTTON,
self._handler_button2)
self._view_frame.button3.Bind(wx.EVT_BUTTON,
self._handler_button3)
def _handler_button1(self, event):
print "button1 pressed"
self.add_superquadric()
def _handler_button2(self, event):
print "button2 pressed"
self.ren.ResetCamera()
self.render()
def _handler_button3(self, event):
print "button3 pressed"
if not self.timer:
print "installing timer event"
# construct timer, associate it with the main view_frame
self.timer = wx.Timer(self._view_frame)
# then make sure we catch view_frame's EVT_TIMER events
self._view_frame.Bind(wx.EVT_TIMER, self._handler_timer, self.timer)
self.timer.Start(10, oneShot=False) # every 100ms
self._view_frame.button3.SetLabel("Stop Timer Event")
else:
print "uninstalling timer event"
self.timer.Stop()
self.timer = None
self._view_frame.button3.SetLabel("Start Timer Event")
def _handler_timer(self, event):
# at every timer event, rotate camera
self.ren.GetActiveCamera().Azimuth(5)
self.render()
def _handler_file_open(self, event):
print "could have opened file now"
def render(self):
"""Method that calls Render() on the embedded RenderWindow.
Use this after having made changes to the scene.
"""
self._view_frame.render()
| [
[
14,
0,
0.0364,
0.004,
0,
0.66,
0,
16,
1,
0,
0,
0,
0,
4,
0
],
[
1,
0,
0.0486,
0.004,
0,
0.66,
0.0909,
940,
0,
1,
0,
0,
940,
0,
0
],
[
8,
0,
0.0607,
0.004,
0,
0.66,... | [
"IMAGE_VIEWER = True",
"import SkeletonAUIViewerFrame",
"reload(SkeletonAUIViewerFrame)",
"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin",
"import module_utils",
"import os",
"import sys",
"import traceback",
"import vtk",
"import wx",
"class SkeletonAUI... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
import csv
import geometry
import glob
import os
import math
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin,\
FileOpenDialogModuleMixin
import module_utils
import vtk
import vtkgdcm
import wx
MAJOR_MARKER_SIZE = 10
MINOR_MARKER_SIZE = 7
STATE_INIT = 0
STATE_IMAGE_LOADED = 1
STATE_APEX = 2 # clicked apex
STATE_LM = 3 # clicked lower middle
STATE_NORMAL_MARKERS = 4 # after first marker has been placed
class Measurement:
filename = ''
apex = (0,0) # in pixels
lm = (0,0)
pogo_dist = 0 # distance between apex and lm in pixels
area = 0 # current area, in floating point pixels squared
class LarynxMeasurement(IntrospectModuleMixin, FileOpenDialogModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._state = STATE_INIT
self._config.filename = None
self._current_measurement = None
# pogo line first
# outline of larynx second
self._actors = []
# list of pointwidgets, first is apex, second is lm, others
# are others. :)
self._markers = []
self._pogo_line_source = None
self._area_polydata = None
self._view_frame = None
self._viewer = None
self._reader = vtk.vtkJPEGReader()
self._create_view_frame()
self._bind_events()
self.view()
# all modules should toggle this once they have shown their
# stuff.
self.view_initialised = True
self.config_to_logic()
self.logic_to_config()
self.config_to_view()
def _bind_events(self):
self._view_frame.start_button.Bind(
wx.EVT_BUTTON, self._handler_start_button)
self._view_frame.next_button.Bind(
wx.EVT_BUTTON, self._handler_next_button)
self._view_frame.reset_button.Bind(
wx.EVT_BUTTON, self._handler_reset_button)
self._view_frame.save_csv.Bind(
wx.EVT_BUTTON, self._handler_save_csv_button)
self._view_frame.rwi.AddObserver(
'LeftButtonPressEvent',
self._handler_rwi_lbp)
def _create_view_frame(self):
import resources.python.larynx_measurement_frame
reload(resources.python.larynx_measurement_frame)
self._view_frame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
resources.python.larynx_measurement_frame.LarynxMeasurementFrame)
module_utils.create_standard_object_introspection(
self, self._view_frame, self._view_frame.view_frame_panel,
{'Module (self)' : self})
# now setup the VTK stuff
if self._viewer is None and not self._view_frame is None:
# vtkImageViewer() does not zoom but retains colour
# vtkImageViewer2() does zoom but discards colour at
# first window-level action.
# vtkgdcm.vtkImageColorViewer() does both right!
self._viewer = vtkgdcm.vtkImageColorViewer()
self._viewer.SetupInteractor(self._view_frame.rwi)
self._viewer.GetRenderer().SetBackground(0.3,0.3,0.3)
self._set_image_viewer_dummy_input()
pp = vtk.vtkPointPicker()
pp.SetTolerance(0.0)
self._view_frame.rwi.SetPicker(pp)
def close(self):
for i in range(len(self.get_input_descriptions())):
self.set_input(i, None)
# with this complicated de-init, we make sure that VTK is
# properly taken care of
self._viewer.GetRenderer().RemoveAllViewProps()
self._viewer.SetupInteractor(None)
self._viewer.SetRenderer(None)
# this finalize makes sure we don't get any strange X
# errors when we kill the module.
self._viewer.GetRenderWindow().Finalize()
self._viewer.SetRenderWindow(None)
del self._viewer
# done with VTK de-init
self._view_frame.Destroy()
del self._view_frame
ModuleBase.close(self)
def get_input_descriptions(self):
return ()
def get_output_descriptions(self):
return ()
def set_input(self, idx, input_stream):
raise RuntimeError
def get_output(self, idx):
raise RuntimeError
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
# there is no explicit apply step in this viewer module, so we
# keep the config up to date throughout (this is common for
# pure viewer modules)
pass
def config_to_view(self):
# this will happen right after module reload / network load
if self._config.filename is not None:
self._start(self._config.filename)
def view(self):
self._view_frame.Show()
self._view_frame.Raise()
# we need to do this to make sure that the Show() and Raise() above
# are actually performed. Not doing this is what resulted in the
# "empty renderwindow" bug after module reloading, and also in the
# fact that shortly after module creation dummy data rendered outside
# the module frame.
wx.SafeYield()
self.render()
# so if we bring up the view after having executed the network once,
# re-executing will not do a set_input()! (the scheduler doesn't
# know that the module is now dirty) Two solutions:
# * make module dirty when view is activated
# * activate view at instantiation. <--- we're doing this now.
def execute_module(self):
pass
def _add_normal_marker(self, world_pos):
if not len(self._markers) >= 2:
raise RuntimeError(
'There should be 2 or more markers by now!')
pw = self._add_marker(world_pos, (0,1,0), 0.005)
self._markers.append(pw)
self._markers[-1].AddObserver(
'InteractionEvent',
self._handler_nm_ie)
def _add_area_polygon(self):
pd = vtk.vtkPolyData()
self._area_polydata = pd
m = vtk.vtkPolyDataMapper()
m.SetInput(pd)
a = vtk.vtkActor()
a.SetMapper(m)
self._viewer.GetRenderer().AddActor(a)
self._actors.append(a)
def _add_pogo_line(self):
ls = vtk.vtkLineSource()
self._pogo_line_source = ls
m = vtk.vtkPolyDataMapper()
m.SetInput(ls.GetOutput())
a = vtk.vtkActor()
a.SetMapper(m)
prop = a.GetProperty()
prop.SetLineStipplePattern(0x1010)
prop.SetLineStippleRepeatFactor(1)
self._viewer.GetRenderer().AddActor(a)
self._actors.append(a)
self._update_pogo_distance()
self.render()
def _add_sphere(self, world_pos, radius, colour):
ss = vtk.vtkSphereSource()
ss.SetRadius(radius)
m = vtk.vtkPolyDataMapper()
m.SetInput(ss.GetOutput())
a = vtk.vtkActor()
a.SetMapper(m)
a.SetPosition(world_pos)
a.GetProperty().SetColor(colour)
self._viewer.GetRenderer().AddActor(a)
self.render()
def _add_marker(self, world_pos, colour, size=0.01):
"""
@param size: fraction of visible prop bounds diagonal.
"""
#self._add_sphere(world_pos, MAJOR_MARKER_SIZE, (1,1,0))
pw = vtk.vtkPointWidget()
# we're giving it a small bounding box
pw.TranslationModeOn()
b = self._viewer.GetRenderer().ComputeVisiblePropBounds()
# calculate diagonal
dx,dy = b[1] - b[0], b[3] - b[2]
diag = math.hypot(dx,dy)
d = size * diag
w = world_pos
pwb = w[0] - d, w[0] + d, \
w[1] - d, w[1] + d, \
b[4], b[5]
pw.PlaceWidget(pwb)
pw.SetPosition(world_pos)
pw.SetInteractor(self._view_frame.rwi)
pw.AllOff()
pw.GetProperty().SetColor(colour)
pw.On()
return pw
def _add_apex_marker(self, world_pos):
# this method should only be called when the list is empty!
if self._markers:
raise RuntimeError('Marker list is not empty!')
self._markers.append(self._add_marker(world_pos, (1,1,0)))
self._markers[-1].AddObserver(
'InteractionEvent',
self._handler_alm_ie)
def _add_lm_marker(self, world_pos):
if len(self._markers) != 1:
raise RuntimeError(
'Marker list should have only one entry!')
self._markers.append(self._add_marker(world_pos, (0,1,1)))
self._markers[-1].AddObserver(
'InteractionEvent',
self._handler_alm_ie)
def _create_db(self, filename):
con = sqlite3.connect(filename)
con.execute(
"""create table images
(id integer primary key, filename varchar unique)""")
con.execute(
"""create table coords
(
""")
def _handler_alm_ie(self, pw=None, vtk_e=None):
self._update_pogo_distance()
self._update_area()
def _handler_nm_ie(self, pw=None, vtk_e=None):
self._update_area()
def _handler_rwi_lbp(self, vtk_o, vtk_e):
# we only handle this if the user is pressing shift
if not vtk_o.GetShiftKey():
return
pp = vtk_o.GetPicker() # this will be our pointpicker
x,y = vtk_o.GetEventPosition()
#iapp = vtk.vtkImageActorPointPlacer()
#ren = self._viewer.GetRenderer()
#iapp.SetImageActor(our_actor)
#iapp.ComputeWorldPosition(ren, display_pos, 3xdouble,
# 9xdouble)
if not pp.Pick(x,y,0,self._viewer.GetRenderer()):
print "off image!"
else:
print pp.GetMapperPosition()
# now also get WorldPos
ren = self._viewer.GetRenderer()
ren.SetDisplayPoint(x,y,0)
ren.DisplayToWorld()
w = ren.GetWorldPoint()[0:3]
print w
# we have a picked position and a world point, now decide
# what to do based on our current state
if self._state == STATE_IMAGE_LOADED:
# put down the apex ball
self._add_apex_marker(w)
self._state = STATE_APEX
elif self._state == STATE_APEX:
# put down the LM ball
self._add_lm_marker(w)
self._add_pogo_line()
self._state = STATE_LM
elif self._state == STATE_LM:
# now we're putting down all other markers
self._add_normal_marker(w)
# now create the polydata
self._add_area_polygon()
self._update_area()
self._state = STATE_NORMAL_MARKERS
elif self._state == STATE_NORMAL_MARKERS:
self._add_normal_marker(w)
self._update_area()
def _handler_reset_button(self, evt):
if self._current_measurement.filename:
self._start(self._current_measurement.filename,
reset=True)
def _handler_save_csv_button(self, evt):
fn = self._current_measurement.filename
if not os.path.exists(fn):
return
self._save_dacs_to_csv(fn)
def _handler_start_button(self, evt):
# let user pick image
# - close down any running analysis
# - analyze all jpg images in that dir
# - read / initialise SQL db
# first get filename from user
filename = self.filename_browse(self._view_frame,
'Select FIRST subject image to start processing',
'Subject image (*.jpg)|*.jpg;*.JPG',
style=wx.OPEN)
if filename:
self._start(filename)
def _handler_next_button(self, evt):
# write everything to to measurement files
# first the points
fn = self._current_measurement.filename
if len(self._markers) > 0:
points_name = '%s.pts' % (fn,)
f = open(points_name, 'w')
pts = [m.GetPosition()[0:3] for m in self._markers]
f.write(str(pts))
f.close()
if len(self._markers) >= 3:
# we only write the DAC if there are at least 3 markers,
# else the measurement is not valid...
# then the distance, area and cormack lehane
dac_name = '%s.dac' % (fn,)
f = open(dac_name, 'w')
clg1 = int(self._view_frame.clg1_cbox.GetValue())
d = self._current_measurement.pogo_dist
a = self._current_measurement.area
dac = [d,a,clg1]
f.write(str(dac))
f.close()
# IS there a next file?
# get ext and dir of current file
current_fn = self._current_measurement.filename
# ext is '.JPG'
ext = os.path.splitext(current_fn)[1]
dir = os.path.dirname(current_fn)
all_files = glob.glob(os.path.join(dir, '*%s' % (ext,)))
# we assume the user has this covered (filenames padded)
all_files.sort()
# find index of current file, take next image
idx = all_files.index(current_fn) + 1
if idx < len(all_files):
new_filename = all_files[idx]
else:
new_filename = all_files[0]
self._start(new_filename)
def _load_measurement(self, new_filename):
# see if there's a points file that we can use
points_name = '%s.pts' % (new_filename,)
try:
f = open(points_name)
except IOError:
pass
else:
# just evaluate what's in there, should be an array of
# three-element tuples (we're going to write away the
# world-pos coordinates)
points = eval(f.read(), {"__builtins__": {}})
f.close()
try:
self._add_apex_marker(points[0])
self._state = STATE_APEX
self._add_lm_marker(points[1])
self._add_pogo_line()
self._state = STATE_LM
self._add_normal_marker(points[2])
self._add_area_polygon()
self._update_area()
self._state = STATE_NORMAL_MARKERS
for pt in points[3:]:
self._add_normal_marker(pt)
self._update_area()
except IndexError:
pass
# now make sure everything else is updated
self._update_pogo_distance()
self._update_area()
# cormack lehane grade
dac_name = '%s.dac' % (new_filename,)
try:
f = open(dac_name)
except IOError:
pass
else:
dist, area, clg1 = eval(f.read(), {"__builtins__":{}})
f.close()
#self._current_measurement.clg1 = clg
self._view_frame.clg1_cbox.SetValue(clg1)
def render(self):
# if you call self._viewer.Render() here, you get the
# VTK-window out of main window effect at startup. So don't.
self._view_frame.rwi.Render()
def _reset_image_pz(self):
"""Reset the pan/zoom of the current image.
"""
ren = self._viewer.GetRenderer()
ren.ResetCamera()
def _save_dacs_to_csv(self, current_fn):
# make list of all filenames in current directory
# load all dacs
img_ext = os.path.splitext(current_fn)[1]
dir = os.path.dirname(current_fn)
all_images = glob.glob(os.path.join(dir, '*%s' % (img_ext,)))
all_dacs = glob.glob(os.path.join(dir, '*%s.dac' % (img_ext,)))
if len(all_dacs) == 0:
self._module_manager.log_error(
"No measurements to save yet.")
return
if len(all_dacs) % 3 != 0:
self._module_manager.log_error(
"Number of measurements not a multiple of 3!\n"
"Can't write CSV file.")
return
if len(all_dacs) != len(all_images):
self._module_manager.log_warning(
"You have not yet measured all images yet.\n"
"Will write CSV anyway, please double-check.")
# sort the dacs
all_dacs.sort()
csv_fn = os.path.join(dir, 'measurements.csv')
csv_f = open(csv_fn, 'w')
wrtr = csv.writer(csv_f, delimiter=',',
quotechar='"')
# write header row
wrtr.writerow([
'name', 'clg1 a', 'clg1 b', 'clg1 c',
'norm dist a', 'norm dist b', 'norm dist c',
'dist a', 'dist b', 'dist c',
'norm area a', 'norm area b', 'norm area c',
'area a', 'area b', 'area c'
])
# now go through all the dac files and write them out in
# multiples of three
for i in range(len(all_dacs) / 3):
three_names = []
clg = []
norm_dist = []
dist = []
norm_area = []
area = []
for j in range(3):
# get dac filename and read its contents
dfn = all_dacs[i*3 + j]
d,a,c = eval(open(dfn).read(),
{"__builtins__":{}})
# create short (extensionless) filename for creating
# the measurement title
sfn = os.path.splitext(os.path.basename(dfn))[0]
# we have to strip off the jpg as well
sfn = os.path.splitext(sfn)[0]
# store it for creating the string later
three_names.append(sfn)
if j == 0:
# if this is the first of a three-element group,
# store the distance and area to normalise the
# other two with.
nd = d
na = a
norm_dist.append(1.0)
norm_area.append(1.0)
else:
# if not, normalise and store
norm_dist.append(d / nd)
norm_area.append(a / na)
# store the pixel measurements
clg.append(c)
dist.append(d)
area.append(a)
# write out a measurement line to the CSV file
name3 = '%s-%s-%s' % tuple(three_names)
wrtr.writerow([name3] + clg +
norm_dist + dist +
norm_area + area)
csv_f.close()
def _stop(self):
# close down any running analysis
# first remove all polydatas we might have added to the scene
for a in self._actors:
self._viewer.GetRenderer().RemoveViewProp(a)
for m in self._markers:
m.Off()
m.SetInteractor(None)
del self._markers[:]
# setup dummy image input.
self._set_image_viewer_dummy_input()
# set state to initialised
self._state = STATE_INIT
def _start(self, new_filename, reset=False):
# first see if we can open the new file
new_reader = self._open_image_file(new_filename)
# if so, stop previous session
self._stop()
# replace reader and show the image
self._reader = new_reader
self._viewer.SetInput(self._reader.GetOutput())
# show the new filename in the correct image box
# first shorten it slightly: split it at the path separator,
# take the last two components (last dir comp, filename), then
# prepend a '...' and join them all together again. example
# output: .../tmp/file.jpg
short_p = os.path.sep.join(
['...']+new_filename.split(os.path.sep)[-2:])
self._view_frame.current_image_txt.SetValue(short_p)
self._config.filename = new_filename
cm = Measurement()
cm.filename = self._config.filename
self._current_measurement = cm
self._actors = []
self._reset_image_pz()
self.render()
self._state = STATE_IMAGE_LOADED
# this means that the user doesn't want the stored data, for
# example when resetting the image measurement
if not reset:
self._load_measurement(new_filename)
self.render()
# now determine our current progress by tallying up DAC files
ext = os.path.splitext(new_filename)[1]
dir = os.path.dirname(new_filename)
all_images = glob.glob(os.path.join(dir, '*%s' % (ext,)))
all_dacs = glob.glob(os.path.join(dir, '*%s.dac' % (ext,)))
progress_msg = "%d / %d images complete" % \
(len(all_dacs), len(all_images))
self._view_frame.progress_txt.SetValue(progress_msg)
def _set_image_viewer_dummy_input(self):
ds = vtk.vtkImageGridSource()
self._viewer.SetInput(ds.GetOutput())
def _open_image_file(self, filename):
# create a new instance of the current reader
# to read the passed file.
nr = self._reader.NewInstance()
nr.SetFileName(filename)
# FIXME: trap this error
nr.Update()
return nr
def _update_pogo_distance(self):
"""Based on the first two markers, update the pogo line and
recalculate the distance.
"""
if len(self._markers) >= 2:
p1,p2 = [self._markers[i].GetPosition() for i in range(2)]
self._pogo_line_source.SetPoint1(p1)
self._pogo_line_source.SetPoint2(p2)
pogo_dist = math.hypot(p2[0] - p1[0], p2[1] - p1[1])
# store pogo_dist in Measurement
self._current_measurement.pogo_dist = pogo_dist
self._view_frame.pogo_dist_txt.SetValue('%.2f' %
(pogo_dist,))
def _update_area(self):
"""Based on three or more markers in total, draw a nice
polygon and update the total area.
"""
if len(self._markers) >= 3:
# start from apex, then all markers to the right of the
# pogo line, then the lm point, then all markers to the
# left.
p1,p2 = [self._markers[i].GetPosition()[0:2] for i in range(2)]
z = self._markers[0].GetPosition()[2]
n,mag,lv = geometry.normalise_line(p1,p2)
# get its orthogonal vector
no = - n[1],n[0]
pts = [self._markers[i].GetPosition()[0:2]
for i in range(2, len(self._markers))]
right_pts = []
left_pts = []
for p in pts:
v = geometry.points_to_vector(p1,p)
# project v onto n
v_on_n = geometry.dot(v,n) * n
# then use that to determine the vector orthogonal on
# n from p
v_ortho_n = v - v_on_n
# rl is positive for right hemisphere, negative for
# otherwise
rl = geometry.dot(no, v_ortho_n)
if rl >= 0:
right_pts.append(p)
elif rl < 0:
left_pts.append(p)
vpts = vtk.vtkPoints()
vpts.InsertPoint(0,p1[0],p1[1],z)
for i,j in enumerate(right_pts):
vpts.InsertPoint(i+1,j[0],j[1],z)
if len(right_pts) == 0:
i = -1
vpts.InsertPoint(i+2,p2[0],p2[1],z)
for k,j in enumerate(left_pts):
vpts.InsertPoint(i+3+k,j[0],j[1],z)
num_points = 2 + len(left_pts) + len(right_pts)
assert(vpts.GetNumberOfPoints() == num_points)
self._area_polydata.SetPoints(vpts)
cells = vtk.vtkCellArray()
# we repeat the first point
cells.InsertNextCell(num_points + 1)
for i in range(num_points):
cells.InsertCellPoint(i)
cells.InsertCellPoint(0)
self._area_polydata.SetLines(cells)
# now calculate the polygon area according to:
# http://local.wasp.uwa.edu.au/~pbourke/geometry/polyarea/
all_pts = [p1] + right_pts + [p2] + left_pts + [p1]
tot = 0
for i in range(len(all_pts)-1):
pi = all_pts[i]
pip = all_pts[i+1]
tot += pi[0]*pip[1] - pip[0]*pi[1]
area = - tot / 2.0
# store area in current measurement
self._current_measurement.area = area
self._view_frame.area_txt.SetValue('%.2f' % (area,))
| [
[
1,
0,
0.0065,
0.0013,
0,
0.66,
0,
312,
0,
1,
0,
0,
312,
0,
0
],
[
1,
0,
0.0077,
0.0013,
0,
0.66,
0.0526,
486,
0,
1,
0,
0,
486,
0,
0
],
[
1,
0,
0.009,
0.0013,
0,
0... | [
"import csv",
"import geometry",
"import glob",
"import os",
"import math",
"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin,\\\n FileOpenDialogModuleMixin",
"import module_utils",
"import vtk",
"import vtkgdcm",
"import wx",
"MAJOR_MARKER_SIZE = 10... |
from module_kits.misc_kit.mixins import SubjectMixin
import geometry
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
import Measure2DFrame
reload(Measure2DFrame)
import vtk
import vtktudoss
import wx
class M2DMeasurementInfo:
pass
class M2DWidget:
"""Class for encapsulating widget binding and all its metadata.
"""
def __init__(self, widget, name, type_string):
"""
@param type_string: ellipse
"""
self.widget = widget
self.name = name
self.type_string = type_string
self.measurement_string = ""
# we'll use this to pack all widget-specific measurement
# information
self.measurement_info = M2DMeasurementInfo()
class M2DWidgetList:
"""List of M2DWidgets that can be queried by name or type.
"""
def __init__(self):
self._wdict = {}
def close(self):
pass
def add(self, widget):
"""widget is an instance of M2DWidget.
"""
if not widget.name:
raise KeyError("Widget has to have a name.")
if widget.name in self._wdict:
raise KeyError("Widget with that name already in list.")
self._wdict[widget.name] = widget
def get_names(self):
return self._wdict.keys()
def get_widget(self, name):
return self._wdict[name]
def get_widgets_of_type(self, type_string):
"""Return a list of all widgets of type type_string.
"""
wlist = []
for wname, w in self._wdict.items():
if w.type_string == type_string:
wlist.append(w)
return wlist
def remove(self, name):
"""Remove widget with name from internal dict.
Return binding to widget that was just removed (so that client
can do widget specific finalisation.
"""
w = self._wdict[name]
del(self._wdict[name])
return w
def rename_widget(self, old_name, new_name):
"""After profuse error-checking, rename widget with old_name
to new_name.
"""
if not new_name:
raise KeyError('Widget cannot have empty name.')
if old_name not in self._wdict:
raise KeyError('widget %s not in list.' % (old_name,))
if new_name in self._wdict:
raise KeyError('widget with name %s alread exists.' %
(new_name,))
w = self.get_widget(old_name)
self.remove(old_name)
w.name = new_name
self.add(w)
def __contains__(self, name):
"""Returns true if there's a widget with that name already in
the list.
"""
return name in self._wdict
class Measure2D(IntrospectModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._view_frame = None
self._viewer = None
self._input_image = None
self._dummy_image_source = vtk.vtkImageMandelbrotSource()
self._widgets = M2DWidgetList()
# build frame
self._view_frame = module_utils.instantiate_module_view_frame(
self, self._module_manager, Measure2DFrame.Measure2DFrame)
# now link up all event handlers
self._bind_events()
# then build VTK pipeline
self._create_vtk_pipeline()
# set us up with dummy input
self._setup_new_image()
# show everything
self.view()
def close(self):
if self._view_frame is not None:
# with this complicated de-init, we make sure that VTK is
# properly taken care of
self._viewer.GetRenderer().RemoveAllViewProps()
self._viewer.SetupInteractor(None)
self._viewer.SetRenderer(None)
# this finalize makes sure we don't get any strange X
# errors when we kill the module.
self._viewer.GetRenderWindow().Finalize()
self._viewer.SetRenderWindow(None)
self._viewer.DebugOn()
del self._viewer
# done with VTK de-init
self._view_frame.close()
def view(self):
self._view_frame.Show()
self._view_frame.Raise()
# GOTCHA!! (finally)
# we need to do this to make sure that the Show() and Raise() above
# are actually performed. Not doing this is what resulted in the
# "empty renderwindow" bug after module reloading, and also in the
# fact that shortly after module creation dummy data rendered outside
# the module frame.
# YEAH.
wx.SafeYield()
self.render()
# so if we bring up the view after having executed the network once,
# re-executing will not do a set_input()! (the scheduler doesn't
# know that the module is now dirty) Two solutions:
# * make module dirty when view is activated
# * activate view at instantiation. <--- we're doing this now.
def get_input_descriptions(self):
return ('Image data',)
def get_output_descriptions(self):
return ('self', 'widget_list')
def get_output(self, idx):
if idx == 0:
return self
else:
return self._widgets
def execute_module(self):
self.render()
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def set_input(self, idx, input_stream):
if self._input_image != input_stream:
self._input_image = input_stream
self._setup_new_image()
def _bind_events(self):
"""Setup all event handling based on the view frame.
"""
slice_slider = self._view_frame._image_control_panel.slider
slice_slider.Bind(wx.EVT_SLIDER, self._handler_slice_slider)
new_measurement_button = \
self._view_frame._measurement_panel.create_button
new_measurement_button.Bind(wx.EVT_BUTTON, self._handler_new_measurement_button)
rb = self._view_frame._measurement_panel.rename_button
rb.Bind(wx.EVT_BUTTON,
self._handler_rename_measurement_button)
db = self._view_frame._measurement_panel.delete_button
db.Bind(wx.EVT_BUTTON,
self._handler_delete_measurement_button)
eb = self._view_frame._measurement_panel.enable_button
eb.Bind(wx.EVT_BUTTON,
self._handler_enable_measurement_button)
db = self._view_frame._measurement_panel.disable_button
db.Bind(wx.EVT_BUTTON,
self._handler_disable_measurement_button)
def _create_vtk_pipeline(self):
"""Create pipeline for viewing 2D image data.
"""
if self._viewer is None and not self._view_frame is None:
if True:
self._viewer = vtk.vtkImageViewer2()
self._viewer.SetupInteractor(self._view_frame._rwi)
self._viewer.GetRenderer().SetBackground(0.3,0.3,0.3)
else:
ren = vtk.vtkRenderer()
self._view_frame._rwi.GetRenderWindow().AddRenderer(ren)
def _get_selected_measurement_names(self):
"""Return list of names of selected measurement widgets.
"""
grid = self._view_frame._measurement_panel.measurement_grid
sr = grid.GetSelectedRows()
return [grid.GetCellValue(idx,0) for idx in sr]
def _handler_enable_measurement_button(self, event):
snames = self._get_selected_measurement_names()
for sname in snames:
w = self._widgets.get_widget(sname)
print "about to enable ", w.name
w.widget.SetEnabled(1)
self.render()
def _handler_disable_measurement_button(self, event):
snames = self._get_selected_measurement_names()
for sname in snames:
w = self._widgets.get_widget(sname)
print "about to disable ", w.name
w.widget.SetEnabled(0)
self.render()
def _handler_rename_measurement_button(self, event):
# FIXME: abstract method that returns list of names of
# selected measurement widgets
grid = self._view_frame._measurement_panel.measurement_grid
# returns list of selected row indices, we're only going to
# rename the first one
sr = grid.GetSelectedRows()
if not sr:
return
idx = sr[0]
name = grid.GetCellValue(idx, 0)
new_name = wx.GetTextFromUser(
'Enter a new name for this measurement.',
'Rename Module',
name)
if new_name:
w = self._widgets.get_widget(name)
self._widgets.rename_widget(name, new_name)
self._sync_measurement_grid()
def _handler_delete_measurement_button(self, event):
grid = self._view_frame._measurement_panel.measurement_grid
sr = grid.GetSelectedRows()
if not sr:
return
for idx in sr:
name = grid.GetCellValue(idx, 0)
w = self._widgets.get_widget(name)
w.widget.SetEnabled(0)
w.widget.SetInteractor(None)
self._widgets.remove(name)
self._sync_measurement_grid()
def _handler_new_measurement_button(self, event):
widget_type = 0
if widget_type == 0:
# instantiate widget with correct init vars
name = self._view_frame._measurement_panel.name_cb.GetValue()
if not name or name in self._widgets:
# FIXME: add error message here
pass
else:
w = vtktudoss.vtkEllipseWidget()
w.SetInteractor(self._view_frame._rwi)
w.SetEnabled(1)
widget = M2DWidget(w, name, 'ellipse')
# add it to the internal list
self._widgets.add(widget)
def observer_interaction(o, e):
r = o.GetRepresentation()
s = r.GetLabelText()
widget.measurement_string = s
# c, axis_lengths, radius_vectors
mi = widget.measurement_info
mi.c = [0.0,0.0,0.0]
r.GetCenterWorldPosition(mi.c)
mi.c[2] = 0.0
mi.axis_lengths = (
r.GetSemiMajorAxisLength() * 2.0,
r.GetSemiMinorAxisLength() * 2.0,
0.0)
mi.radius_vectors = (
[0.0,0.0,0.0],
[0.0,0.0,0.0],
[0.0,0.0,0.0])
# these vectors describe the principal HALF-axes
# of the ellipse, starting out from the centre
# (mi.c)
r.GetSemiMajorAxisVector(mi.radius_vectors[0])
r.GetSemiMinorAxisVector(mi.radius_vectors[1])
self._sync_measurement_grid()
# make sure state is initialised (if one just places
# the widget without interacting, the observer won't
# be invoked and measurement_info won't have the
# necessary attributes; if the network then executes,
# there will be errors)
widget.measurement_string = ''
mi = widget.measurement_info
mi.c = [0.0,0.0,0.0]
mi.axis_lengths = (0.0, 0.0, 0.0)
mi.radius_vectors = (
[0.0,0.0,0.0],
[0.0,0.0,0.0],
[0.0,0.0,0.0])
w.AddObserver('EndInteractionEvent',
observer_interaction)
# and then make the display thing sync up
self._sync_measurement_grid()
else:
handle = vtk.vtkPointHandleRepresentation2D()
handle.GetProperty().SetColor(1,0,0)
rep = vtk.vtkDistanceRepresentation2D()
rep.SetHandleRepresentation(handle)
rep.GetAxis().SetNumberOfMinorTicks(4)
rep.GetAxis().SetTickLength(9)
rep.GetAxis().SetTitlePosition(0.2)
w = vtk.vtkDistanceWidget()
w.SetInteractor(self._view_frame._rwi)
#w.CreateDefaultRepresentation()
w.SetRepresentation(rep)
w.SetEnabled(1)
# instantiate widget with correct init vars
widget = M2DWidget(w, 'name', 'ellipse')
# add it to the internal list
self._widgets.add(w)
self.render()
def _handler_slice_slider(self, event):
if not self._input_image is None:
val = self._view_frame._image_control_panel.slider.GetValue()
self._viewer.SetSlice(val)
def render(self):
self._view_frame._rwi.Render()
def _setup_new_image(self):
"""Based on the current self._input_image and the viewer, this thing
will make sure that we reset to some usable default.
"""
if not self._viewer is None:
if not self._input_image is None:
self._viewer.SetInput(self._input_image)
else:
self._viewer.SetInput(self._dummy_image_source.GetOutput())
ii = self._viewer.GetInput()
ii.UpdateInformation()
ii.Update()
range = ii.GetScalarRange()
self._viewer.SetColorWindow(range[1] - range[0])
self._viewer.SetColorLevel(0.5 * (range[1] + range[0]))
icp = self._view_frame._image_control_panel
icp.slider.SetRange(self._viewer.GetSliceMin(),
self._viewer.GetSliceMax())
icp.slider.SetValue(self._viewer.GetSliceMin())
#self._viewer.UpdateDisplayExtent()
self._viewer.GetRenderer().ResetCamera()
def _sync_measurement_grid(self):
"""Synchronise measurement grid with internal list of widgets.
"""
# for now we just nuke the whole thing and redo everything
grid = self._view_frame._measurement_panel.measurement_grid
if grid.GetNumberRows() > 0:
grid.DeleteRows(0, grid.GetNumberRows())
wname_list = self._widgets.get_names()
wname_list.sort()
for wname in wname_list:
w = self._widgets.get_widget(wname)
grid.AppendRows()
cur_row = grid.GetNumberRows() - 1
grid.SetCellValue(cur_row, 0, w.name)
grid.SetCellValue(cur_row, 1, w.type_string)
grid.SetCellValue(cur_row, 2, w.measurement_string)
# in general when we sync, the module is dirty, so we should
# flag this in the module manager. when the user sees this
# and schedules an execute, the scheduler will execute us and
# all parts of the network that are dependent on us.
self._module_manager.modify_module(self)
| [
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... | [
"from module_kits.misc_kit.mixins import SubjectMixin",
"import geometry",
"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin",
"import module_utils",
"import Measure2DFrame",
"reload(Measure2DFrame)",
"import vtk",
"import vtktudoss",
"import wx",
"class M2DM... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
import comedi_utils
reload(comedi_utils)
import vtk
import vtktudoss
from module_kits import vtk_kit
import wx
###########################################################################
# 2D:
# * Checkerboard.
# * difference mode: configurable combinations of LUTs and data
# components. Limited animation possible.
# * magic lens: either in IPW (this is going to be hard) or on
# vtkGDCMImageActor. TODO.
# 3D:
# * context gray (silhouette, data1), focus animated
# * context gray (silhouette, data2), focus difference image
# * thick slab rendering with f+c
###########################################################################
class ComparisonMode:
def __init__(self, comedi, cfg_dict):
pass
def disable_vis(self):
"""This will be called by CoMedI when it sees that we're about
to lose input data, before it calls update_vis(). This is to
give us time to de-init all visual elements whilst data is
still available. This is mostly because the vtkIPW calls
render whenever you try to disable or disconnect it.
"""
pass
def set_inputs(self, data1, data2, data2m, distance):
pass
def update_vis(self):
"""If all inputs are available, update the visualisation.
This also has to be called if there is no valid registered
output anymore so that the view can be disabled.
"""
pass
###########################################################################
class CheckerboardCM(ComparisonMode):
"""Comparison mode that shows a checkerboard of the two matched
datasets.
"""
def __init__(self, comedi, cfg_dict):
self._comedi = comedi
self._cfg = cfg_dict
rwi,ren = comedi.get_compvis_vtk()
self._sv = comedi_utils.CMSliceViewer(rwi, ren)
comedi.sync_slice_viewers.add_slice_viewer(self._sv)
self._cb = vtk.vtkImageCheckerboard()
# we'll store our local bindings here
self._d1 = None
self._d2m = None
def close(self):
self._comedi.sync_slice_viewers.remove_slice_viewer(self._sv)
self._sv.close()
# disconnect the checkerboard
self._cb.SetInput1(None)
self._cb.SetInput2(None)
def disable_vis(self):
self._sv.set_input(None)
def update_vis(self):
# if there's valid data, do the vis man!
d2m = self._comedi.get_data2m()
d1 = self._comedi.get_data1()
new_data = False
if d1 != self._d1:
self._d1 = d1
self._cb.SetInput1(d1)
new_data = True
if d2m != self._d2m:
self._d2m = d2m
self._cb.SetInput2(d2m)
new_data = True
if new_data:
# this means the situation has changed
if d1 and d2m:
# we have two datasets and can checkerboard them
# enable the slice viewer
self._sv.set_input(self._cb.GetOutput())
# sync it to data1
sv1 = self._comedi._data1_slice_viewer
self._comedi.sync_slice_viewers.sync_all(
sv1, [self._sv])
else:
# this means one of our datasets is NULL
# disable the slice viewer
self._sv.set_input(None)
# now check for UI things
cp = self._comedi._view_frame.pane_controls.window
divx = cp.cm_checkerboard_divx.GetValue()
divy = cp.cm_checkerboard_divy.GetValue()
divz = cp.cm_checkerboard_divz.GetValue()
ndiv = self._cb.GetNumberOfDivisions()
if ndiv != (divx, divy, divz):
self._cb.SetNumberOfDivisions((divx, divy, divz))
# we do render to update the 3D view
self._sv.render()
###########################################################################
class Data2MCM(ComparisonMode):
"""Match mode that only displays the matched data2.
"""
def __init__(self, comedi, cfg_dict):
self._comedi = comedi
self._cfg = cfg_dict
rwi,ren = comedi.get_compvis_vtk()
self._sv = comedi_utils.CMSliceViewer(rwi, ren)
comedi.sync_slice_viewers.add_slice_viewer(self._sv)
def close(self):
self._comedi.sync_slice_viewers.remove_slice_viewer(self._sv)
self._sv.close()
def disable_vis(self):
self._sv.set_input(None)
def update_vis(self):
# if there's valid data, do the vis man!
o = self._comedi.match_mode.get_output()
# get current input
ci = self._sv.get_input()
if o != ci:
# new data! do something!
self._sv.set_input(o)
# if it's not null, sync with primary viewer
if o is not None:
sv1 = self._comedi._data1_slice_viewer
self._comedi.sync_slice_viewers.sync_all(
sv1, [self._sv])
# we do render to update the 3D view
self._sv.render()
CMAP_BLUE_TO_YELLOW_KREKEL = 0
CMAP_HEAT_PL = 1
CMAP_BLUE_TO_YELLOW_PL = 2
CMAP_BLACK_TO_WHITE_PL = 3
###########################################################################
class FocusDiffCM(ComparisonMode):
"""Match mode that displays difference between data in focus area
with blue/yellow colour scale, normal greyscale for the context.
"""
# API methods ###################################################
def __init__(self, comedi, cfg_dict):
self._comedi = comedi
self._cfg = cfg_dict
# we'll store our local bindings here
self._d1 = None
self._d2m = None
self._conf = None
self._cmap_range = [-1024, 3072]
self._cmap_type = CMAP_BLUE_TO_YELLOW_PL
# color scales thingy
self._color_scales = vtk_kit.color_scales.ColorScales()
# instantiate us a slice viewer
rwi,ren = comedi.get_compvis_vtk()
self._sv = comedi_utils.CMSliceViewer(rwi, ren)
# now make our own MapToColors
ct = 32
lut = self._sv.ipws[0].GetLookupTable()
self._cmaps = [vtktudoss.vtkCVImageMapToColors() for _ in range(3)]
for i,cmap in enumerate(self._cmaps):
cmap.SetLookupTable(lut)
cmap.SetConfidenceThreshold(ct)
self._sv.ipws[i].SetColorMap(cmap)
self._set_confidence_threshold_ui(ct)
comedi.sync_slice_viewers.add_slice_viewer(self._sv)
# now build up the VTK pipeline #############################
# we'll use these to scale data between 0 and max.
self._ss1 = vtk.vtkImageShiftScale()
self._ss1.SetOutputScalarTypeToShort()
self._ss2 = vtk.vtkImageShiftScale()
self._ss2.SetOutputScalarTypeToShort()
# we have to cast the confidence to shorts as well
self._ssc = vtk.vtkImageShiftScale()
self._ssc.SetOutputScalarTypeToShort()
self._iac = vtk.vtkImageAppendComponents()
# data1 will form the context
self._iac.SetInput(0, self._ss1.GetOutput())
# subtraction will form the focus
self._iac.SetInput(1, self._ss2.GetOutput())
# third input will be the confidence
self._iac.SetInput(2, self._ssc.GetOutput())
# event bindings ############################################
self._bind_events()
def close(self):
self._unbind_events()
self._comedi.sync_slice_viewers.remove_slice_viewer(self._sv)
self._sv.close()
# take care of all our bindings to VTK classes
del self._ss1
del self._ss2
def disable_vis(self):
self._sv.set_input(None)
def update_vis(self):
# if there's valid data, do the vis man!
d2m = self._comedi.get_data2m()
d1 = self._comedi.get_data1()
conf = self._comedi.match_mode.get_confidence()
new_data = False
if d1 != self._d1:
self._d1 = d1
self._ss1.SetInput(d1)
new_data = True
if d2m != self._d2m:
self._d2m = d2m
self._ss2.SetInput(d2m)
new_data = True
if conf != self._conf:
self._conf = conf
self._ssc.SetInput(self._conf)
if d1 and d2m and conf:
if new_data:
self._ss1.Update()
self._ss2.Update()
r = self._ss1.GetOutput().GetScalarRange()
self._set_cmap_type_and_range(
CMAP_BLUE_TO_YELLOW_PL, r, True)
self._set_range_ui(r)
print "about to update iac"
self._iac.SetNumberOfThreads(1)
self._iac.Update()
print "done updating iac"
self._sv.set_input(self._iac.GetOutput())
# sync it to data1
sv1 = self._comedi._data1_slice_viewer
self._comedi.sync_slice_viewers.sync_all(
sv1, [self._sv])
else:
# now new data, but we might want to update the
# vis-settings
self._handler_conf_thresh(event)
self._sync_cmap_type_and_range_with_ui()
else:
self._sv.set_input(None)
# we do render to update the 3D view
self._sv.render()
# PRIVATE methods ###############################################
def _bind_events(self):
vf = self._comedi._view_frame
panel = vf.pane_controls.window
panel.cm_diff_conf_thresh_txt.Bind(
wx.EVT_TEXT_ENTER,
self._handler_conf_thresh)
panel.cm_diff_context_target_choice.Bind(
wx.EVT_CHOICE,
self._handler_focus_context_choice)
panel.cm_diff_focus_target_choice.Bind(
wx.EVT_CHOICE,
self._handler_focus_target_choice)
panel.cm_diff_cmap_choice.Bind(
wx.EVT_CHOICE,
self._handler_cmap_choice)
panel.cm_diff_range0_text.Bind(
wx.EVT_TEXT_ENTER,
self._handler_range0)
panel.cm_diff_range1_text.Bind(
wx.EVT_TEXT_ENTER,
self._handler_range1)
def _handler_cmap_choice(self, event):
self._sync_cmap_type_and_range_with_ui()
def _handler_conf_thresh(self, event):
vf = self._comedi._view_frame
panel = vf.pane_controls.window
v = panel.cm_diff_conf_thresh_txt.GetValue()
try:
v = float(v)
except ValueError:
v = self._cmaps[0].GetConfidenceThreshold()
self._set_confidence_threshold_ui(v)
else:
[cmap.SetConfidenceThreshold(v) for cmap in self._cmaps]
self._sv.render()
def _handler_focus_context_choice(self, event):
c = event.GetEventObject()
val = c.GetSelection()
if val != self._cmaps[0].GetContextTarget():
[cmap.SetContextTarget(val) for cmap in self._cmaps]
self._sv.render()
def _handler_range0(self, event):
self._sync_cmap_type_and_range_with_ui()
def _handler_range1(self, event):
self._sync_cmap_type_and_range_with_ui()
def _handler_focus_target_choice(self, event):
c = event.GetEventObject()
val = c.GetSelection()
if val != self._cmaps[0].GetFocusTarget():
[cmap.SetFocusTarget(val) for cmap in self._cmaps]
self._sv.render()
def _set_confidence_threshold_ui(self, thresh):
vf = self._comedi._view_frame
panel = vf.pane_controls.window
panel.cm_diff_conf_thresh_txt.SetValue('%.1f' % (thresh,))
def _set_range_ui(self, range):
"""Set the given range in the interface.
"""
vf = self._comedi._view_frame
panel = vf.pane_controls.window
r = range
panel.cm_diff_range0_text.SetValue(str(r[0]))
panel.cm_diff_range1_text.SetValue(str(r[1]))
def _unbind_events(self):
vf = self._comedi._view_frame
panel = vf.pane_controls.window
panel.cm_diff_context_target_choice.Unbind(
wx.EVT_CHOICE)
panel.cm_diff_focus_target_choice.Unbind(
wx.EVT_CHOICE)
panel.cm_diff_range0_text.Unbind(
wx.EVT_TEXT_ENTER)
panel.cm_diff_range1_text.Unbind(
wx.EVT_TEXT_ENTER)
def _set_cmap_type_and_range(self, cmap_type, range,
force_update=False):
"""First sanitise, then synchronise the current colormap range
to the specified UI values, also taking into account the
current colour map choice.
"""
vf = self._comedi._view_frame
panel = vf.pane_controls.window
r0 = panel.cm_diff_range0_text.GetValue()
r1 = panel.cm_diff_range1_text.GetValue()
try:
r0 = float(r0)
except ValueError:
r0 = self._cmap_range[0]
try:
r1 = float(r1)
except ValueError:
r1 = self._cmap_range[1]
# swap if necessary
if r0 > r1:
r1,r0 = r0,r1
r = r0,r1
if force_update:
must_update = True
else:
must_update = False
if r0 != self._cmap_range[0] or r1 != self._cmap_range[1]:
must_update = True
self._cmap_range = r
if cmap_type != self._cmap_type:
must_update = True
self._cmap_type = cmap_type
if must_update:
if cmap_type == CMAP_BLUE_TO_YELLOW_KREKEL:
lut = self._color_scales.LUT_BlueToYellow(r)
elif cmap_type == CMAP_HEAT_PL:
lut = self._color_scales.LUT_Linear_Heat(r)
elif cmap_type == CMAP_BLUE_TO_YELLOW_PL:
lut = self._color_scales.LUT_Linear_BlueToYellow(r)
elif cmap_type == CMAP_BLACK_TO_WHITE_PL:
lut = self._color_scales.LUT_Linear_BlackToWhite(r)
for cmap in self._cmaps:
cmap.SetLookupTable2(lut)
self._sv.render()
# we return the possibly corrected range
return r
def _sync_cmap_type_and_range_with_ui(self):
vf = self._comedi._view_frame
panel = vf.pane_controls.window
r0 = panel.cm_diff_range0_text.GetValue()
r1 = panel.cm_diff_range0_text.GetValue()
cmap_type = panel.cm_diff_cmap_choice.GetSelection()
r = self._set_cmap_type_and_range(cmap_type, (r0,r1))
if r[0] != r0 or r[1] != r1:
self._set_range_ui(r)
# PUBLIC methods ################################################
| [
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[
1,
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0.66,... | [
"import comedi_utils",
"reload(comedi_utils)",
"import vtk",
"import vtktudoss",
"from module_kits import vtk_kit",
"import wx",
"class ComparisonMode:\n def __init__(self, comedi, cfg_dict):\n pass\n\n def disable_vis(self):\n \"\"\"This will be called by CoMedI when it sees that we... |
import vtk
import wx
from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor
import external.PyAUI as PyAUI
from resources.python import measure2d_panels
reload(measure2d_panels)
class Measure2DFrame(wx.Frame):
def __init__(self, parent, id=-1, title="", pos=wx.DefaultPosition,
size=wx.DefaultSize, style=wx.DEFAULT_FRAME_STYLE |
wx.SUNKEN_BORDER |
wx.CLIP_CHILDREN, name="frame"):
wx.Frame.__init__(self, parent, id, title, pos, size, style, name)
# tell FrameManager to manage this frame
self._mgr = PyAUI.FrameManager()
self._mgr.SetFrame(self)
self._make_menu()
# statusbar
self.statusbar = self.CreateStatusBar(2, wx.ST_SIZEGRIP)
self.statusbar.SetStatusWidths([-2, -3])
self.statusbar.SetStatusText("Ready", 0)
self.statusbar.SetStatusText("DeVIDE Measure2D", 1)
self.SetMinSize(wx.Size(400, 300))
self.SetSize(wx.Size(400, 300))
# could make toolbars here
# now we need to add panes
self._rwi_panel = self._create_rwi_panel()
self._mgr.AddPane(self._rwi_panel,
PyAUI.PaneInfo().Name('rwi').
Caption('Image View').Center().
MinSize(self._rwi_panel.GetSize()))
self._image_control_panel = self._create_image_control_panel()
self._mgr.AddPane(self._image_control_panel,
PyAUI.PaneInfo().Name('image_control').
Caption('Controls').Bottom().
MinSize(self._image_control_panel.GetSize()))
self._measurement_panel = self._create_measurement_panel()
self._mgr.AddPane(self._measurement_panel,
PyAUI.PaneInfo().Name('measurement').
Caption('Measurements').Bottom().
MinSize(self._measurement_panel.GetSize()))
# post-pane setup
self._mgr.Update()
self.perspective_default = self._mgr.SavePerspective()
# these come from the demo
self.Bind(wx.EVT_ERASE_BACKGROUND, self.OnEraseBackground)
self.Bind(wx.EVT_SIZE, self.OnSize)
#self.Bind(wx.EVT_CLOSE, self.OnClose)
# even although we disable the close button, when a window floats
# it gets a close button back, so we have to make sure that when
# the user activates that the windows is merely hidden
self.Bind(PyAUI.EVT_AUI_PANEBUTTON, self.OnPaneButton)
wx.EVT_MENU(self, self.window_default_view_id,
lambda e: self._mgr.LoadPerspective(
self.perspective_default) and self._mgr.Update())
def close(self):
# do the careful thing with the threedRWI and all
self.Destroy()
def _create_rwi_panel(self):
#rwi_panel = wx.Panel(self, -1)
self._rwi = wxVTKRenderWindowInteractor(self, -1, size=(300,100))
#sizer = wx.BoxSizer(wx.VERTICAL)
#sizer.Add(self._rwi, 1, wx.EXPAND | wx.ALL, 4)
#rwi_panel.SetAutoLayout(True)
#rwi_panel.SetSizer(sizer)
#rwi_panel.GetSizer().Fit(rwi_panel)
#rwi_panel.GetSizer().SetSizeHints(rwi_panel)
#return rwi_panel
return self._rwi
def _create_image_control_panel(self):
panel = wx.Panel(self, -1)
#wx.Label(panel, -1, "")
panel.slider = wx.Slider(panel, -1, 0, 0, 64, style=wx.SL_LABELS)
slider_box = wx.BoxSizer(wx.HORIZONTAL)
slider_box.Add(panel.slider, 1, wx.ALL)
tl_sizer = wx.BoxSizer(wx.VERTICAL)
tl_sizer.Add(slider_box, 0, wx.EXPAND, 4)
panel.SetAutoLayout(True)
panel.SetSizer(tl_sizer)
panel.GetSizer().Fit(panel)
panel.GetSizer().SetSizeHints(panel)
return panel
def _handler_grid_range_select(self, event):
"""This event handler is a fix for the fact that the row
selection in the wxGrid is deliberately broken. It's also
used to activate and deactivate relevant menubar items.
Whenever a user clicks on a cell, the grid SHOWS its row
to be selected, but GetSelectedRows() doesn't think so.
This event handler will travel through the Selected Blocks
and make sure the correct rows are actually selected.
Strangely enough, this event always gets called, but the
selection is empty when the user has EXPLICITLY selected
rows. This is not a problem, as then the GetSelectedRows()
does return the correct information.
"""
g = event.GetEventObject()
# both of these are lists of (row, column) tuples
tl = g.GetSelectionBlockTopLeft()
br = g.GetSelectionBlockBottomRight()
# this means that the user has most probably clicked on the little
# block at the top-left corner of the grid... in this case,
# SelectRow has no frikking effect (up to wxPython 2.4.2.4) so we
# detect this situation and clear the selection (we're going to be
# selecting the whole grid in anycase.
if tl == [(0,0)] and br == [(g.GetNumberRows() - 1,
g.GetNumberCols() - 1)]:
g.ClearSelection()
for (tlrow, tlcolumn), (brrow, brcolumn) in zip(tl, br):
for row in range(tlrow,brrow + 1):
g.SelectRow(row, True)
def _create_measurement_panel(self):
# drop-down box with type, name, create button
# grid / list with names and measured data
# also delete button to get rid of things we don't want
# start nasty trick: load wxGlade created frame
mpf = measure2d_panels.MeasurementPanelFrame
self.dummy_measurement_frame = mpf(self, id=-1)
# take and reparent the panel we want
dmf = self.dummy_measurement_frame
panel = dmf.panel
panel.Reparent(self)
panel.create_button = dmf.create_button
panel.measurement_grid = dmf.measurement_grid
panel.name_cb = dmf.name_cb
panel.rename_button = dmf.rename_button
panel.delete_button = dmf.delete_button
panel.enable_button = dmf.enable_button
panel.disable_button = dmf.disable_button
# need this handler to fix brain-dead selection handling
panel.measurement_grid.Bind(wx.grid.EVT_GRID_RANGE_SELECT,
self._handler_grid_range_select)
# destroy wxGlade created frame
dmf.Destroy()
return panel
def _make_menu(self):
# Menu Bar
self.menubar = wx.MenuBar()
self.SetMenuBar(self.menubar)
self.fileNewId = wx.NewId()
self.fileOpenId = wx.NewId()
file_menu = wx.Menu()
file_menu.Append(self.fileNewId, "&New\tCtrl-N",
"Create new network.", wx.ITEM_NORMAL)
file_menu.Append(self.fileOpenId, "&Open\tCtrl-O",
"Open and load existing network.", wx.ITEM_NORMAL)
self.menubar.Append(file_menu, "&File")
window_menu = wx.Menu()
self.window_default_view_id = wx.NewId()
window_menu.Append(
self.window_default_view_id, "Restore &default view",
"Restore default perspective / window configuration.",
wx.ITEM_NORMAL)
self.menubar.Append(window_menu, "&Window")
def OnEraseBackground(self, event):
# from PyAUI demo
event.Skip()
def OnPaneButton(self, event):
event.GetPane().Hide()
def OnSize(self, event):
# from PyAUI demo
event.Skip()
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... | [
"import vtk",
"import wx",
"from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor",
"import external.PyAUI as PyAUI",
"from resources.python import measure2d_panels",
"reload(measure2d_panels)",
"class Measure2DFrame(wx.Frame):\n def __init__(self, parent, id=-1, title=\"\", pos=... |
from wxPython._controls import wxLIST_MASK_STATE
from wxPython._controls import wxLIST_STATE_SELECTED
import os.path
# Modified by Francois Malan, LUMC / TU Delft
# December 2009
#
# based on the SkeletonAUIViewer:
# skeleton of an AUI-based viewer module
# Copyright (c) Charl P. Botha, TU Delft.
# set to False for 3D viewer, True for 2D image viewer
IMAGE_VIEWER = False
# import the frame, i.e. the wx window containing everything
import MaskComBinarFrame
# and do a reload, so that the GUI is also updated at reloads of this
# module.
reload(MaskComBinarFrame)
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
import os
import vtk
import itk
import wx
import copy
import subprocess
#import numpy as np
from OverlaySliceViewer import OverlaySliceViewer
class Mask(object):
def __init__(self, name, file_path, image_data):
self.name = name
self.file_path = file_path
self.data = image_data
# def deepcopy(self):
# return Mask(self.name, self.file_path, self.data.DeepCopy())
class MaskComBinar(IntrospectModuleMixin, ModuleBase):
def __init__(self, module_manager):
"""Standard constructor. All DeVIDE modules have these, we do
the required setup actions.
"""
# we record the setting here, in case the user changes it
# during the lifetime of this model, leading to different
# states at init and shutdown.
self.IMAGE_VIEWER = IMAGE_VIEWER
ModuleBase.__init__(self, module_manager)
# create the view frame
self._view_frame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
MaskComBinarFrame.MaskComBinarFrame)
# change the title to something more spectacular
self._view_frame.SetTitle('MaskComBinar - a tool for measuring and manipulating binary masks')
#initialise data structures
self._init_data_structures()
self._init_2d_render_window()
self._init_3d_render_window()
self.reset_camera_on_mask_display = True
self.first_save_warning = True
# hook up all event handlers
self._bind_events()
# anything you stuff into self._config will be saved
self._config.last_used_dir = ''
# make our window appear (this is a viewer after all)
self.view()
# all modules should toggle this once they have shown their
# views.
self.view_initialised = True
# apply config information to underlying logic
self.sync_module_logic_with_config()
# then bring it all the way up again to the view
self.sync_module_view_with_logic()
#This tool can be used for introspection of wx components
#
def _init_2d_render_window(self):
#create the necessary VTK objects for the 2D window. We use Charl's CMSliceViewer
#which defines all the nice goodies we'll need
self.ren2d = vtk.vtkRenderer()
self.ren2d.SetBackground(0.4,0.4,0.4)
self.slice_viewer = OverlaySliceViewer(self._view_frame.rwi2d, self.ren2d)
self._view_frame.rwi2d.GetRenderWindow().AddRenderer(self.ren2d)
self.slice_viewer.add_overlay('a', [0, 0, 1, 1]) #Blue for selection A
self.slice_viewer.add_overlay('b', [1, 0, 0, 1]) #Red for selection B
self.slice_viewer.add_overlay('intersect', [1, 1, 0, 1]) #Yellow for for intersection
def _init_3d_render_window(self):
# create the necessary VTK objects for the 3D window: we only need a renderer,
# the RenderWindowInteractor in the view_frame has the rest.
self.ren3d = vtk.vtkRenderer()
self.ren3d.SetBackground(0.6,0.6,0.6)
self._view_frame.rwi3d.GetRenderWindow().AddRenderer(self.ren3d)
def _init_data_structures(self):
self.opacity_3d = 0.5
self.rgb_blue = [0,0,1]
self.rgb_red = [1,0,0]
self.rgb_yellow = [1,1,0]
self.masks = {}
self.surfaces = {} #This prevents recomputing surface meshes
self.actors3d = {}
self.rendered_masks_in_a = set()
self.rendered_masks_in_b = set()
self.rendered_overlap = False
def _load_mask_from_file(self, file_path):
print "Opening file: %s" % (file_path)
filename = os.path.split(file_path)[1]
reader = None
extension = os.path.splitext(filename)[1]
if extension == '.vti': # VTI
reader = vtk.vtkXMLImageDataReader()
elif extension == '.mha': # MHA
reader = vtk.vtkMetaImageReader()
else:
self._view_frame.dialog_error('Unknown file extension: %s' % extension, 'Unable to handle extension')
return
reader.SetFileName(file_path)
reader.Update()
result = vtk.vtkImageData()
result.DeepCopy(reader.GetOutput())
return result
def load_binary_mask_from_file(self, file_path):
mask_image_data = self._load_mask_from_file(file_path)
filename = os.path.split(file_path)[1]
fileBaseName =os.path.splitext(filename)[0]
mask = Mask(fileBaseName, file_path, mask_image_data)
self.add_mask(mask)
def load_multi_mask_from_file(self, file_path):
mask_image_data = self._load_mask_from_file(file_path)
filename = os.path.split(file_path)[1]
fileBaseName =os.path.splitext(filename)[0]
#Now we have to create a separate mask for each integer level.
accumulator = vtk.vtkImageAccumulate()
accumulator.SetInput(mask_image_data)
accumulator.Update()
max_label = int(accumulator.GetMax()[0])
#We assume all labels to have positive values.
for i in range(1,max_label+1):
label_data = self._threshold_image(mask_image_data, i, i)
new_name = '%s_%d' % (fileBaseName, i)
mask = Mask(new_name, file_path, label_data)
self.add_mask(mask)
def save_mask_to_file(self, mask_name, file_path):
if os.path.exists(file_path):
result = self._view_frame.dialog_yesno("%s already exists! \nOverwrite?" % file_path,"File already exists")
if result == False:
print 'Skipped writing %s' % file_path
return #skip this file if overwrite is denied
mask = self.masks[mask_name]
mask.file_path = file_path
self._save_image_to_file(mask.data, file_path)
print 'Wrote mask %s to %s' % (mask_name, file_path)
def _save_image_to_file(self, imagedata, file_path):
filename = os.path.split(file_path)[1]
extension = os.path.splitext(filename)[1]
writer = None
if extension == '.vti': # VTI
writer = vtk.vtkXMLImageDataWriter()
elif extension == '.mha': # MHA
print 'Attempting to create an mha writer. This has failed in the past (?)'
writer = vtk.vtkMetaImageWriter()
writer.SetCompression(True)
else:
self._view_frame.dialog_error('Unknown file extension: %s' % extension, 'Unable to handle extension')
return
writer.SetInput(imagedata)
writer.SetFileName(file_path)
writer.Update()
result = writer.Write()
if result == 0:
self._view_frame.dialog_error('Error writing %s' % filename, 'Error writing file')
print 'ERROR WRITING FILE!!!'
else:
self._view_frame.dialog_info('Successfully wrote %s' % filename, 'Success')
print 'Successfully wrote %s' % file_path
def add_mask(self, mask):
[accept, name] = self._view_frame.dialog_inputtext('Please choose a name for the new mask','Choose a name', mask.name)
if accept:
mask.name = name
if self.masks.has_key(name):
i=1
new_name = '%s%d' % (name, i)
while self.masks.has_key(new_name):
i += 1
new_name = '%s%d' % (mask.name, i)
mask.name = new_name
self.masks[mask.name] = mask
self._view_frame.add_mask(mask.name)
def delete_masks(self, mask_names):
temp = mask_names.copy()
if len(mask_names) > 0:
mask_names_str = mask_names.pop()
while len(mask_names) > 0:
mask_names_str = mask_names_str + ',%s' % mask_names.pop()
mask_names = temp
if self._view_frame.dialog_yesno('Are you sure you want to delete the following masks: %s' % mask_names_str, 'Delete masks?'):
for mask_name in mask_names:
print 'deleting mask: %s' % mask_name
if self.masks.has_key(mask_name):
self.masks.pop(mask_name)
self._view_frame.delete_mask(mask_name)
else:
self._view_frame.dialog_error('Mask "%s" not found in internal mask list!' % mask_name, 'Mask not found')
if len(self.masks) == 0: #If there are no masks left we disable the 2D viewer's pickable plane
self.slice_viewer.set_input(0, None)
def close(self):
"""Clean-up method called on all DeVIDE modules when they are
deleted.
"""
# with this complicated de-init, we make sure that VTK is
# properly taken care of
self.ren2d.RemoveAllViewProps()
self.ren3d.RemoveAllViewProps()
# this finalize makes sure we don't get any strange X
# errors when we kill the module.
self._view_frame.rwi2d.GetRenderWindow().Finalize()
self._view_frame.rwi2d.SetRenderWindow(None)
del self._view_frame.rwi2d
self._view_frame.rwi3d.GetRenderWindow().Finalize()
self._view_frame.rwi3d.SetRenderWindow(None)
del self._view_frame.rwi3d
# done with VTK de-init
# now take care of the wx window
self._view_frame.close()
# then shutdown our introspection mixin
IntrospectModuleMixin.close(self)
def get_input_descriptions(self):
# define this as a tuple of input descriptions if you want to
# take input data e.g. return ('vtkPolyData', 'my kind of
# data')
return ()
def get_output_descriptions(self):
# define this as a tuple of output descriptions if you want to
# generate output data.
return ()
def set_input(self, idx, input_stream):
# this gets called right before you get executed. take the
# input_stream and store it so that it's available during
# execute_module()
pass
def get_output(self, idx):
# this can get called at any time when a consumer module wants
# your output data.
pass
def execute_module(self):
# when it's your turn to execute as part of a network
# execution, this gets called.
pass
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def config_to_view(self):
pass
def view_to_config(self):
pass
def view(self):
self._view_frame.Show()
self._view_frame.Raise()
# because we have an RWI involved, we have to do this
# SafeYield, so that the window does actually appear before we
# call the render. If we don't do this, we get an initial
# empty renderwindow.
wx.SafeYield()
self.render()
def _update_3d_masks(self, id, removed, added):
rgb_colour = [0,0,0]
if id == 'a':
rgb_colour = self.rgb_blue
elif id == 'b':
rgb_colour = self.rgb_red
for name in removed:
key = id + name
self.ren3d.RemoveActor(self.actors3d[key])
self.render()
for name in added:
self._render_3d_mask(id, name, rgb_colour, self.opacity_3d)
def _update_3d_masks_overlapping(self, mask_a, mask_b, mask_intersect):
self._clear_3d_window()
self._render_3d_data('a_not_b', mask_a.data, self.rgb_blue, self.opacity_3d)
self._render_3d_data('b_not_a', mask_b.data, self.rgb_red, self.opacity_3d)
self._render_3d_data('a_and_b', mask_intersect.data, self.rgb_yellow, self.opacity_3d)
def _clear_3d_window(self):
for actor in self.actors3d.values():
self.ren3d.RemoveActor(actor)
self.ren3d.Clear()
self.rendered_masks_in_a = set()
self.rendered_masks_in_b = set()
self.rendered_overlap = False
def _render_2d_mask(self, id, mask):
mask_data = None
if mask != None:
mask_data = mask.data
self.slice_viewer.set_input(id, mask_data)
if self.reset_camera_on_mask_display:
self.slice_viewer.reset_camera()
#self.slice_viewer.reset_to_default_view(2)
self.slice_viewer.render()
def _render_3d_mask(self, id, name, rgb_colour, opacity):
"""Add the given mask to the 3D display window.
An iso-surface of colour rgb_colour is rendered at value = 1.
"""
surface = None
mask = self.masks[name]
if not self.surfaces.has_key(name):
surface_creator = vtk.vtkDiscreteMarchingCubes()
surface_creator.SetInput(mask.data)
surface_creator.Update()
surface = surface_creator.GetOutput()
self.surfaces[name] = surface
else:
surface = self.surfaces[name]
m = vtk.vtkPolyDataMapper()
m.SetInput(surface)
m.ScalarVisibilityOff()
actor = vtk.vtkActor()
actor.SetMapper(m)
actor.SetPosition(mask.data.GetOrigin())
actor.GetProperty().SetColor(rgb_colour)
actor.GetProperty().SetOpacity(opacity)
#actor.GetProperty().SetInterpolationToFlat()
self.ren3d.AddActor(actor)
self.actors3d[id+name] = actor
if self.reset_camera_on_mask_display:
self.ren3d.ResetCamera()
self.render()
def _render_3d_data(self, id, data, rgb_colour, opacity):
"""Add the given mask to the 3D display window.
An iso-surface of colour rgb_colour is rendered at value = 1.
"""
surface_creator = vtk.vtkDiscreteMarchingCubes()
surface_creator.SetInput(data)
surface_creator.Update()
surface = surface_creator.GetOutput()
m = vtk.vtkPolyDataMapper()
m.SetInput(surface)
m.ScalarVisibilityOff()
actor = vtk.vtkActor()
actor.SetMapper(m)
actor.SetPosition(data.GetOrigin())
actor.GetProperty().SetColor(rgb_colour)
actor.GetProperty().SetOpacity(opacity)
#actor.GetProperty().SetInterpolationToFlat()
self.ren3d.AddActor(actor)
self.actors3d[id] = actor
if self.reset_camera_on_mask_display:
self.ren3d.ResetCamera()
self.render()
def _bind_events(self):
"""Bind wx events to Python callable object event handlers.
"""
vf = self._view_frame
vf.Bind(wx.EVT_MENU, self._handler_open_binary_mask,
id = vf.id_open_binary_mask)
vf.Bind(wx.EVT_MENU, self._handler_open_multi_mask,
id = vf.id_open_multi_mask)
vf.Bind(wx.EVT_MENU, self._handler_save_multi_mask,
id = vf.id_save_multi_mask)
vf.Bind(wx.EVT_MENU, self._handler_open_mask_dir,
id = vf.id_open_mask_dir)
vf.Bind(wx.EVT_MENU, self._handler_save_mask,
id = vf.id_save_mask)
vf.Bind(wx.EVT_MENU, self._handler_close,
id = vf.id_quit)
vf.Bind(wx.EVT_MENU, self._handler_introspect,
id = vf.id_introspect)
vf.Bind(wx.EVT_MENU, self._handler_about,
id = vf.id_about)
self._view_frame.reset_cam2d_button.Bind(wx.EVT_BUTTON,
self._handler_reset_cam2d_button)
self._view_frame.reset_cam3d_button.Bind(wx.EVT_BUTTON,
self._handler_reset_cam3d_button)
self._view_frame.clear_selection_button.Bind(wx.EVT_BUTTON,
self._handler_clear_selection_button)
self._view_frame.list_ctrl_maskA.Bind(wx.EVT_LIST_ITEM_SELECTED, self._handler_listctrl)
self._view_frame.list_ctrl_maskA.Bind(wx.EVT_LIST_ITEM_DESELECTED, self._handler_listctrl)
self._view_frame.list_ctrl_maskB.Bind(wx.EVT_LIST_ITEM_SELECTED, self._handler_listctrl)
self._view_frame.list_ctrl_maskB.Bind(wx.EVT_LIST_ITEM_DESELECTED, self._handler_listctrl)
self._view_frame.list_ctrl_maskA.Bind(wx.EVT_LIST_KEY_DOWN, self._handler_delete_mask_a)
self._view_frame.list_ctrl_maskB.Bind(wx.EVT_LIST_KEY_DOWN, self._handler_delete_mask_b)
#Mask operations
self._view_frame.mask_join_button.Bind(wx.EVT_BUTTON, self._handler_mask_join)
self._view_frame.mask_subtract_button.Bind(wx.EVT_BUTTON, self._handler_mask_subtract)
self._view_frame.mask_intersect_button.Bind(wx.EVT_BUTTON, self._handler_mask_intersect)
self._view_frame.mask_align_metadata_button.Bind(wx.EVT_BUTTON, self._handler_align_masks_metadata)
self._view_frame.mask_align_icp_button.Bind(wx.EVT_BUTTON, self._handler_align_masks_icp)
self._view_frame.split_disconnected_button.Bind(wx.EVT_BUTTON, self._handler_split_disconnected)
#Mask diagnostics
self._view_frame.test_all_dimensions_button.Bind(wx.EVT_BUTTON, self._handler_test_all_dimensions)
self._view_frame.test_selected_dimensions_button.Bind(wx.EVT_BUTTON, self._handler_test_selected_dimensions)
self._view_frame.test_all_intersections_button.Bind(wx.EVT_BUTTON, self._handler_test_all_intersections)
self._view_frame.test_selected_intersections_button.Bind(wx.EVT_BUTTON, self._handler_test_selected_intersections)
#Mask metrics
self._view_frame.volume_button.Bind(wx.EVT_BUTTON, self._handler_compute_volume)
self._view_frame.dice_coefficient_button.Bind(wx.EVT_BUTTON, self._handler_compute_dice_coefficient)
self._view_frame.hausdorff_distance_button.Bind(wx.EVT_BUTTON, self._handler_compute_hausdorff_distance)
self._view_frame.mean_hausdorff_distance_button.Bind(wx.EVT_BUTTON, self._handler_compute_mean_hausdorff_distance)
#self._view_frame.Bind(wx.EVT_SLIDER, self._handler_slider_update)
def _handler_reset_cam2d_button(self, event):
#self.slice_viewer.reset_camera()
self.slice_viewer.reset_to_default_view(2)
self.render()
def _handler_reset_cam3d_button(self, event):
self.ren3d.ResetCamera()
self.render()
def _handler_clear_selection_button(self, event):
self._view_frame.clear_selections()
self._clear_3d_window()
self.slice_viewer.set_input(0, None)
self.slice_viewer.set_input('a', None)
self.slice_viewer.set_input('b', None)
self.slice_viewer.set_input('intersect', None)
self.render()
def _handler_delete_mask_a(self, event):
'''Handler for deleting an mask from either of the two lists (acts on both)'''
if event.KeyCode == 127: #This is the keycode for "delete"
names_a = self._view_frame.get_selected_mask_names_a()
if len(names_a) > 0:
self.delete_masks(names_a)
def _handler_delete_mask_b(self, event):
'''Handler for deleting an mask from either of the two lists (acts on both)'''
if event.KeyCode == 127: #This is the keycode for "delete"
names_b = self._view_frame.get_selected_mask_names_b()
if len(names_b) > 0:
self.delete_masks(names_b)
def _handler_listctrl(self, event):
"""Mask is selected or deselected in listcontrol A"""
if self.rendered_overlap:
self._clear_3d_window()
self.rendered_overlap = False
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
new_in_a = set()
new_in_b = set()
gone_from_a = set()
gone_from_b = set()
#Check what has changed
for name in names_a:
if not name in self.rendered_masks_in_a:
new_in_a.add(name)
for name in self.rendered_masks_in_a:
if not name in names_a:
gone_from_a.add(name)
#Update the list of selected items
self.rendered_masks_in_a = names_a
for name in names_b:
if not name in self.rendered_masks_in_b:
new_in_b.add(name)
for name in self.rendered_masks_in_b:
if not name in names_b:
gone_from_b.add(name)
#Update the list of selected items
self.rendered_masks_in_b = names_b
overlap = None
union_masks_a = None
union_masks_b = None
if (len(gone_from_a) > 0) or (len(new_in_a) > 0) or (len(gone_from_b) > 0) or (len(new_in_b) > 0):
union_masks_a = self.compute_mask_union(names_a)
union_masks_b = self.compute_mask_union(names_b)
self._render_2d_mask('a',union_masks_a)
self._render_2d_mask('b',union_masks_b)
overlap = self._logical_intersect_masks(union_masks_a, union_masks_b)
if self._is_empty_mask(overlap):
overlap = None
self._render_2d_mask('intersect',overlap)
if overlap == None:
#We don't need to render any custom mask - only a list of existing selected masks
self._update_3d_masks('a', gone_from_a, new_in_a)
self._update_3d_masks('b', gone_from_b, new_in_b)
else:
#We require a more expensive custom render to show overlapping areas in 3D
a_not_b = self._logical_subtract_masks(union_masks_a, overlap)
b_not_a = self._logical_subtract_masks(union_masks_b, overlap)
self._update_3d_masks_overlapping(a_not_b, b_not_a, overlap)
self.rendered_masks_in_a = {}
self.rendered_masks_in_b = {}
self.rendered_overlap = True
def _handler_open_binary_mask(self, event):
"""Opens a binary mask file"""
filters = 'Mask files (*.vti;*.mha)|*.vti;*.mha'
dlg = wx.FileDialog(self._view_frame, "Choose a binary mask file", self._config.last_used_dir, "", filters, wx.OPEN)
if dlg.ShowModal() == wx.ID_OK:
filename=dlg.GetFilename()
self._config.last_used_dir=dlg.GetDirectory()
full_file_path = "%s\\%s" % (self._config.last_used_dir, filename)
self.load_binary_mask_from_file(full_file_path)
dlg.Destroy()
def _handler_open_multi_mask(self, event):
"""Opens an integer-labeled multi-material mask file"""
filters = 'Mask files (*.vti;*.mha)|*.vti;*.mha'
dlg = wx.FileDialog(self._view_frame, "Choose a multi-label mask file", self._config.last_used_dir, "", filters, wx.OPEN)
if dlg.ShowModal() == wx.ID_OK:
filename=dlg.GetFilename()
self._config.last_used_dir=dlg.GetDirectory()
full_file_path = "%s\\%s" % (self._config.last_used_dir, filename)
self.load_multi_mask_from_file(full_file_path)
dlg.Destroy()
def _handler_open_mask_dir(self, event):
"""Opens all masks in a given directory"""
dlg = wx.DirDialog(self._view_frame, "Choose a directory containing masks", self._config.last_used_dir)
if dlg.ShowModal() == wx.ID_OK:
dir_name=dlg.GetPath()
self._config.last_used_dir=dir_name
all_files = os.listdir(dir_name)
#First we set up actor list of files with the correct extension
file_list = []
source_ext = '.vti'
for f in all_files:
file_name = os.path.splitext(f)
if file_name[1] == source_ext:
file_list.append(f)
for filename in file_list:
full_file_path = "%s\\%s" % (dir_name, filename)
self.load_binary_mask_from_file(full_file_path)
dlg.Destroy()
print 'Done!'
def _specify_output_file_path(self):
file_path = None
filters = 'Mask files (*.vti;*.mha)|*.vti;*.mha'
dlg = wx.FileDialog(self._view_frame, "Choose a destination", self._config.last_used_dir, "", filters, wx.SAVE)
if dlg.ShowModal() == wx.ID_OK:
filename=dlg.GetFilename()
self._config.last_used_dir=dlg.GetDirectory()
file_path = "%s\\%s" % (self._config.last_used_dir, filename)
dlg.Destroy()
return file_path
def _handler_save_multi_mask(self, event):
"""Saves a multi-label mask file"""
if self.test_valid_mask_selection_multiple():
file_path = self._specify_output_file_path()
if file_path != None:
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
names = set()
for mask_name in names_a:
names.add(mask_name)
for mask_name in names_b:
names.add(mask_name)
mask_name = names.pop()
imagedata = vtk.vtkImageData()
maskdata = self.masks[mask_name].data
imagedata.DeepCopy(maskdata)
k = 1
for mask_name in names:
k = k+1
maskdata = self.masks[mask_name].data
imath = vtk.vtkImageMathematics()
imath.SetOperationToMultiplyByK()
imath.SetConstantK(k)
print 'Multiplying %s with %d and adding to volume' % (mask_name, k)
imath.SetInput(maskdata)
imath.Update()
adder = vtk.vtkImageMathematics()
adder.SetOperationToAdd()
adder.SetInput1(imagedata)
adder.SetInput2(imath.GetOutput())
adder.Update()
imagedata.DeepCopy(adder.GetOutput())
self._save_image_to_file(imagedata, file_path)
print 'Wrote multi-label mask with %d labels to %s' % (k, file_path)
def _handler_save_mask(self, event):
"""Saves a mask file"""
if self.test_single_mask_selection():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
mask_name = ''
if len(names_b) == 1:
mask_name = names_b.pop()
else:
mask_name = names_a.pop()
file_path = self._specify_output_file_path()
if mask_name != None:
self.save_mask_to_file(mask_name, file_path)
else:
self._view_frame.dialog_exclaim("No valid file name specified")
def _handler_align_masks_metadata(self, event):
"""Aligns two masks by copying metadata from the first to the second (origin, spacing, extent, wholeextent)
As always, creates a new mask in the list of masks as output.
"""
if self.test_single_mask_pair_selection():
#We know that there is only a single mask selected in each of A and B, therefor we only index the 0th element in each
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
maskA = self.masks[names_a.pop()]
maskB = self.masks[names_b.pop()]
mask_data = vtk.vtkImageData()
mask_data.DeepCopy(maskB.data)
mask_data.SetOrigin(maskA.data.GetOrigin())
mask_data.SetExtent(maskA.data.GetExtent())
mask_data.SetWholeExtent(maskA.data.GetWholeExtent())
mask_data.SetSpacing(maskA.data.GetSpacing())
mask = Mask('%s_a' % maskB.name, maskB.file_path, mask_data)
self.add_mask(mask)
def _handler_split_disconnected(self, event):
"""Splits the selected mask into disconnected regions"""
if self.test_single_mask_selection():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
mask_name = ''
if len(names_b) == 1:
mask_name = names_b.pop()
else:
mask_name = names_a.pop()
self._split_disconnected_objects(mask_name)
def _handler_align_masks_icp(self, event):
"""Aligns two masks by using the Iterative Closest Point algorithm (rigid transformation)
As always, creates a new mask in the list of masks as output.
"""
if self.test_single_mask_pair_selection():
#We know that there is only a single mask selected in each of A and B, therefor we only index the 0th element in each
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
maskA = self.masks[names_a.pop()]
maskB = self.masks[names_b.pop()]
#We need meshes (polydata) as input to the ICP algorithm
meshA = None
meshB = None
#actually this should never happen, but let's keep it for making double sure
if not self.surfaces.has_key(maskA.name):
surface_creator_A = vtk.vtkDiscreteMarchingCubes()
surface_creator_A.SetInput(maskA.data)
surface_creator_A.Update()
meshA = surface_creator_A.GetOutput()
else:
meshA = self.surfaces[maskA.name]
#actually this should never happen, but let's keep it for making double sure
if not self.surfaces.has_key(maskB.name):
surface_creator_B = vtk.vtkDiscreteMarchingCubes()
surface_creator_B.SetInput(maskB.data)
surface_creator_B.Update()
meshB = surface_creator_B.GetOutput()
else:
meshB = self.surfaces[maskB.name]
icp = vtk.vtkIterativeClosestPointTransform()
icp.SetMaximumNumberOfIterations(50)
icp.SetSource(meshA)
icp.SetTarget(meshB)
print 'Executing ICP alorithm'
icp.Update()
del meshA, meshB
reslicer = vtk.vtkImageReslice()
reslicer.SetInterpolationModeToNearestNeighbor()
#reslicer.SetInterpolationModeToCubic()
reslicer.SetInput(maskB.data)
reslicer.SetResliceTransform(icp)
reslicer.Update()
del maskA, maskB
result = vtk.vtkImageData()
result.DeepCopy(reslicer.GetOutput())
self.add_mask(Mask('Aligned','',result))
def _handler_compute_volume(self, event):
"""Computes the volume of of mask A (in milliliters)"""
if self.test_valid_mask_selection_a():
names_a = self._view_frame.get_selected_mask_names_a()
union_masksA = self.compute_mask_union(names_a)
spacing = union_masksA.data.GetSpacing()
voxel_volume = spacing[0] * spacing[1] * spacing[2]
accumulator = vtk.vtkImageAccumulate()
accumulator.SetInput(union_masksA.data)
accumulator.Update()
nonzero_count = accumulator.GetMean()[0] * accumulator.GetVoxelCount()
volume = voxel_volume * nonzero_count / 1000.0
print "Volume = %.2f ml" % (volume)
copy_to_clipboard = self._view_frame.dialog_yesno('Volume = %f ml\n\nCopy to clipboard?' % volume, 'Volume = %.1f%% ml' % (volume))
if copy_to_clipboard:
self._view_frame.copy_text_to_clipboard('%f' % volume)
def _is_empty_mask(self, mask):
if mask == None:
return True
else:
accumulator = vtk.vtkImageAccumulate()
accumulator.SetInput(mask.data)
accumulator.Update()
return accumulator.GetMax()[0] == 0
def _handler_compute_dice_coefficient(self, event):
"""Computes the Dice coefficient between selections in A and B
Implementation from Charl's coderunner code"""
if self.test_valid_mask_selection_a_and_b():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
union_masksA = self.compute_mask_union(names_a)
union_masksB = self.compute_mask_union(names_b)
# Given two binary volumes, this CodeRunner will implement
# the percentage volume overlap. This is useful for
# doing validation with ground truth / golden standard /
# manually segmented volumes. This is also called the Dice
# coefficient and ranges from 0.0 to 1.0.
# interesting paper w.r.t. segmentation validation:
# Valmet: A new validation tool for assessing and improving 3D object segmentation
# basic idea:
# threshold data (so we have >0 == 1 and everything else 0)
# then histogram into two bins.
threshes = []
for _ in range(2):
t = vtk.vtkImageThreshold()
threshes.append(t)
# anything equal to or lower than 0.0 will be "In"
t.ThresholdByLower(0.0)
# <= 0 -> 0
t.SetInValue(0)
# > 0 -> 1
t.SetOutValue(1)
t.SetOutputScalarTypeToUnsignedChar()
# have to stuff all components into one image
iac = vtk.vtkImageAppendComponents()
iac.SetInput(0, threshes[0].GetOutput())
iac.SetInput(1, threshes[1].GetOutput())
# generate 2 by 2 matrix (histogram)
ia = vtk.vtkImageAccumulate()
ia.SetInput(iac.GetOutput())
ia.SetComponentExtent(0,1, 0,1, 0,0)
threshes[0].SetInput(union_masksA.data)
threshes[1].SetInput(union_masksB.data)
ia.Update()
iasc = ia.GetOutput().GetPointData().GetScalars()
cells = [0] * 4
for i in range(4):
cells[i] = iasc.GetTuple1(i)
# tuple 0: not in actor, not in b
# tuple 1: in actor, not in b
# tuple 2: in b, not in actor
# tuple 3: in actor, in b
# percentage overlap: (a intersect b) / (a union b)
dice_coeff = (2 * cells[3] / (2* cells[3] + cells[1] + cells[2]))
print "Dice Coefficiet = %.2f" % (dice_coeff)
copy_to_clipboard = self._view_frame.dialog_yesno('Dice coefficient = %f\n\nCopy to clipboard?' % dice_coeff, '%.1f%% overlap' % (100*dice_coeff))
if copy_to_clipboard:
self._view_frame.copy_text_to_clipboard('%f' % dice_coeff)
def _compute_hausdorff_distances(self, maskA, maskB):
"""
Computes the Hausdorff Distance between selections in A and B.
Uses the external software tool Metro to do point-based mesh sampling
"""
#We need meshes (polydata) for computing the Hausdorff distances
meshA = None
meshB = None
#actually this should never happen, but let's keep it for making double sure
if not self.surfaces.has_key(maskA.name):
self._view_frame.dialog_exclaim('Mesh belonging to Mask A not found in list, and created on the fly. This is unexpected...', 'Unexpected program state')
surface_creator_A = vtk.vtkDiscreteMarchingCubes()
surface_creator_A.SetInput(maskA.data)
surface_creator_A.Update()
meshA = surface_creator_A.GetOutput()
else:
meshA = self.surfaces[maskA.name]
#actually this should never happen, but let's keep it for making double sure
if not self.surfaces.has_key(maskB.name):
self._view_frame.dialog_exclaim('Mesh belonging to Mask B not found in list, and created on the fly. This is unexpected...', 'Unexpected program state')
surface_creator_B = vtk.vtkDiscreteMarchingCubes()
surface_creator_B.SetInput(maskB.data)
surface_creator_B.Update()
meshB = surface_creator_B.GetOutput()
else:
meshB = self.surfaces[maskB.name]
filename_a = '@temp_mesh_a.ply'
filename_b = '@temp_mesh_b.ply'
ply_writer = vtk.vtkPLYWriter()
ply_writer.SetFileTypeToBinary()
print 'Writing temporary PLY mesh A = %s' % filename_a
ply_writer.SetFileName(filename_a)
ply_writer.SetInput(meshA)
ply_writer.Update()
print 'Writing temporary PLY mesh B = %s' % filename_b
ply_writer.SetFileName(filename_b)
ply_writer.SetInput(meshB)
ply_writer.Update()
command = 'metro.exe %s %s' % (filename_a, filename_b)
p = subprocess.Popen(command, shell=True, stdout = subprocess.PIPE)
outp = p.stdout.read() #The command line output from metro
if len(outp) < 50:
self._view_frame.dialog_error('Hausdorff distance computation requires Metro to be installed and available in the system path.\n\nMetro failed to execute.\n\nAborting.\n\nMetro may be downloaded from http://vcg.sourceforge.net/index.php/Metro', 'Metro was not found')
return
print 'Executing: %s' % command
print '....................................'
print outp
print '....................................'
index = outp.find('max')
hdf = float(outp[index+6:index+54].split()[0]) #Forward Hausdorff distance
index = outp.find('max', index+3)
hdb = float(outp[index+6:index+54].split()[0]) #Backward Hausdorff distance
index = outp.find('mean')
mhdf = float(outp[index+7:index+35].split()[0]) #Forward Mean Hausdorff distance
index = outp.find('mean', index+4)
mhdb = float(outp[index+7:index+35].split()[0]) #Backward Mean Hausdorff distance
hausdorff_distance = max(hdf, hdb)
mean_hausdorff_distance = 0.5 * (mhdf + mhdb)
print 'removing temporary files'
os.remove(filename_a)
os.remove(filename_b)
print 'done!'
print '\nSampled Hausdorff distance = %.4f\nSampled Mean Hausdorff distance = %.4f\n' % (hausdorff_distance, mean_hausdorff_distance)
return [hausdorff_distance, mean_hausdorff_distance]
def _handler_compute_hausdorff_distance(self, event):
"""
Computes the Hausdorff Distance between meshes in A and B.
Uses the external software tool Metro to do point-based mesh sampling
"""
if self.test_single_mask_pair_selection():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
maskA = self.masks[names_a.pop()]
maskB = self.masks[names_b.pop()]
[hausdorff_distance, _] = self._compute_hausdorff_distances(maskA, maskB)
copy_to_clipboard = self._view_frame.dialog_yesno('Hausdorff distance = %.4f mm\n\nCopy to clipboard?' % hausdorff_distance, 'Hausdorff Distance')
if copy_to_clipboard:
self._view_frame.copy_text_to_clipboard('%f' % hausdorff_distance)
def _handler_compute_mean_hausdorff_distance(self, event):
"""
Computes the Mean Hausdorff Distance between meshes in A and B.
Uses the external software tool Metro to do point-based mesh sampling
"""
if self.test_single_mask_pair_selection():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
maskA = self.masks[names_a.pop()]
maskB = self.masks[names_b.pop()]
[_, mean_hausdorff_distance] = self._compute_hausdorff_distances(maskA, maskB)
copy_to_clipboard = self._view_frame.dialog_yesno('Mean Hausdorff distance = %.4f mm\n\nCopy to clipboard?' % mean_hausdorff_distance, 'Mean Hausdorff distance')
if copy_to_clipboard:
self._view_frame.copy_text_to_clipboard('%f' % mean_hausdorff_distance)
def _handler_mask_join(self, event):
"""Computes the union of the masks selected in boxes A and B.
Saves the result as a new Mask
"""
if self.test_valid_mask_selection_any():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
if len(names_a) + len(names_b) < 2:
return
union_masksA = self.compute_mask_union(names_a)
union_masksB = self.compute_mask_union(names_b)
new_mask = None
if len(names_a) == 0:
new_mask = union_masksB
elif len(names_b) == 0:
new_mask = union_masksA
else:
new_mask = self._logical_unite_masks(union_masksA, union_masksB)
self.add_mask(new_mask)
def _handler_mask_subtract(self, event):
"""Subtracts the the union of the masks selected in box B from the union of the masks selected in box A.
Saves the result as a new Mask
"""
if self.test_valid_mask_selection_a_and_b():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
union_masksA = self.compute_mask_union(names_a)
union_masksB = self.compute_mask_union(names_b)
new_mask = self._logical_subtract_masks(union_masksA, union_masksB)
self.add_mask(new_mask)
def _handler_mask_intersect(self, event):
"""Intersects the the union of the masks selected in box A with the union of the masks selected in box B.
Saves the result as a new Mask
"""
if self.test_valid_mask_selection_a_and_b():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
union_masksA = self.compute_mask_union(names_a)
union_masksB = self.compute_mask_union(names_b)
new_mask = self._logical_intersect_masks(union_masksA, union_masksB)
self.add_mask(new_mask)
def _test_intersections(self, mask_name_list):
"""
Tests for intersections between the masks listed in mask_names
"""
mask_names = copy.copy(mask_name_list)
first_name = mask_names.pop()
data = self.masks[first_name].data
intersections_found = False
eight_bit = False
for mask_name in mask_names:
print 'adding %s' % mask_name
data2 = self.masks[mask_name].data
adder = vtk.vtkImageMathematics()
adder.SetOperationToAdd()
adder.SetInput1(data)
adder.SetInput2(data2)
adder.Update()
data = adder.GetOutput()
accumulator = vtk.vtkImageAccumulate()
accumulator.SetInput(data)
accumulator.Update()
max = accumulator.GetMax()[0]
if max == 255:
eight_bit = True
elif max > 1:
intersections_found = True
else:
self._view_frame.dialog_info("No intersections found.\n(duplicate selections in A and B ignored).", "No intersections")
if eight_bit:
eight_bit_mask_names = ''
mask_names = copy.copy(mask_name_list)
for mask_name in mask_names:
accumulator = vtk.vtkImageAccumulate()
accumulator.SetInput(self.masks[mask_name].data)
accumulator.Update()
if accumulator.GetMax()[0] == 255:
eight_bit_mask_names = '%s, "%s"' % (eight_bit_mask_names, mask_name)
eight_bit_mask_names = eight_bit_mask_names[2:] #Remove the first two characters for neat display purposes
self._view_frame.dialog_error("Masks should be binary. The following masks were found to be 8-bit:\n%s" % eight_bit_mask_names,"Non-binary mask found!")
elif intersections_found:
mask_name_pair_list = ''
mask_names = copy.copy(mask_name_list)
while len(mask_names) > 0:
name1 = mask_names.pop()
for name2 in mask_names:
adder = vtk.vtkImageMathematics()
adder.SetOperationToAdd()
adder.SetInput1(self.masks[name1].data)
adder.SetInput2(self.masks[name2].data)
adder.Update()
accumulator = vtk.vtkImageAccumulate()
accumulator.SetInput(adder.GetOutput())
accumulator.Update()
if accumulator.GetMax()[0] == 2:
mask_name_pair_list = '%s,\n ("%s","%s")' % (mask_name_pair_list, name1, name2)
mask_name_pair_list = mask_name_pair_list[2:] #Remove the first two characters for neat display purposes
self._view_frame.dialog_exclaim("Intersections found between the following mask pairs:\n%s" % mask_name_pair_list,"Intersections found!")
def _test_dimensions(self, mask_names, msg):
"""
Tests whether the given masks have matching volumetric dimensions.
In practice mismatches can occur due to problems with feature generation algorithms (such as filtered backprojection)
"""
masks_by_dimensions = {}
masks_by_extent = {}
masks_by_whole_extent = {}
masks_by_spacing = {}
for mask_name in mask_names:
maskdata = self.masks[mask_name].data
dimensions = maskdata.GetDimensions()
spacing = maskdata.GetSpacing()
extent = maskdata.GetExtent()
whole_extent = maskdata.GetWholeExtent()
if not masks_by_dimensions.has_key(dimensions):
masks_by_dimensions[dimensions] = [str(mask_name)]
else:
masks_by_dimensions[dimensions].append(str(mask_name))
if not masks_by_spacing.has_key(spacing):
masks_by_spacing[spacing] = [str(mask_name)]
else:
masks_by_spacing[spacing].append(str(mask_name))
if not masks_by_extent.has_key(extent):
masks_by_extent[extent] = [str(mask_name)]
else:
masks_by_extent[extent].append(str(mask_name))
if not masks_by_whole_extent.has_key(whole_extent):
masks_by_whole_extent[whole_extent] = [str(mask_name)]
else:
masks_by_whole_extent[whole_extent].append(str(mask_name))
if len(masks_by_dimensions.keys()) == 1 and len(masks_by_spacing.keys()) == 1 and len(masks_by_extent.keys()) == 1 and len(masks_by_whole_extent.keys()):
dimension_report = '%s masks have the same dimensions, spacing, extent and whole extent:\n\n' % msg
dimensions = masks_by_dimensions.keys().pop()
dimension_report = '%s dimensions = %s\n' % (dimension_report, str(dimensions))
dimensions = masks_by_spacing.keys().pop()
dimension_report = '%s spacing = %s\n' % (dimension_report, str(dimensions))
dimensions = masks_by_extent.keys().pop()
dimension_report = '%s extent = %s\n' % (dimension_report, str(dimensions))
dimensions = masks_by_whole_extent.keys().pop()
dimension_report = '%s whole extent = %s\n' % (dimension_report, str(dimensions))
self._view_frame.dialog_info(dimension_report, 'No mismatches')
else:
dimension_report = '% masks possess %d unique sets of dimensions. See below:\n' % (msg, len(masks_by_dimensions))
for k in masks_by_dimensions.keys():
dimension_report = '%s\n%s => %s' % (dimension_report, str(k), str( masks_by_dimensions[k]))
dimension_report = '%s\n\n%d unique spacings with their defining masks:\n' % (dimension_report, len(masks_by_spacing))
for k in masks_by_spacing.keys():
dimension_report = '%s\n%s => %s' % (dimension_report, str(k), str( masks_by_spacing[k]))
dimension_report = '%s\n\n%d unique extents with their defining masks:\n' % (dimension_report, len(masks_by_extent))
for k in masks_by_extent.keys():
dimension_report = '%s\n%s => %s' % (dimension_report, str(k), str( masks_by_extent[k]))
dimension_report = '%s\n\n%d unique whole_extents with their defining masks:\n' % (dimension_report, len(masks_by_whole_extent))
for k in masks_by_whole_extent.keys():
dimension_report = '%s\n%s => %s' % (dimension_report, str(k), str( masks_by_whole_extent[k]))
self._view_frame.dialog_exclaim(dimension_report,"Mismatches found!")
def _handler_test_all_dimensions(self, event):
"""
Tests whether any of the loaded masks have mismatching volume dimensions
"""
if len(self.masks) < 2:
self._view_frame.dialog_info("At least 2 masks need to be loaded to compare dimensions!","Fewer than two masks loaded")
return
mask_names = self.masks.keys()
self._test_dimensions(mask_names, 'All')
def _handler_test_selected_dimensions(self, event):
"""
Tests the selected masks have mismatching volume dimensions
"""
if self.test_valid_mask_selection_multiple():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
mask_names = names_a.copy()
for name in names_b:
mask_names.add(name)
self._test_dimensions(mask_names, 'Selected')
def _handler_test_all_intersections(self, event):
"""
Tests whether there is an intersection between any of the loaded masks
"""
if len(self.masks) < 2:
self._view_frame.dialog_info("At least 2 masks need to be loaded to detect intersections!","Fewer than two masks loaded")
return
mask_names = self.masks.keys()
self._test_intersections(mask_names)
def _handler_test_selected_intersections(self, event):
"""
Tests whether there is an intersection between the selected masks
"""
if self.test_valid_mask_selection_multiple():
names_a = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
mask_names = names_a.copy()
for name in names_b:
mask_names.add(name)
self._test_intersections(mask_names)
def compute_mask_union(self, mask_names_set):
'''Computes and returns the union of a set of masks, identified by a set of mask names.'''
mask_names = mask_names_set.copy() #To prevent changes to the passed set due to popping
united_mask = None
if len(mask_names) > 0:
mask_name = mask_names.pop()
united_mask = self.masks[mask_name]
for mask_name in mask_names:
united_mask = self._logical_unite_masks(united_mask, self.masks[mask_name])
return united_mask
def test_single_mask_selection(self):
selectionCountA = self._view_frame.list_ctrl_maskA.GetSelectedItemCount()
selectionCountB = self._view_frame.list_ctrl_maskB.GetSelectedItemCount()
if selectionCountA + selectionCountB == 0:
self._view_frame.dialog_info("No masks are selected in either column A or B.\nThis operation requires a single mask, either in A or B.","No masks selected - invalid operation")
return False
elif selectionCountA + selectionCountB > 1:
self._view_frame.dialog_info("Multiple masks are selected in columns A and/or B.\nThis operation requires a single mask, either in A or B (but not both).","Multiple masks selected - invalid operation")
return False
return True
def test_single_mask_pair_selection(self):
selectionCountA = self._view_frame.list_ctrl_maskA.GetSelectedItemCount()
selectionCountB = self._view_frame.list_ctrl_maskB.GetSelectedItemCount()
if selectionCountA == 0:
self._view_frame.dialog_info("No mask selected in column A.\nThis operation requires a single input each, for A and B.","Too few masks selected - invalid operation")
return False
if selectionCountB == 0:
self._view_frame.dialog_info("No mask selected in column B.\nThis operation requires a single input each, for A and B.","Too few masks selected - invalid operation")
return False
if selectionCountA > 1:
self._view_frame.dialog_info("Multiple masks are selected in column A.\nThis operation requires a single input each, for A and B.","Multiple maks selected - invalid operation")
return False
elif selectionCountB > 1:
self._view_frame.dialog_info("Multiple masks are selected in column B.\nThis operation requires a single input each, for A and B.","Multiple maks selected - invalid operation")
return False
return True
def test_valid_mask_selection_any(self, warn = True):
selectionCountA = self._view_frame.list_ctrl_maskA.GetSelectedItemCount()
selectionCountB = self._view_frame.list_ctrl_maskB.GetSelectedItemCount()
if selectionCountA == 0 and selectionCountB == 0:
if warn:
self._view_frame.dialog_info("No masks are selected.","No masks selected")
return False
return True
def test_valid_mask_selection_multiple(self, warn = True):
names = self._view_frame.get_selected_mask_names_a()
names_b = self._view_frame.get_selected_mask_names_b()
for name in names_b:
names.add(name)
if len(names) < 2:
if warn:
self._view_frame.dialog_info("Fewer than two unique masks selected.","Too few masks selected")
return False
return True
def test_valid_mask_selection_a_and_b(self, warn = True):
selectionCountA = self._view_frame.list_ctrl_maskA.GetSelectedItemCount()
selectionCountB = self._view_frame.list_ctrl_maskB.GetSelectedItemCount()
if selectionCountA == 0:
if warn:
self._view_frame.dialog_info("No mask is selected in column A.\nThis operation requires inputs A and B.","Mask A not defined")
return False
elif selectionCountB == 0:
if warn:
self._view_frame.dialog_info("No mask is selected in column B.\nThis operation requires inputs A and B.","Mask B not defined")
return False
return True
def test_valid_mask_selection_a(self, warn = True):
selection_count_a = self._view_frame.list_ctrl_maskA.GetSelectedItemCount()
if selection_count_a == 0:
if warn:
self._view_frame.dialog_info("This operation requires input from column A.","Mask A not defined")
return False
return True
def test_valid_mask_selection_b(self, warn = True):
selection_count_b = self._view_frame.list_ctrl_maskB.GetSelectedItemCount()
if selection_count_b == 0:
if warn:
self._view_frame.dialog_info("This operation requires input from column B.","Mask B not defined")
return False
return True
def _handler_close(self, event):
"Closes this program"
self.close()
def _handler_introspect(self, event):
self.miscObjectConfigure(self._view_frame, self, 'MaskComBinar')
def _handler_about(self, event):
self._view_frame.dialog_info("MaskComBinar:\nA tool for measuring and manipulating binary masks\n\nby Francois Malan","About MaskComBinar")
def render(self):
"""Method that calls Render() on the embedded RenderWindow.
Use this after having made changes to the scene.
"""
self._view_frame.render()
def _logical_unite_masks(self, maskA, maskB):
"""Returns logical addition of maskA and maskB => maskA OR maskB"""
if maskA == None:
return maskB
elif maskB == None:
return maskA
print 'Joining masks %s and %s' % (maskA.name, maskB.name)
logicOR = vtk.vtkImageLogic()
logicOR.SetOperationToOr()
logicOR.SetInput1(maskA.data)
logicOR.SetInput2(maskB.data)
logicOR.Update()
result = self._threshold_image(logicOR.GetOutput(), 1, 255)
return Mask('Merged','',result)
def _logical_intersect_masks(self, maskA, maskB):
if maskA == None or maskB == None:
return None
print 'Intersecting masks %s and %s' % (maskA.name, maskB.name)
logicAND = vtk.vtkImageLogic()
logicAND.SetOperationToAnd()
logicAND.SetInput1(maskA.data)
logicAND.SetInput2(maskB.data)
logicAND.Update()
result = self._threshold_image(logicAND.GetOutput(), 1, 255)
return Mask('Intersect','',result)
def _logical_subtract_masks(self, maskA, maskB):
"""Returns logical subtraction of maskB from maskA => maskA AND (NOT maskB)"""
if maskB == None:
return maskA
print 'Subtracting mask %s and %s' % (maskA.name, maskB.name)
logicNOT = vtk.vtkImageLogic()
logicNOT.SetOperationToNot()
logicNOT.SetInput1(maskB.data)
logicNOT.Update()
logicAND = vtk.vtkImageLogic()
logicAND.SetOperationToAnd()
logicAND.SetInput1(maskA.data)
logicAND.SetInput2(logicNOT.GetOutput())
logicAND.Update()
result = self._threshold_image(logicAND.GetOutput(), 1, 255)
return Mask('Diff','',result)
def _threshold_image(self, image, lower, upper):
"""Thresholds a VTK Image, returning a signed short mask with 1 inside and 0 outside [lower, upper]"""
thresholder = vtk.vtkImageThreshold()
thresholder.SetInput(image)
thresholder.ThresholdBetween(lower, upper)
thresholder.SetInValue(1)
thresholder.SetOutValue(0)
thresholder.SetOutputScalarTypeToUnsignedChar()
thresholder.Update()
result = vtk.vtkImageData()
result.DeepCopy(thresholder.GetOutput())
return result
def _split_disconnected_objects(self, mask_name):
#This is done by labelling the objects from large to small
#Convert to ITK
mask = self.masks[mask_name]
thresholder = vtk.vtkImageThreshold()
thresholder.SetInput(mask.data)
thresholder.ThresholdBetween(1, 9999)
thresholder.SetInValue(1)
thresholder.SetOutValue(0)
thresholder.SetOutputScalarTypeToShort()
thresholder.Update()
v2i = itk.VTKImageToImageFilter[itk.Image.SS3].New()
v2i.SetInput(thresholder.GetOutput())
ccf = itk.ConnectedComponentImageFilter.ISS3ISS3.New()
ccf.SetInput(v2i.GetOutput())
relabeller = itk.RelabelComponentImageFilter.ISS3ISS3.New()
relabeller.SetInput(ccf.GetOutput())
#convert back to VTK
i2v = itk.ImageToVTKImageFilter[itk.Image.SS3].New()
i2v.SetInput(relabeller.GetOutput())
i2v.Update()
labeled = i2v.GetOutput()
accumulator = vtk.vtkImageAccumulate()
accumulator.SetInput(labeled)
accumulator.Update()
nr_of_components = accumulator.GetMax()[0]
print 'Found %d disconnected mask components' % nr_of_components
message = '%d disconnected components found.\nHow many do you want to accept (large to small)?' % nr_of_components
nr_to_process_str = self._view_frame.dialog_inputtext(message, 'Choose number of disconnected components', '1')[1]
try:
nr_to_process = int(nr_to_process_str)
except:
self._view_frame.dialog_error('Invalid numeric input: %s' % nr_to_process_str, "Invalid input")
return
if (nr_to_process < 0) or (nr_to_process > nr_of_components):
self._view_frame.dialog_error('Number must be between 1 and %d' % nr_of_components, "Invalid input")
return
print 'Saving the largest %d components to new masks' % nr_to_process
thresholder = vtk.vtkImageThreshold()
thresholder.SetInput(labeled)
thresholder.SetInValue(1)
thresholder.SetOutValue(0)
thresholder.SetOutputScalarTypeToUnsignedChar()
for i in range(1, nr_to_process+1):
thresholder.ThresholdBetween(i, i)
thresholder.Update()
mask_data = vtk.vtkImageData()
mask_data.DeepCopy(thresholder.GetOutput())
new_mask = Mask('comp_%d' % i,'',mask_data)
self.add_mask(new_mask) | [
[
1,
0,
0.0007,
0.0007,
0,
0.66,
0,
878,
0,
1,
0,
0,
878,
0,
0
],
[
1,
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[
1,
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0.0021,
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0,
... | [
"from wxPython._controls import wxLIST_MASK_STATE",
"from wxPython._controls import wxLIST_STATE_SELECTED",
"import os.path",
"IMAGE_VIEWER = False",
"import MaskComBinarFrame",
"reload(MaskComBinarFrame)",
"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin",
"imp... |
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
import operator
HTML_START = '<html><body>'
HTML_END = '</body></html>'
def render_actions(lines):
ms = '<p><b><ul>%s</ul></b></p>'
# this should yield: <li>thing 1\n<li>thing 2\n<li>thing 3 etc
bullets = '\n'.join(['<li>%s</li>' % l for l in lines])
return ms % (bullets,)
#return '<p><b>%s</b>' % ('<br>'.join(lines),)
def render_description(lines):
return '<p>%s' % ('<br>'.join(lines),)
def render_main_type(line):
return '<h2>%s</h2>' % (line,)
class QuickInfo(IntrospectModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._input = None
self._view_frame = None
self._create_view_frame()
self.view()
self.view_initialised = True
def _create_view_frame(self):
import resources.python.quick_info_frames
reload(resources.python.quick_info_frames)
self._view_frame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
resources.python.quick_info_frames.QuickInfoFrame)
module_utils.create_standard_object_introspection(
self, self._view_frame,
self._view_frame.view_frame_panel,
{'Module (self)' : self})
module_utils.create_eoca_buttons(self, self._view_frame,
self._view_frame.view_frame_panel)
def close(self):
for i in range(len(self.get_input_descriptions())):
self.set_input(i, None)
self._view_frame.Destroy()
del self._view_frame
ModuleBase.close(self)
def get_input_descriptions(self):
return ('Any DeVIDE data',)
def get_output_descriptions(self):
return ()
def set_input(self, idx, input_stream):
self._input = input_stream
def get_output(self, idx):
raise RuntimeError
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
pass
def config_to_view(self):
pass
def view(self):
self._view_frame.Show()
self._view_frame.Raise()
def execute_module(self):
oh = self._view_frame.output_html
ip = self._input
if ip is None:
html = 'There is no input (input is "None").'
elif self.check_vtk(ip):
html = self.analyse_vtk(ip)
elif self.check_itk(ip):
html = self.analyse_itk(ip)
else:
html = 'Could not determine type of data.'
oh.SetPage(html)
def analyse_vtk(self, ip):
lines = [HTML_START]
# main data type
lines.append("<h2>%s</h2>" % (ip.GetClassName(),))
if ip.IsA('vtkPolyData'):
# more detailed human-readable description
lines.append('<p>VTK format polygonal / mesh data<br>')
lines.append('%d points<br>' % (ip.GetNumberOfPoints(),))
lines.append('%d polygons<br>' % (ip.GetNumberOfPolys(),))
# how can the data be visualised
lines.append('<p><b>Surface render with slice3dVWR.</b>')
elif ip.IsA('vtkImageData'):
# more detailed human-readable description
lines.append('<p>VTK format regular grid / volume<br>')
dx,dy,dz = ip.GetDimensions()
lines.append('%d x %d x %d == %d voxels<br>' % \
(dx,dy,dz,dx*dy*dz))
lines.append('physical spacing %.3f x %.3f x %.3f<br>' % \
ip.GetSpacing())
lines.append('<br>image origin (%.2f, %.2f, %.2f)<br>' % \
ip.GetOrigin())
lines.append('<br>image bounds (%.2f, %.2f, %.2f, %.2f, %.2f, %.2f)<br>' % \
ip.GetBounds())
lines.append('image extent (%d, %d, %d, %d, %d, %d)<br>' % \
ip.GetExtent())
# how can the data be visualised
lines.append(render_actions(
["Slice through the data (MPR) with 'slice3dVWR'",
"Extract an isosurface with 'contour'",
"Direct volume render (DVR) with 'VolumeRender'"]
))
elif ip.IsA('vtkImplicitFunction'):
# more detailed human-readable description
lines.append('<p>VTK format implicit function')
# possible actions
lines.append(
"""<p><b>Clip mesh data with 'clipPolyData'<br>
Sample to volume with 'ImplicitToVolume'</b>""")
elif ip.IsA('vtkProp'):
# more detailed human-readable description
lines.append('<p>VTK object in 3-D scene')
# possible actions
lines.append(
render_actions(
["Visualise in 3-D scene with 'slice3dVWR'"])
)
# give information about point (geometry) attributes
try:
pd = ip.GetPointData()
except AttributeError:
pass
else:
na = pd.GetNumberOfArrays()
if na > 0:
lines.append('<p>Data associated with points:<br>')
for i in range(na):
a = pd.GetArray(i)
l = "'%s': %d %d-element tuples of type %s<br>" % \
(a.GetName(), a.GetNumberOfTuples(),
a.GetNumberOfComponents(),
a.GetDataTypeAsString())
lines.append(l)
lines.append(HTML_END)
return '\n'.join(lines)
def check_vtk(self, ip):
try:
cn = ip.GetClassName()
except AttributeError:
return False
else:
if cn.startswith('vtk'):
return True
return False
def analyse_itk(self, ip):
lines = [HTML_START]
noc = ip.GetNameOfClass()
mt = 'itk::%s' % (noc,)
lines.append(render_main_type(mt))
if noc == 'Image':
# general description ##################################
from module_kits.misc_kit.misc_utils import \
get_itk_img_type_and_dim
itype, dim, qual_str = get_itk_img_type_and_dim(ip)
dim = int(dim)
dl = ['ITK format %d-dimensional %s %s image / volume' % \
(dim, itype, qual_str)]
s = ip.GetLargestPossibleRegion().GetSize()
dims = [s.GetElement(i) for i in range(dim)]
# this results in 234 x 234 x 123 x 123 (depending on num
# of dimensions)
dstr = ' x '.join(['%s'] * dim) % tuple(dims)
# the reduce multiplies all dims with each other
dl.append('%s = %d pixels' % \
(dstr, reduce(operator.mul, dims)))
comps = ip.GetNumberOfComponentsPerPixel()
dl.append('%d component(s) per pixel' % (comps,))
# spacing string
spacing = [ip.GetSpacing().GetElement(i)
for i in range(dim)]
sstr = ' x '.join(['%.3f'] * dim) % tuple(spacing)
dl.append('physical spacing %s' % (sstr,))
# origin string
origin = [ip.GetOrigin().GetElement(i)
for i in range(dim)]
ostr = ', '.join(['%.2f'] * dim) % tuple(origin)
dl.append('<br>image origin (%s)' % (ostr,))
lines.append(render_description(dl))
# possible actions ######################################
al = ["Process with other ITK filters",
"Convert to VTK with ITKtoVTK"]
lines.append(render_actions(al))
lines.append(HTML_END)
return '\n'.join(lines)
def check_itk(self, ip):
if repr(ip).startswith('<itk'):
return True
else:
return False
| [
[
1,
0,
0.004,
0.004,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0079,
0.004,
0,
0.66,
0.1111,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0119,
0.004,
0,
0.66... | [
"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin",
"import module_utils",
"import operator",
"HTML_START = '<html><body>'",
"HTML_END = '</body></html>'",
"def render_actions(lines):\n ms = '<p><b><ul>%s</ul></b></p>'\n # this should yield: <li>thing 1\\n<li>t... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
class CodeRunner:
kits = ['wx_kit', 'vtk_kit']
cats = ['Viewers']
help = \
"""CodeRunner facilitates the direct integration of Python code into a
DeVIDE network.
The top part contains three editor interfaces: scratch, setup and
execute. The first is for experimentation and does not take part in
network scheduling. The second, 'setup', will be executed once per
modification that you make, at network execution time. The third,
'execute', will be executed everytime the module is ran during network
execution. You have to apply changes before they will be integrated in
the network execution. If you seen an asterisk (*) on the editor tab, it
means your latest changes have not been applied.
You can execute any editor window during editing by hitting Ctrl-Enter.
This will execute the code currently visible, i.e. it doesn't have to be
applied yet. The three editor windows and the shell window below share
the same interpreter, i.e. things that you define in one window will be
available in all others.
Applied code will also be saved and loaded along with the rest of the
network. You can also save code from the currently selected editor window
to a separate .py file by selecting File|Save from the main menu.
VTK and matplotlib support are included.
To make a new matplotlib figure, do 'h1 = mpl_new_figure()'. To close it,
use 'mpl_close_figure(h1)'. A list of all figures is available in
obj.mpl_figure_handles.
You can retrieve the VTK renderer, render window and render window
interactor of any slice3dVWR by using vtk_get_render_info(name) where name
has been set by right-clicking on a module in the graph editor and
choosing 'Rename Module'.
"""
class CoMedI:
kits = ['vtk_kit', 'itk_kit', 'wx_kit']
cats = ['Viewers']
keywords = ['compare', 'comparative visualisation',
'comparative', 'comparative visualization']
help = \
"""CoMedI: Compare Medical Images
Viewer module for the comparison of arbitrary 2-D and 3-D
medical images.
"""
class DICOMBrowser:
kits = ['vtk_kit', 'gdcm_kit']
cats = ['Viewers', 'Readers', 'DICOM', 'Medical']
help = \
"""DICOMBrowser. Does for DICOM reading what slice3dVWR does for
3-D viewing.
See the main DeVIDE help file (Special Modules | DICOMBrowser) for
more information.
"""
class histogram1D:
kits = ['vtk_kit', 'numpy_kit']
cats = ['Viewers', 'Statistics']
class histogram2D:
kits = ['vtk_kit']
cats = ['Viewers']
class histogramSegment:
kits = ['wx_kit', 'vtk_kit']
cats = ['Viewers']
class LarynxMeasurement:
kits = ['wx_kit', 'vtk_kit', 'gdcm_kit', 'geometry_kit']
cats = ['Viewers']
help = """Module for performing 2D measurements on photos of the
larynx.
Click the 'start' button to select a JPEG image. On this image,
shift click to select the apex of the larynx, then shift click
again to select the bottom half-point. You can now shift-click to
select border points in a clock-wise fashion. The POGO distance
and area will be updated with the addition of each new point.
You can move all points after having placed them. Adjust the
brightness and contrast by dragging the left mouse button, zoom
by dragging the right button or using the mouse wheel, pan with
the middle mouse button.
When you click on the 'next' button, all information about the
current image will be saved and the next image in the directory
will be loaded. If the next image has already been measured by
you previously, the measurements will be loaded and shown. This
means that you can interrupt a measurement session at any time, as
long as you've pressed the 'next' button after the LAST image.
When you have measured all images (check the progress message
box), you can click on the 'Save CSV' button to write all
measurements to disk. You can also do this even if you haven't
done all measurements yet, as long as you have measured a multiple
of three images. The measurements will be written to disk in the
same directory as the measured images and will be called
'measurements.csv'.
"""
class MaskComBinar:
kits = ['vtk_kit', 'wx_kit']
cats = ['Viewers','Readers','Writers','Combine']
help = """An interactive tool for viewing and perfoming operations on binary masks.
Masks are loaded as VTK Imagedata (.vti) files from disk.
File opening commands can be found in the menu bar under "File".
The user has several options:
Load a single binary mask (Ctrl-O)
Load a single (integer) multi-label mask file as a set of binary masks(Ctrl-Alt-O)
Load all .vti files in a given directory (Ctrl-Shift-O)
Once loaded, masks can be selected in either of the two list boxes A and B.
Masks selected in A are shown in blue, while masks selected in B are shown in red.
Overlapping regions are shown in yellow.
The GUI provides several unary, binary or set operations. New output can be stored as a new mask.
Masks may be deleted (pressind "Del" once they are selected).
Any mask shown in the listboxes may be saved to file (Ctrl-S).
The Hausdorff distance can only be calculated if the Metro tool has been installed so that it is available in the
command prompt. If Metro is not installed the Hausdorff operation will report an error.
Furthermore, MaskComBinar currently only supports the WINDOWS version of Metro since it calls metro.exe and relies
on the windows-specific command-line output generated by the windows version of Metro. Future versions should also work
with the Linux version, but this has not yet been tested.
Metro can be downloaded from http://vcg.sourceforge.net/index.php/Metro
Known bug: Under some circumstances the module gets confused with pre-computed 3D isosurfaces (for display purposes).
This can make the module use (leak) working memory, or cause the wrong isosurface to be displayed.
The output is unaffected (to our knowledge).
(Module by Francois Malan)"""
class Measure2D:
kits = ['wx_kit', 'vtk_kit', 'geometry_kit']
cats = ['Viewers']
help = """Module for performing 2D measurements on image slices.
This is a viewer module and can not be used in an offline batch
processing setting.
"""
class QuickInfo:
kits = []
cats = ['Viewers']
help = """Gives more information about any module's output port.
Use this to help identify any type of data.
"""
class SkeletonAUIViewer:
kits = ['vtk_kit', 'wx_kit']
cats = ['Viewers']
help = """Skeleton module to using AUI for the interface and
integrating a VTK renderer panel.
Copy and adapt for your own use. Remember to modify the relevant
module_index.py.
"""
class slice3dVWR:
kits = ['wx_kit', 'vtk_kit']
cats = ['Viewers']
help = """The all-singing, all-dancing slice3dVWR module.
You can view almost anything with this module. Most of its documentation
is part of the application-central help. Press F1 (or select Help from
the main application menu) to see it.
"""
class Slicinator:
kits = ['wx_kit', 'vtk_kit']
cats = ['Viewers']
keywords = ['segmentation', 'contour']
help = """The Slicinator. It will be back!
"""
class TransferFunctionEditor:
kits = ['wx_kit']
cats = ['Viewers', 'Volume Rendering']
help = """Transfer function editor.
Module under heavy development.
"""
| [
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0,
879,
0,
0,
0,
0,
0,
0,
0
],
[
14,
1,
0.0305,
0.0051,
1,
0.32,
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190,
0,
0,
0,
0,
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5,
0
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[
14,
1,
0.0355,
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1,
0.32,
... | [
"class CodeRunner:\n kits = ['wx_kit', 'vtk_kit']\n cats = ['Viewers']\n help = \\\n \"\"\"CodeRunner facilitates the direct integration of Python code into a\n DeVIDE network.\n\n The top part contains three editor interfaces: scratch, setup and",
" kits = ['wx_kit', 'vtk_kit']",
" cats... |
#Hacked out of a class contained in Charl Botha's comedi_utils.py
#Incorporated edits by by Corine Slagboom & Noeska Smit which formed part of their comedi_utils module, used in their 'Emphysema Viewer'
#Final version by Francois Malan (2010-2011)
from module_kits.vtk_kit.utils import DVOrientationWidget
import operator
import vtk
import wx
class OverlaySliceViewer:
"""Class for viewing 3D binary masks in a slice-view.
Supports arbitrary number of overlays in user-definable colours.
"""
has_active_slices = False
def __init__(self, rwi, renderer):
self.rwi = rwi
self.renderer = renderer
istyle = vtk.vtkInteractorStyleTrackballCamera()
rwi.SetInteractorStyle(istyle)
# we unbind the existing mousewheel handler so it doesn't
# interfere
rwi.Unbind(wx.EVT_MOUSEWHEEL)
rwi.Bind(wx.EVT_MOUSEWHEEL, self._handler_mousewheel)
#This is a collection of 1- or 3-component image plane widgets. Each entry corresponds to a single overlay.
self.ipw_triads = {}
self.add_overlay(0, [0, 0, 0, 0.1]) #Almost-transparent black - for showing the pickable plane stored at id = 0.
# we only set the picker on the visible IPW, else the
# invisible IPWs block picking!
self.picker = vtk.vtkCellPicker()
self.picker.SetTolerance(0.005)
self.ipw_triads[0][0].SetPicker(self.picker)
self.outline_source = vtk.vtkOutlineCornerFilter()
m = vtk.vtkPolyDataMapper()
m.SetInput(self.outline_source.GetOutput())
a = vtk.vtkActor()
a.SetMapper(m)
a.PickableOff()
self.outline_actor = a
self.dv_orientation_widget = DVOrientationWidget(rwi)
# this can be used by clients to store the current world
# position
self.current_world_pos = (0,0,0)
self.current_index_pos = (0,0,0)
def add_overlay(self, id, rgba_colour):
"""Creates and ads a new (set of) image plane widgets corresponding to a new overlay.
id : the string id which will be used to identify this overlay for future lookups.
rgba_colour : a length 4 vector giving the red,green,blue,opacity value for this overlay. Range = [0,1]
"""
if self.ipw_triads.has_key(id):
raise ValueError('The overlay id = "%s" is already in use! Cannot this id - aborting.' % id)
else:
new_ipw_triad = [vtk.vtkImagePlaneWidget() for _ in range(3)]
lut = new_ipw_triad[0].GetLookupTable()
lut.SetNumberOfTableValues(2)
if len(self.ipw_triads) == 0:
lut.SetTableValue(0,0,0,0,0.1) #Almost-transparent black - for showing the pickable plane
else:
lut.SetTableValue(0,0,0,0,0) #Transparent: for non-interfering overlay on existing layers
lut.SetTableValue(1,rgba_colour[0],rgba_colour[1],rgba_colour[2],rgba_colour[3]) #Specified RGBA for binary "true"
lut.Build()
for ipw in new_ipw_triad:
ipw.SetInteractor(self.rwi)
ipw.SetLookupTable(lut)
self.ipw_triads[id] = new_ipw_triad
base_ipw_triad = self.ipw_triads[0]
# now actually connect the sync_overlay observer
for i,ipw in enumerate(base_ipw_triad):
ipw.AddObserver('InteractionEvent',lambda vtk_o, vtk_e, i=i: self.observer_sync_overlay(base_ipw_triad, new_ipw_triad, i))
#fmalan-edit based on nnsmit-edit
def observer_sync_overlay(self, master_ipw_triad, slave_ipw_triad, ipw_idx):
# get the primary IPW
master_ipw = master_ipw_triad[ipw_idx]
# get the overlay IPW
slave_ipw = slave_ipw_triad[ipw_idx]
# get plane geometry from primary
o,p1,p2 = master_ipw.GetOrigin(),master_ipw.GetPoint1(),master_ipw.GetPoint2()
# and apply to the overlay
slave_ipw.SetOrigin(o)
slave_ipw.SetPoint1(p1)
slave_ipw.SetPoint2(p2)
slave_ipw.UpdatePlacement()
# end edit
def close(self):
for id in self.ipw_triads.keys():
self.set_input(id, None)
self.dv_orientation_widget.close()
def activate_slice(self, id, idx):
if idx in [1,2]:
self.ipw_triads[id][idx].SetEnabled(1)
self.ipw_triads[id][idx].SetPicker(self.picker)
def deactivate_slice(self, id, idx):
if idx in [1,2]:
self.ipw_triads[id][idx].SetEnabled(0)
self.ipw_triads[id][idx].SetPicker(None)
def _get_input(self, id):
return self.ipw_triads[id].GetInput()
def get_world_pos(self, image_pos):
"""Given image coordinates, return the corresponding world
position.
"""
idata = self._get_input(0)
if not idata:
return None
ispacing = idata.GetSpacing()
iorigin = idata.GetOrigin()
# calculate real coords
world = map(operator.add, iorigin,
map(operator.mul, ispacing, image_pos[0:3]))
return world
def set_perspective(self):
cam = self.renderer.GetActiveCamera()
cam.ParallelProjectionOff()
def set_parallel(self):
cam = self.renderer.GetActiveCamera()
cam.ParallelProjectionOn()
def _handler_mousewheel(self, event):
# event.GetWheelRotation() is + or - 120 depending on
# direction of turning.
if event.ControlDown():
delta = 10
elif event.ShiftDown():
delta = 1
else:
# if user is NOT doing shift / control, we pass on to the
# default handling which will give control to the VTK
# mousewheel handlers.
self.rwi.OnMouseWheel(event)
return
if event.GetWheelRotation() > 0:
self._ipw1_delta_slice(+delta)
else:
self._ipw1_delta_slice(-delta)
self.render()
for id in self.ipw_triads.keys():
self.ipw_triads[id][0].InvokeEvent('InteractionEvent')
def _ipw1_delta_slice(self, delta):
"""Move to the delta slices fw/bw, IF the IPW is currently
aligned with one of the axes.
"""
ipw = self.ipw_triads[0][0]
if ipw.GetPlaneOrientation() < 3:
ci = ipw.GetSliceIndex()
ipw.SetSliceIndex(ci + delta)
def render(self):
self.rwi.GetRenderWindow().Render()
#TODO: Check this code
# nnsmit edit
# synch those overlays:
'''
if self.overlay_active == 1:
for i, ipw_overlay in enumerate(self.overlay_ipws):
self.observer_sync_overlay(self.ipw_triads, i, 0)
self.observer_sync_overlay(self.ipw_triads, i, 1)
self.observer_sync_overlay(self.ipw_triads, i, 2)
'''
# end edit
def reset_camera(self):
self.renderer.ResetCamera()
def reset_to_default_view(self, view_index):
"""
@param view_index 2 for XY
"""
if view_index == 2:
cam = self.renderer.GetActiveCamera()
# then make sure it's up is the right way
cam.SetViewUp(0,1,0)
# just set the X,Y of the camera equal to the X,Y of the
# focal point.
fp = cam.GetFocalPoint()
cp = cam.GetPosition()
if cp[2] < fp[2]:
z = fp[2] + (fp[2] - cp[2])
else:
z = cp[2]
cam.SetPosition(fp[0], fp[1], z)
# first reset the camera
self.renderer.ResetCamera()
'''
# nnsmit edit
# synch overlays as well:
if self.overlay_active == 1:
for i, ipw_overlay in enumerate(self.overlay_ipws):
ipw_overlay.SetSliceIndex(0)
'''
self.render()
def set_input(self, id, input):
if self.ipw_triads.has_key(id):
selected_ipw_triad = self.ipw_triads[id]
if input == selected_ipw_triad[0].GetInput():
return
if input is None:
ipw_triad = self.ipw_triads[id]
for ipw in ipw_triad:
# argh, this disable causes a render
ipw.SetEnabled(0)
ipw.SetInput(None)
remaining_active_slices = False
if self.has_active_slices:
for key in self.ipw_triads:
if key != 0:
ipw_triad = self.ipw_triads[key]
for ipw in ipw_triad:
if ipw.GetEnabled():
remaining_active_slices = True
break
if remaining_active_slices:
break
if not remaining_active_slices:
self.has_active_slices = False
self.outline_source.SetInput(None)
self.renderer.RemoveViewProp(self.outline_actor)
self.dv_orientation_widget.set_input(None)
base_ipw_triad = self.ipw_triads[0]
for i, ipw in enumerate(base_ipw_triad):
ipw.SetInput(None)
ipw.SetEnabled(0)
else:
orientations = [2, 0, 1]
active = [1, 0, 0]
if not self.has_active_slices:
self.outline_source.SetInput(input)
self.renderer.AddViewProp(self.outline_actor)
self.dv_orientation_widget.set_input(input)
base_ipw_triad = self.ipw_triads[0]
for i, ipw in enumerate(base_ipw_triad):
ipw.SetInput(input)
ipw.SetPlaneOrientation(orientations[i]) # axial
ipw.SetSliceIndex(0)
ipw.SetEnabled(active[i])
self.has_active_slices = True
base_ipw_triad = self.ipw_triads[0]
for i, ipw in enumerate(selected_ipw_triad):
ipw.SetInput(input)
ipw.SetPlaneOrientation(orientations[i]) # axial
ipw.SetSliceIndex(0)
ipw.SetEnabled(active[i])
self.observer_sync_overlay(base_ipw_triad, selected_ipw_triad, i) #sync to the current position of the base (pickable) triad
else:
raise ValueError('The overlay with id = "%s" was not found!' % id) | [
[
1,
0,
0.0177,
0.0035,
0,
0.66,
0,
901,
0,
1,
0,
0,
901,
0,
0
],
[
1,
0,
0.0212,
0.0035,
0,
0.66,
0.25,
616,
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0,
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[
1,
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0.0035,
0,
0.... | [
"from module_kits.vtk_kit.utils import DVOrientationWidget",
"import operator",
"import vtk",
"import wx",
"class OverlaySliceViewer:\n \"\"\"Class for viewing 3D binary masks in a slice-view.\n Supports arbitrary number of overlays in user-definable colours.\n \"\"\"\n\n has_active_slices = Fal... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
# skeleton of an AUI-based viewer module
# copy and modify for your own purposes.
# set to False for 3D viewer, True for 2D image viewer
IMAGE_VIEWER = True
MATCH_MODE_PASSTHROUGH = 0
MATCH_MODE_LANDMARK_SS = 1
MATCH_MODE_STRINGS = [ \
'Single structure landmarks'
]
COMPARISON_MODE_DATA2M = 0
COMPARISON_MODE_CHECKERBOARD = 1
COMPARISON_MODE_DIFFERENCE = 2
# import the frame, i.e. the wx window containing everything
import CoMedIFrame
# and do a reload, so that the GUI is also updated at reloads of this
# module.
reload(CoMedIFrame)
import comedi_match_modes
reload(comedi_match_modes)
import comedi_comparison_modes
reload(comedi_comparison_modes)
import comedi_utils
reload(comedi_utils)
import math
from module_kits.misc_kit import misc_utils
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
import operator
import os
import random #temp testing
import sys
import traceback
import vtk
import wx
class CoMedI(IntrospectModuleMixin, ModuleBase):
# API methods
def __init__(self, module_manager):
"""Standard constructor. All DeVIDE modules have these, we do
the required setup actions.
"""
# we record the setting here, in case the user changes it
# during the lifetime of this model, leading to different
# states at init and shutdown.
self.IMAGE_VIEWER = IMAGE_VIEWER
ModuleBase.__init__(self, module_manager)
# create the view frame
self._view_frame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
CoMedIFrame.CoMedIFrame)
# change the title to something more spectacular
self._view_frame.SetTitle('CoMedI')
self._setup_vis()
# hook up all event handlers
self._bind_events()
# make our window appear (this is a viewer after all)
self.view()
# all modules should toggle this once they have shown their
# views.
self.view_initialised = True
# this will cause the correct set_cam_* call to be made
self._config.cam_parallel = False
# setup all match modes here. even if the user switches
# modes, all metadata should be serialised, so that after a
# network reload, the user can switch and will get her old
# metadata back from a previous session.
self._config.sstructlandmarksmm_cfg = {}
# default match mode is the landmark thingy
self._config.match_mode = MATCH_MODE_LANDMARK_SS
# this will hold a binding to the current match mode that will
# be initially setup by config_to_logic
self.match_mode = None
self._config.data2mcm_cfg = {}
self._config.checkerboardcm_cfg = {}
self._config.focusdiffcm_cfg = {}
self._config.comparison_mode = COMPARISON_MODE_DATA2M
self.comparison_mode = None
# apply config information to underlying logic
self.sync_module_logic_with_config()
# then bring it all the way up again to the view
self.sync_module_view_with_logic()
def close(self):
"""Clean-up method called on all DeVIDE modules when they are
deleted.
"""
# get rid of match_mode
self.match_mode.close()
self._close_vis()
# now take care of the wx window
self._view_frame.close()
# then shutdown our introspection mixin
IntrospectModuleMixin.close(self)
def get_input_descriptions(self):
# define this as a tuple of input descriptions if you want to
# take input data e.g. return ('vtkPolyData', 'my kind of
# data')
return ('Data 1', 'Data 2')
def get_output_descriptions(self):
# define this as a tuple of output descriptions if you want to
# generate output data.
return ('Matched Data 2', 'Confidence Field')
def set_input(self, idx, input_stream):
# this gets called right before you get executed. take the
# input_stream and store it so that it's available during
# execute_module()
if idx == 0:
self._data1_slice_viewer.set_input(input_stream)
if input_stream is None:
# we're done disconnecting, no syncing necessary
# but we do need to tell the current match_mode
# something is going on.
self._update_mmcm(True)
return
if not self._data2_slice_viewer.get_input():
self._data1_slice_viewer.reset_camera()
self._data1_slice_viewer.render()
else:
# sync ourselves to data2
self.sync_slice_viewers.sync_all(
self._data2_slice_viewer,
[self._data1_slice_viewer])
if idx == 1:
self._data2_slice_viewer.set_input(input_stream)
if input_stream is None:
self._update_mmcm(True)
return
if not self._data1_slice_viewer.get_input():
self._data2_slice_viewer.reset_camera()
self._data2_slice_viewer.render()
else:
self.sync_slice_viewers.sync_all(
self._data1_slice_viewer,
[self._data2_slice_viewer])
def get_output(self, idx):
# this can get called at any time when a consumer module wants
# you output data.
if idx == 0:
return self.match_mode.get_output()
else:
return self.match_mode.get_confidence()
def execute_module(self):
# when it's you turn to execute as part of a network
# execution, this gets called.
pass
# as per usual with viewer modules, we're keeping the config up to
# date throughout execution, so only the config_to_logic and
# config_to_view are implemented, so that things correctly restore
# after a deserialisation.
def logic_to_config(self):
pass
def config_to_logic(self):
# we need to be able to build up the correct MatchMode based
# on the config.
print "sync mm"
self._sync_mm_with_config()
# do the same for the comparison mode
print "sync cm"
self._sync_cm_with_config()
def config_to_view(self):
if self._config.cam_parallel:
self.set_cam_parallel()
# also make sure this is reflected in the menu
self._view_frame.set_cam_parallel()
else:
self.set_cam_perspective()
# also make sure this is reflected in the menu
self._view_frame.set_cam_perspective()
# now also set the correct pages in the match mode and
# comparison mode notebooks.
vf = self._view_frame
cp = vf.pane_controls.window
# ChangeSelection does not trigger the event handlers
cp.match_mode_notebook.ChangeSelection(
self._config.match_mode)
cp.comparison_mode_notebook.ChangeSelection(
self._config.comparison_mode)
def view_to_config(self):
pass
def view(self):
self._view_frame.Show()
self._view_frame.Raise()
# because we have an RWI involved, we have to do this
# SafeYield, so that the window does actually appear before we
# call the render. If we don't do this, we get an initial
# empty renderwindow.
wx.SafeYield()
self.render_all()
# PRIVATE methods
def _bind_events(self):
"""Bind wx events to Python callable object event handlers.
"""
vf = self._view_frame
vf.Bind(wx.EVT_MENU, self._handler_cam_perspective,
id = vf.id_camera_perspective)
vf.Bind(wx.EVT_MENU, self._handler_cam_parallel,
id = vf.id_camera_parallel)
vf.Bind(wx.EVT_MENU, self._handler_cam_xyzp,
id = vf.id_camera_xyzp)
vf.Bind(wx.EVT_MENU, self._handler_introspect,
id = vf.id_adv_introspect)
vf.Bind(wx.EVT_MENU, self._handler_synced,
id = vf.id_views_synchronised)
vf.Bind(wx.EVT_MENU, self._handler_slice2,
id = vf.id_views_slice2)
vf.Bind(wx.EVT_MENU, self._handler_slice3,
id = vf.id_views_slice3)
cp = vf.pane_controls.window
cp.compare_button.Bind(wx.EVT_BUTTON, self._handler_compare)
cp.update_compvis_button.Bind(wx.EVT_BUTTON,
self._handler_update_compvis)
cp.match_mode_notebook.Bind(
wx.EVT_NOTEBOOK_PAGE_CHANGED,
self._handler_mm_nbp_changed)
cp.comparison_mode_notebook.Bind(
wx.EVT_NOTEBOOK_PAGE_CHANGED,
self._handler_cm_nbp_changed)
def _close_vis(self):
for sv in self._slice_viewers:
sv.close()
def _handler_cam_parallel(self, event):
self.set_cam_parallel()
def _handler_cam_perspective(self, event):
self.set_cam_perspective()
def _handler_cam_xyzp(self, event):
self._data1_slice_viewer.reset_to_default_view(2)
# then synchronise the rest
self.sync_slice_viewers.sync_all(self._data1_slice_viewer)
def _handler_cm_nbp_changed(self, evt):
# tab indices match the constant value.
self._config.comparison_mode = evt.GetSelection()
self._sync_cm_with_config()
self.comparison_mode.update_vis()
# we have to call this skip so that wx also changes the page
# contents.
evt.Skip()
def _handler_mm_nbp_changed(self, evt):
print "hello you too"
# we have to call this skip so wx also changes the actual tab
# contents.
evt.Skip()
def _handler_compare(self, e):
self._update_mmcm()
def _handler_introspect(self, e):
self.miscObjectConfigure(self._view_frame, self, 'CoMedI')
def _handler_slice2(self, e):
for sv in self.sync_slice_viewers.slice_viewers:
if e.IsChecked():
sv.activate_slice(1)
else:
sv.deactivate_slice(1)
def _handler_slice3(self, e):
for sv in self.sync_slice_viewers.slice_viewers:
if e.IsChecked():
sv.activate_slice(2)
else:
sv.deactivate_slice(2)
def _handler_synced(self, event):
#cb = event.GetEventObject()
if event.IsChecked():
if not self.sync_slice_viewers.sync:
self.sync_slice_viewers.sync = True
# now do the initial sync to data1
self.sync_slice_viewers.sync_all(
self._data1_slice_viewer)
else:
self.sync_slice_viewers.sync = False
def _handler_update_compvis(self, evt):
self.comparison_mode.update_vis()
def _observer_cursor(self, vtk_o, vtk_e, txt):
"""
@param txt: Text identifier that will be prepended to the
cursor position update in the UI.
"""
cd = [0,0,0,0]
cdv = vtk_o.GetCursorData(cd)
if not cdv:
# we're not cursoring
return
c = tuple([int(i) for i in cd])
self._view_frame.pane_controls.window.cursor_text.SetValue(
'%s : %s = %d' % (txt, c[0:3], c[3]))
# also store the current cursor position in an ivar, we need
# it. we probably need to replace this text check with
# something else...
if txt.startswith('d1'):
self._data1_slice_viewer.current_index_pos = c
w = self._data1_slice_viewer.get_world_pos(c)
self._data1_slice_viewer.current_world_pos = w
elif txt.startswith('d2'):
self._data1_slice_viewer.current_index_pos = c
w = self._data2_slice_viewer.get_world_pos(c)
self._data2_slice_viewer.current_world_pos = w
def _setup_vis(self):
# setup data1 slice viewer, instrument its slice viewers with
# observers so that the cursor information is output to the
# GUI
SV = comedi_utils.CMSliceViewer
self._data1_slice_viewer = SV(
self._view_frame.rwi_pane_data1.rwi,
self._view_frame.rwi_pane_data1.renderer)
for ipw in self._data1_slice_viewer.ipws:
ipw.AddObserver(
'InteractionEvent',
lambda o,e: self._observer_cursor(o,e,'d1') )
# do the same for the data2 slice viewer
self._data2_slice_viewer = SV(
self._view_frame.rwi_pane_data2.rwi,
self._view_frame.rwi_pane_data2.renderer)
for ipw in self._data2_slice_viewer.ipws:
ipw.AddObserver(
'InteractionEvent',
lambda o,e: self._observer_cursor(o,e,'d2') )
self._slice_viewers = [ \
self._data1_slice_viewer,
self._data2_slice_viewer]
self.sync_slice_viewers = ssv = comedi_utils.SyncSliceViewers()
for sv in self._slice_viewers:
ssv.add_slice_viewer(sv)
def _sync_cm_with_config(self):
"""Synchronise comparison mode with what's specified in the
config. This is used by config_to_logic as well as the
run-time comparison mode tab switching.
"""
if self.comparison_mode:
self.comparison_mode.close()
self.comparison_mode = None
if self._config.comparison_mode == COMPARISON_MODE_DATA2M:
cm = comedi_comparison_modes.Data2MCM
self.comparison_mode = cm(
self, self._config.data2mcm_cfg)
elif self._config.comparison_mode == \
COMPARISON_MODE_CHECKERBOARD:
cm = comedi_comparison_modes.CheckerboardCM
self.comparison_mode = cm(
self, self._config.checkerboardcm_cfg)
elif self._config.comparison_mode == \
COMPARISON_MODE_DIFFERENCE:
cm = comedi_comparison_modes.FocusDiffCM
self.comparison_mode = cm(
self, self._config.focusdiffcm_cfg)
def _sync_mm_with_config(self):
"""Synchronise match mode with what's specified in the config.
This is used by config_to_logic as well as the run-time match
mode tab switching.
"""
if self.match_mode:
self.match_mode.close()
self.match_mode = None
if self._config.match_mode == MATCH_MODE_LANDMARK_SS:
# we have to create a new one in anycase! This gets
# called if we get a brand new config given to us, too
# much could have changed.
#if mm.__class__.__name__ != SStructLandmarksMM.__name__:
self.match_mode = comedi_match_modes.SStructLandmarksMM(
self, self._config.sstructlandmarksmm_cfg)
def _update_mmcm(self, disable_vis=False):
"""Update the current match mode and the comparison mode.
"""
if disable_vis:
self.comparison_mode.disable_vis()
self.match_mode.transform()
self.comparison_mode.update_vis()
# PUBLIC methods
def get_compvis_vtk(self):
"""Return rwi and renderer used for the compvis. Used mostly
by the various comparison modes.
"""
return (
self._view_frame.rwi_pane_compvis.rwi,
self._view_frame.rwi_pane_compvis.renderer
)
def get_data1(self):
"""Return data1 input.
"""
return self._data1_slice_viewer.get_input()
def get_data2m(self):
"""Return currently matched data2, i.e. the output of the
current match mode.
"""
return self.match_mode.get_output()
def render_all(self):
"""Method that calls Render() on the embedded RenderWindow.
Use this after having made changes to the scene.
"""
self._view_frame.render_all()
def set_cam_perspective(self):
for sv in self.sync_slice_viewers.slice_viewers:
sv.set_perspective()
sv.render()
self._config.cam_parallel = False
def set_cam_parallel(self):
for sv in self.sync_slice_viewers.slice_viewers:
sv.set_parallel()
sv.render()
self._config.cam_parallel = True
| [
[
14,
0,
0.0175,
0.0019,
0,
0.66,
0,
16,
1,
0,
0,
0,
0,
4,
0
],
[
14,
0,
0.0214,
0.0019,
0,
0.66,
0.037,
2,
1,
0,
0,
0,
0,
1,
0
],
[
14,
0,
0.0233,
0.0019,
0,
0.66,... | [
"IMAGE_VIEWER = True",
"MATCH_MODE_PASSTHROUGH = 0",
"MATCH_MODE_LANDMARK_SS = 1",
"MATCH_MODE_STRINGS = [ \\\n 'Single structure landmarks'\n ]",
"COMPARISON_MODE_DATA2M = 0",
"COMPARISON_MODE_CHECKERBOARD = 1",
"COMPARISON_MODE_DIFFERENCE = 2",
"import CoMedIFrame",
"reload(CoMedIFra... |
# sliceDirections.py copyright (c) 2003 Charl P. Botha <cpbotha@ieee.org>
# $Id$
# class encapsulating all instances of the sliceDirection class
import gen_utils
# the following two lines are only needed during prototyping of the modules
# that they import
import modules.viewers.slice3dVWRmodules.sliceDirection
reload(modules.viewers.slice3dVWRmodules.sliceDirection)
from modules.viewers.slice3dVWRmodules.sliceDirection import sliceDirection
from modules.viewers.slice3dVWRmodules.shared import s3dcGridMixin
import vtk
import wx
import wx.grid
class sliceDirections(s3dcGridMixin):
_gridCols = [('Slice Name', 0), ('Enabled', 0), ('Interaction', 0)]
_gridNameCol = 0
_gridEnabledCol = 1
_gridInteractionCol = 2
def __init__(self, slice3dVWRThingy, sliceGrid):
self.slice3dVWR = slice3dVWRThingy
self._grid = sliceGrid
self._sliceDirectionsDict = {}
# this same picker is used on all new IPWS of all sliceDirections
self.ipwPicker = vtk.vtkCellPicker()
self.currentCursor = None
# configure the grid from scratch
self._initialiseGrid()
self._initUI()
# bind all events
self._bindEvents()
# fill out our drop-down menu
self._disableMenuItems = self._appendGridCommandsToMenu(
self.slice3dVWR.controlFrame.slicesMenu,
self.slice3dVWR.controlFrame, disable=True)
self.overlayMode = 'greenOpacityRange'
self.fusionAlpha = 0.4
# this will make all ipw slice polydata available at the output
self.ipwAppendPolyData = vtk.vtkAppendPolyData()
# this append filter will make all slice data available at the output
self.ipwAppendFilter = vtk.vtkAppendFilter()
# create the first slice
self._createSlice('Axial')
def addData(self, theData):
# add this input to all available sliceDirections
for sliceName, sliceDirection in \
self._sliceDirectionsDict.items():
# try to add the data
sliceDirection.addData(theData)
def updateData(self, prevData, newData):
"""Replace prevData with newData.
This call is used to update a data object on an already existing
connection and is used by the slice3dVWR when a new transfer is made
to one of its inputs. This method calls the updateData method of
the various sliceDirection instances.
@param prevData: the old dataset (will be replaced by the new)
@param newData: The new data.
"""
for sliceName, sliceDirection in self._sliceDirectionsDict.items():
sliceDirection.updateData(prevData, newData)
def addContourObject(self, tdObject, prop3D):
"""Activate contouring for tdObject on all sliceDirections.
@param prop3D: the actor/prop representing the tdObject (which is
most often a vtkPolyData) in the 3d scene.
"""
for sliceName, sliceDirection in self._sliceDirectionsDict.items():
sliceDirection.addContourObject(tdObject, prop3D)
def _appendGridCommandsToMenu(self, menu, eventWidget, disable=True):
"""Appends the slice grid commands to a menu. This can be used
to build up the context menu or the drop-down one.
"""
commandsTuple = [
('C&reate Slice', 'Create a new slice',
self._handlerCreateSlice, False),
('---',),
('Select &All', 'Select all slices',
self._handlerSliceSelectAll, False),
('D&Eselect All', 'Deselect all slices',
self._handlerSliceDeselectAll, False),
('---',),
('&Show', 'Show selected slices',
self._handlerSliceShow, True),
('&Hide', 'Hide selected slices',
self._handlerSliceHide, True),
('&Interaction ON', 'Activate Interaction for all selected slices',
self._handlerSliceInteractionOn, True),
('I&nteraction OFF',
'Deactivate Interaction for all selected slices',
self._handlerSliceInteractionOff, True),
('Set &Opacity', 'Change opacity of all selected slices',
self._handlerSliceSetOpacity, True),
('---',),
('&Lock to Points', 'Move the selected slices to selected points',
self._handlerSliceLockToPoints, True),
('---',),
('Reset to A&xial', 'Reset the selected slices to Axial',
self._handlerSliceResetToAxial, True),
('Reset to &Coronal', 'Reset the selected slices to Coronal',
self._handlerSliceResetToCoronal, True),
('Reset to Sa&gittal', 'Reset the selected slices to Sagittal',
self._handlerSliceResetToSagittal, True),
('---',), # important! one-element tuple...
('&Delete', 'Delete selected slices',
self._handlerSliceDelete, True)]
disableList = self._appendGridCommandsTupleToMenu(
menu, eventWidget, commandsTuple, disable)
return disableList
def _bindEvents(self):
controlFrame = self.slice3dVWR.controlFrame
wx.EVT_BUTTON(controlFrame, controlFrame.createSliceButtonId,
self._handlerCreateSlice)
# for ortho view use sliceDirection.createOrthoView()
wx.grid.EVT_GRID_CELL_RIGHT_CLICK(
self._grid, self._handlerGridRightClick)
wx.grid.EVT_GRID_LABEL_RIGHT_CLICK(
self._grid, self._handlerGridRightClick)
wx.grid.EVT_GRID_RANGE_SELECT(
self._grid, self._handlerGridRangeSelect)
# now do the fusion stuff
wx.EVT_CHOICE(
self.slice3dVWR.controlFrame,
self.slice3dVWR.controlFrame.overlayModeChoice.GetId(),
self._handlerOverlayModeChoice)
wx.EVT_COMMAND_SCROLL(
self.slice3dVWR.controlFrame,
self.slice3dVWR.controlFrame.fusionAlphaSlider.GetId(),
self._handlerFusionAlphaSlider)
def close(self):
for sliceName, sd in self._sliceDirectionsDict.items():
self._destroySlice(sliceName)
def _createSlice(self, sliceName):
if sliceName:
if sliceName in self._sliceDirectionsDict:
wx.LogError("A slice with that name already exists.")
return None
else:
newSD = sliceDirection(sliceName, self)
self._sliceDirectionsDict[sliceName] = newSD
# setup the correct overlayMode and fusionAlpha
newSD.overlayMode = self.overlayMode
newSD.fusionAlpha = self.fusionAlpha
# now attach all inputs to it
for i in self.slice3dVWR._inputs:
if i['Connected'] == 'vtkImageDataPrimary' or \
i['Connected'] == 'vtkImageDataOverlay':
newSD.addData(i['inputData'])
# add it to our grid
nrGridRows = self._grid.GetNumberRows()
self._grid.AppendRows()
self._grid.SetCellValue(nrGridRows, self._gridNameCol,
sliceName)
# set the relevant cells up for Boolean
for col in [self._gridEnabledCol, self._gridInteractionCol]:
# instead of SetCellRenderer, you could have used
# wxGrid.SetColFormatBool()
self._grid.SetCellRenderer(
nrGridRows, col, wx.grid.GridCellBoolRenderer())
self._grid.SetCellAlignment(
nrGridRows, col, wx.ALIGN_CENTRE, wx.ALIGN_CENTRE)
# set initial boolean values
self._setSliceEnabled(sliceName, True)
self._setSliceInteraction(sliceName, True)
# and initialise the output polydata
self.ipwAppendPolyData.AddInput(newSD.primaryPolyData)
return newSD
def _destroySlice(self, sliceName):
"""Destroy the named slice."""
if sliceName in self._sliceDirectionsDict:
sliceDirection = self._sliceDirectionsDict[sliceName]
# remove it from the polydata output
self.ipwAppendPolyData.RemoveInput(
sliceDirection.primaryPolyData)
# this will disconnect all inputs
sliceDirection.close()
# remove from the grid
row = self._findGridRowByName(sliceName)
if row >= 0:
self._grid.DeleteRows(row)
# and remove it from our dict
del self._sliceDirectionsDict[sliceName]
def _findGridRowByName(self, sliceName):
nrGridRows = self._grid.GetNumberRows()
rowFound = False
row = 0
while not rowFound and row < nrGridRows:
value = self._grid.GetCellValue(row, self._gridNameCol)
rowFound = (value == sliceName)
row += 1
if rowFound:
# prepare and return the row
row -= 1
return row
else:
return -1
def get_slice_geometries(self):
"""Return dict mapping from slice direction names to
3-element tuples: origin, point1, point2.
"""
geoms = {}
for name, sd in self._sliceDirectionsDict.items():
geoms[name] = sd.get_slice_geometry()
return geoms
def set_slice_geometries(self, geoms):
"""Given the dict returned by get_slice_geometries(),
set all slices to the given plane geometries.
"""
for name, geom in geoms.items():
try:
sd = self._sliceDirectionsDict[name]
sd.set_slice_geometry(geom)
except KeyError:
pass
def getSelectedSliceDirections(self):
"""Returns list with bindings to user-selected sliceDirections.
"""
selectedSliceNames = self._getSelectedSliceNames()
selectedSliceDirections = [self._sliceDirectionsDict[sliceName]
for sliceName in selectedSliceNames]
return selectedSliceDirections
def get_all_slice_names(self):
return self._sliceDirectionsDict.keys()
def _getSelectedSliceNames(self):
"""
"""
sliceNames = []
selectedRows = self._grid.GetSelectedRows()
for row in selectedRows:
sliceNames.append(
self._grid.GetCellValue(row, self._gridNameCol))
return sliceNames
def _handlerCreateSlice(self, event):
sliceName = self.slice3dVWR.controlFrame.createSliceComboBox.GetValue()
newSD = self._createSlice(sliceName)
if newSD:
if sliceName == 'Coronal':
newSD.resetToACS(1)
elif sliceName == 'Sagittal':
newSD.resetToACS(2)
# a new slice was added, re-render!
self.slice3dVWR.render3D()
def _handlerGridRightClick(self, gridEvent):
"""This will popup a context menu when the user right-clicks on the
grid.
"""
pmenu = wx.Menu('Slices Context Menu')
self._appendGridCommandsToMenu(pmenu, self._grid)
self._grid.PopupMenu(pmenu, gridEvent.GetPosition())
def _handlerOverlayModeChoice(self, event):
ss = self.slice3dVWR.controlFrame.overlayModeChoice.\
GetStringSelection()
# look it up
self.overlayMode = sliceDirection.overlayModes[ss]
for sliceName, sliceDir in self._sliceDirectionsDict.items():
sliceDir.overlayMode = self.overlayMode
sliceDir.setAllOverlayLookupTables()
if len(self._sliceDirectionsDict) > 0:
self.slice3dVWR.render3D()
def _handlerFusionAlphaSlider(self, event):
val = self.slice3dVWR.controlFrame.fusionAlphaSlider.GetValue()
self.fusionAlpha = val / 100.0
for sliceName, sliceDir in self._sliceDirectionsDict.items():
sliceDir.fusionAlpha = self.fusionAlpha
sliceDir.setAllOverlayLookupTables()
if len(self._sliceDirectionsDict) > 0:
self.slice3dVWR.render3D()
def _handlerSliceSelectAll(self, event):
for row in range(self._grid.GetNumberRows()):
self._grid.SelectRow(row, True)
def _handlerSliceDeselectAll(self, event):
self._grid.ClearSelection()
def _handlerSliceLockToPoints(self, event):
worldPoints = self.slice3dVWR.selectedPoints.getSelectedWorldPoints()
if len(worldPoints) >= 3:
selectedSliceDirections = self.getSelectedSliceDirections()
for sliceDirection in selectedSliceDirections:
sliceDirection.lockToPoints(
worldPoints[0], worldPoints[1], worldPoints[2])
if selectedSliceDirections:
self.slice3dVWR.render3D()
else:
wx.LogMessage("You have to select at least three points.")
def _handlerSliceHide(self, event):
names = self._getSelectedSliceNames()
for name in names:
self._setSliceEnabled(name, False)
self.slice3dVWR.render3D()
def _handlerSliceShow(self, event):
names = self._getSelectedSliceNames()
for name in names:
self._setSliceEnabled(name, True)
self.slice3dVWR.render3D()
def _handlerSliceShowHide(self, event):
names = self._getSelectedSliceNames()
for name in names:
self._setSliceEnabled(
name, not self._sliceDirectionsDict[name].getEnabled())
self.slice3dVWR.render3D()
def _handlerSliceInteraction(self, event):
names = self._getSelectedSliceNames()
for name in names:
self._setSliceInteraction(
name,
not self._sliceDirectionsDict[name].getInteractionEnabled())
def _handlerSliceInteractionOn(self, event):
names = self._getSelectedSliceNames()
for name in names:
self._setSliceInteraction(
name,
True)
def _handlerSliceInteractionOff(self, event):
names = self._getSelectedSliceNames()
for name in names:
self._setSliceInteraction(
name,
False)
def _handlerSliceSetOpacity(self, event):
opacityText = wx.GetTextFromUser(
'Enter a new opacity value (0.0 to 1.0) for all selected '
'slices.')
if opacityText:
try:
opacity = float(opacityText)
except ValueError:
pass
else:
if opacity > 1.0:
opacity = 1.0
elif opacity < 0.0:
opacity = 0.0
names = self._getSelectedSliceNames()
for name in names:
self._setSliceOpacity(name, opacity)
def _handlerSliceDelete(self, event):
names = self._getSelectedSliceNames()
for name in names:
self._destroySlice(name)
if names:
self.slice3dVWR.render3D()
def _handlerSliceACS(self, event):
selection = self.slice3dVWR.controlFrame.acsChoice.GetSelection()
names = self._getSelectedSliceNames()
for name in names:
sd = self._sliceDirectionsDict[name]
sd.resetToACS(selection)
if names:
self.slice3dVWR.render3D()
def _handlerSliceResetToAxial(self, event):
names = self._getSelectedSliceNames()
for name in names:
sd = self._sliceDirectionsDict[name]
sd.resetToACS(0)
if names:
self.slice3dVWR.render3D()
def _handlerSliceResetToCoronal(self, event):
names = self._getSelectedSliceNames()
for name in names:
sd = self._sliceDirectionsDict[name]
sd.resetToACS(1)
if names:
self.slice3dVWR.render3D()
def _handlerSliceResetToSagittal(self, event):
names = self._getSelectedSliceNames()
for name in names:
sd = self._sliceDirectionsDict[name]
sd.resetToACS(2)
if names:
self.slice3dVWR.render3D()
def _initialiseGrid(self):
# setup default selection background
gsb = self.slice3dVWR.gridSelectionBackground
self._grid.SetSelectionBackground(gsb)
# delete all existing columns
self._grid.DeleteCols(0, self._grid.GetNumberCols())
# we need at least one row, else adding columns doesn't work (doh)
self._grid.AppendRows()
# setup columns
self._grid.AppendCols(len(self._gridCols))
for colIdx in range(len(self._gridCols)):
# add labels
self._grid.SetColLabelValue(colIdx, self._gridCols[colIdx][0])
# set size according to labels
self._grid.AutoSizeColumns()
for colIdx in range(len(self._gridCols)):
# now set size overrides
size = self._gridCols[colIdx][1]
if size > 0:
self._grid.SetColSize(colIdx, size)
# make sure we have no rows again...
self._grid.DeleteRows(0, self._grid.GetNumberRows())
def _initUI(self):
"""Perform any UI initialisation during setup.
"""
#
c = self.slice3dVWR.controlFrame.overlayModeChoice
c.Clear()
overlayModeTexts = sliceDirection.overlayModes.keys()
overlayModeTexts.sort()
for overlayModeText in overlayModeTexts:
c.Append(overlayModeText)
c.SetStringSelection('Green Opacity Range')
def removeData(self, theData):
for sliceName, sliceDirection in self._sliceDirectionsDict.items():
sliceDirection.removeData(theData)
def removeContourObject(self, tdObject):
for sliceName, sliceDirection in self._sliceDirectionsDict.items():
sliceDirection.removeContourObject(tdObject)
def resetAll(self):
for sliceName, sliceDirection in self._sliceDirectionsDict.items():
sliceDirection._resetPrimary()
sliceDirection._resetOverlays()
sliceDirection._syncContours()
def set_lookup_table(self, lut):
for sname, sdirection in self._sliceDirectionsDict.items():
sdirection.set_lookup_table(lut)
def setCurrentCursor(self, cursor):
self.currentCursor = cursor
cf = self.slice3dVWR.controlFrame
# ===================
# discrete position
discretePos = cursor[0:3]
cf.sliceCursorDiscreteText.SetValue('%d, %d, %d' % tuple(discretePos))
# ===================
# world position
worldPos = self.slice3dVWR.getWorldPositionInInputData(discretePos)
if worldPos != None:
worldPosString = '%.2f, %.2f, %.2f' % tuple(worldPos)
else:
worldPosString = 'NA'
cf.sliceCursorWorldText.SetValue(worldPosString)
# ===================
# scalar values
values = self.slice3dVWR.getValuesAtDiscretePositionInInputData(
discretePos)
if values != None:
valuesString = '%s' % (values,)
else:
valuesString = 'NA'
cf.sliceCursorScalarsText.SetValue(valuesString)
def setCurrentSliceDirection(self, sliceDirection):
# find this sliceDirection
sdFound = False
for sliceName, sd in self._sliceDirectionsDict.items():
if sd == sliceDirection:
sdFound = True
break
if sdFound:
row = self._findGridRowByName(sliceName)
if row >= 0:
self._grid.SelectRow(row, False)
def _setSliceEnabled(self, sliceName, enabled):
if sliceName in self._sliceDirectionsDict:
sd = self._sliceDirectionsDict[sliceName]
if enabled:
sd.enable()
else:
sd.disable()
row = self._findGridRowByName(sliceName)
if row >= 0:
gen_utils.setGridCellYesNo(
self._grid, row, self._gridEnabledCol, enabled)
def _setSliceInteraction(self, sliceName, interaction):
if sliceName in self._sliceDirectionsDict:
sd = self._sliceDirectionsDict[sliceName]
if interaction:
sd.enableInteraction()
else:
sd.disableInteraction()
row = self._findGridRowByName(sliceName)
if row >= 0:
gen_utils.setGridCellYesNo(
self._grid, row, self._gridInteractionCol, interaction)
def _setSliceOpacity(self, sliceName, opacity):
if sliceName in self._sliceDirectionsDict:
sd = self._sliceDirectionsDict[sliceName]
for ipw in sd._ipws:
ipw.GetTexturePlaneProperty().SetOpacity(opacity)
def syncContoursToObject(self, tdObject):
for sliceName, sliceDirection in self._sliceDirectionsDict.items():
sliceDirection.syncContourToObject(tdObject)
def syncContoursToObjectViaProp(self, prop):
for sliceName, sliceDirection in self._sliceDirectionsDict.items():
sliceDirection.syncContourToObjectViaProp(prop)
def enableEnabledSliceDirections(self):
"""Enable all sliceDirections that are enabled in the grid control.
This is used as part of the slice3dVWR enable/disable execution logic.
"""
numRows = self._grid.GetNumberRows()
for row in range(numRows):
# val can be 0 or 1
val = int(self._grid.GetCellValue(row, self._gridEnabledCol))
if val:
name = self._grid.GetCellValue(row, self._gridNameCol)
self._sliceDirectionsDict[name].enable()
def disableEnabledSliceDirections(self):
numRows = self._grid.GetNumberRows()
for row in range(numRows):
# val can be 0 or 1
val = int(self._grid.GetCellValue(row, self._gridEnabledCol))
if val:
name = self._grid.GetCellValue(row, self._gridNameCol)
self._sliceDirectionsDict[name].disable()
| [
[
1,
0,
0.0077,
0.0015,
0,
0.66,
0,
714,
0,
1,
0,
0,
714,
0,
0
],
[
1,
0,
0.0138,
0.0015,
0,
0.66,
0.125,
569,
0,
1,
0,
0,
569,
0,
0
],
[
8,
0,
0.0154,
0.0015,
0,
0... | [
"import gen_utils",
"import modules.viewers.slice3dVWRmodules.sliceDirection",
"reload(modules.viewers.slice3dVWRmodules.sliceDirection)",
"from modules.viewers.slice3dVWRmodules.sliceDirection import sliceDirection",
"from modules.viewers.slice3dVWRmodules.shared import s3dcGridMixin",
"import vtk",
"i... |
# shared.py copyright (c) 2003 Charl P. Botha <cpbotha@ieee.org>
# $Id$
#
import wx
class s3dcGridMixin(object):
"""
"""
def _handlerGridRangeSelect(self, event):
"""This event handler is a fix for the fact that the row
selection in the wxGrid is deliberately broken. It's also
used to activate and deactivate relevant menubar items.
Whenever a user clicks on a cell, the grid SHOWS its row
to be selected, but GetSelectedRows() doesn't think so.
This event handler will travel through the Selected Blocks
and make sure the correct rows are actually selected.
Strangely enough, this event always gets called, but the
selection is empty when the user has EXPLICITLY selected
rows. This is not a problem, as then the GetSelectedRows()
does return the correct information.
"""
# both of these are lists of (row, column) tuples
tl = self._grid.GetSelectionBlockTopLeft()
br = self._grid.GetSelectionBlockBottomRight()
# this means that the user has most probably clicked on the little
# block at the top-left corner of the grid... in this case,
# SelectRow has no frikking effect (up to wxPython 2.4.2.4) so we
# detect this situation and clear the selection (we're going to be
# selecting the whole grid in anycase.
if tl == [(0,0)] and br == [(self._grid.GetNumberRows() - 1,
self._grid.GetNumberCols() - 1)]:
self._grid.ClearSelection()
for (tlrow, tlcolumn), (brrow, brcolumn) in zip(tl, br):
for row in range(tlrow,brrow + 1):
self._grid.SelectRow(row, True)
if self._grid.GetSelectedRows():
for mi in self._disableMenuItems:
mi.Enable(True)
else:
for mi in self._disableMenuItems:
mi.Enable(False)
def _appendGridCommandsTupleToMenu(self, menu, eventWidget,
commandsTuple, disable=True):
"""Appends the slice grid commands to a menu. This can be used
to build up the context menu or the drop-down one.
Returns a list with bindings to menu items that have to be disabled.
"""
disableList = []
for command in commandsTuple:
if command[0] == '---':
mi = wx.MenuItem(menu, wx.ID_SEPARATOR)
menu.AppendItem(mi)
else:
id = wx.NewId()
mi = wx.MenuItem(
menu, id, command[0], command[1])
menu.AppendItem(mi)
wx.EVT_MENU(
eventWidget, id, command[2])
if disable and not self._grid.GetSelectedRows() and command[3]:
mi.Enable(False)
if command[3]:
disableList.append(mi)
# the disableList can be used later if the menu is created for use
# in the frame menubar
return disableList
| [
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[
8,
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0.0247,
1,
0.43,... | [
"import wx",
"class s3dcGridMixin(object):\n \"\"\"\n \"\"\"\n \n def _handlerGridRangeSelect(self, event):\n \"\"\"This event handler is a fix for the fact that the row\n selection in the wxGrid is deliberately broken. It's also\n used to activate and deactivate relevant menubar... |
# selectedPoints.py copyright (c) 2003 Charl P. Botha <cpbotha@ieee.org>
# $Id$
#
from module_kits.misc_kit.mixins import SubjectMixin
from modules.viewers.slice3dVWRmodules.shared import s3dcGridMixin
import operator
import vtk
import wx
# -------------------------------------------------------------------------
class outputSelectedPoints(list, SubjectMixin):
"""class for passing selected points to an output port.
Derived from list as base and the subject/observer mixin.
"""
devideType = 'namedPoints'
def __init__(self):
list.__init__(self)
SubjectMixin.__init__(self)
def close(self):
SubjectMixin.close(self)
# -------------------------------------------------------------------------
class selectedPoints(s3dcGridMixin):
_gridCols = [('Point Name', 0), ('World', 150), ('Discrete', 100),
('Value', 0)]
_gridNameCol = 0
_gridWorldCol = 1
_gridDiscreteCol = 2
_gridValueCol = 3
def __init__(self, slice3dVWRThingy, pointsGrid):
self.slice3dVWR = slice3dVWRThingy
self._grid = pointsGrid
self._pointsList = []
self._initialiseGrid()
# this will be passed on as input to the next component
self.outputSelectedPoints = outputSelectedPoints()
self._bindEvents()
# fill out our drop-down menu
self._disableMenuItems = self._appendGridCommandsToMenu(
self.slice3dVWR.controlFrame.pointsMenu,
self.slice3dVWR.controlFrame, disable=True)
def close(self):
self.removePoints(range(len(self._pointsList)))
def _appendGridCommandsToMenu(self, menu, eventWidget, disable=True):
"""Appends the points grid commands to a menu. This can be used
to build up the context menu or the drop-down one.
"""
commandsTuple = [
('&Store Point', 'Store the current cursor as point',
self._handlerStoreCursorAsPoint, False),
('---',),
('Select &All', 'Select all slices',
self._handlerPointsSelectAll, False),
('D&Eselect All', 'Deselect all slices',
self._handlerPointsDeselectAll, False),
('---',),
('&Interaction ON +',
'Activate interaction for the selected points',
self._handlerPointsInteractionOn, True),
('I&nteraction OFF',
'Deactivate interaction for the selected points',
self._handlerPointsInteractionOff, True),
('---',), # important! one-element tuple...
('&Rename',
'Rename selected points',
self._handlerPointsRename, True),
('---',), # important! one-element tuple...
('&Delete', 'Delete selected points',
self._handlerPointsDelete, True)]
disableList = self._appendGridCommandsTupleToMenu(
menu, eventWidget, commandsTuple, disable)
return disableList
def _bindEvents(self):
controlFrame = self.slice3dVWR.controlFrame
# the store button
wx.EVT_BUTTON(controlFrame, controlFrame.sliceStoreButtonId,
self._handlerStoreCursorAsPoint)
wx.grid.EVT_GRID_CELL_RIGHT_CLICK(
self._grid, self._handlerGridRightClick)
wx.grid.EVT_GRID_LABEL_RIGHT_CLICK(
self._grid, self._handlerGridRightClick)
wx.grid.EVT_GRID_RANGE_SELECT(
self._grid, self._handlerGridRangeSelect)
def enablePointsInteraction(self, enable):
"""Enable/disable points interaction in the 3d scene.
"""
if enable:
for selectedPoint in self._pointsList:
if selectedPoint['pointWidget']:
selectedPoint['pointWidget'].On()
else:
for selectedPoint in self._pointsList:
if selectedPoint['pointWidget']:
selectedPoint['pointWidget'].Off()
def getSavePoints(self):
"""Get special list of points that can be easily pickled.
"""
savedPoints = []
for sp in self._pointsList:
savedPoints.append({'discrete' : sp['discrete'],
'world' : sp['world'],
'value' : sp['value'],
'name' : sp['name'],
'lockToSurface' : sp['lockToSurface']})
return savedPoints
def getSelectedWorldPoints(self):
"""Return list of world coordinates that correspond to selected
points.
"""
return [self._pointsList[i]['world']
for i in self._grid.GetSelectedRows()]
def _handlerGridRightClick(self, gridEvent):
"""This will popup a context menu when the user right-clicks on the
grid.
"""
pmenu = wx.Menu('Points Context Menu')
self._appendGridCommandsToMenu(pmenu, self._grid)
self._grid.PopupMenu(pmenu, gridEvent.GetPosition())
def _handlerPointsRename(self, event):
rslt = wx.GetTextFromUser(
'Please enter a new name for the selected points '
'("none" = no name).',
'Points Rename', '')
if rslt:
if rslt.lower() == 'none':
rslt = ''
selRows = self._grid.GetSelectedRows()
self._renamePoints(selRows, rslt)
def _handlerPointsSelectAll(self, event):
# calling SelectAll and then GetSelectedRows() returns nothing
# so, we select row by row, and that does seem to work!
for row in range(self._grid.GetNumberRows()):
self._grid.SelectRow(row, True)
def _handlerPointsDeselectAll(self, event):
self._grid.ClearSelection()
def _handlerPointsDelete(self, event):
selRows = self._grid.GetSelectedRows()
if len(selRows):
# removePoints will call a render
self.removePoints(selRows)
def _handlerPointsInteractionOn(self, event):
for idx in self._grid.GetSelectedRows():
self._pointsList[idx]['pointWidget'].On()
def _handlerPointsInteractionOff(self, event):
for idx in self._grid.GetSelectedRows():
self._pointsList[idx]['pointWidget'].Off()
def _handlerStoreCursorAsPoint(self, event):
"""Call back for the store cursor button.
Calls store cursor method on [x,y,z,v].
"""
self._storeCursor(self.slice3dVWR.sliceDirections.currentCursor)
def hasWorldPoint(self, worldPoint):
worldPoints = [i['world'] for i in self._pointsList]
if worldPoint in worldPoints:
return True
else:
return False
def _initialiseGrid(self):
# setup default selection background
gsb = self.slice3dVWR.gridSelectionBackground
self._grid.SetSelectionBackground(gsb)
# delete all existing columns
self._grid.DeleteCols(0, self._grid.GetNumberCols())
# we need at least one row, else adding columns doesn't work (doh)
self._grid.AppendRows()
# setup columns
self._grid.AppendCols(len(self._gridCols))
for colIdx in range(len(self._gridCols)):
# add labels
self._grid.SetColLabelValue(colIdx, self._gridCols[colIdx][0])
# set size according to labels
self._grid.AutoSizeColumns()
for colIdx in range(len(self._gridCols)):
# now set size overrides
size = self._gridCols[colIdx][1]
if size > 0:
self._grid.SetColSize(colIdx, size)
# make sure we have no rows again...
self._grid.DeleteRows(0, self._grid.GetNumberRows())
def _observerPointWidgetInteraction(self, pw, evt_name):
# we have to find pw in our list
pwidgets = map(lambda i: i['pointWidget'], self._pointsList)
if pw in pwidgets:
idx = pwidgets.index(pw)
# toggle the selection for this point in our list
self._grid.SelectRow(idx)
# if this is lockToSurface, lock it! (and we can only lock
# to something if there're some pickable objects as reported
# by the tdObjects class)
pp = self.slice3dVWR._tdObjects.getPickableProps()
if self._pointsList[idx]['lockToSurface'] and pp:
tdren = self.slice3dVWR._threedRenderer
# convert the actual pointwidget position back to
# display coord
tdren.SetWorldPoint(pw.GetPosition() + (1,))
tdren.WorldToDisplay()
ex,ey,ez = tdren.GetDisplayPoint()
# we make use of a CellPicker (for the same reasons we
# use it during the initial placement of a surface point)
picker = vtk.vtkCellPicker()
# this is quite important
picker.SetTolerance(0.005)
# tell the picker which props it's allowed to pick from
for p in pp:
picker.AddPickList(p)
picker.PickFromListOn()
# and go!
picker.Pick(ex, ey, 0.0, tdren)
if picker.GetActor():
# correct the pointWidget's position so it sticks to
# the surface
pw.SetPosition(picker.GetPickPosition())
# get its position and transfer it to the sphere actor that
# we use
pos = pw.GetPosition()
self._pointsList[idx]['sphereActor'].SetAttachmentPoint(pos)
val, discrete = self.slice3dVWR.getValueAtPositionInInputData(pos)
if val == None:
discrete = (0, 0, 0)
val = 0
# the cursor is a tuple with discrete position and value
self._pointsList[idx]['discrete'] = tuple(discrete)
# 'world' is the world coordinates
self._pointsList[idx]['world'] = tuple(pos)
# and the value
self._pointsList[idx]['value'] = val
self._syncGridRowToSelPoints(idx)
def removePoints(self, idxs):
"""Remove all points at indexes in idxs list.
"""
# we have to delete one by one from back to front
idxs.sort()
idxs.reverse()
ren = self.slice3dVWR._threedRenderer
for idx in idxs:
# remove the sphere actor from the renderer
ren.RemoveActor(self._pointsList[idx]['sphereActor'])
# then deactivate and disconnect the point widget
pw = self._pointsList[idx]['pointWidget']
pw.SetInput(None)
pw.Off()
pw.SetInteractor(None)
# remove the entries from the wxGrid
self._grid.DeleteRows(idx)
# then remove it from our internal list
del self._pointsList[idx]
# rerender
self.slice3dVWR.render3D()
# and sync up output points
self._syncOutputSelectedPoints()
def _renamePoint(self, pointIdx, newName):
"""Given a point index and a new name, this will take care of all
the actions required to rename a point. This is often called for
a series of points, so this function does not refresh the display
or resync the output list. You're responsible for that. :)
"""
if newName != self._pointsList[pointIdx]['name']:
# we only do something if this has really changed and if the name
# is not blank
# first make sure the 3d renderer knows about this
ca = self._pointsList[pointIdx]['sphereActor']
ca.SetCaption(newName)
# now record the change in our internal list
self._pointsList[pointIdx]['name'] = newName
# now in the grid (the rows and pointIdxs correlate)
self._syncGridRowToSelPoints(pointIdx)
def _renamePoints(self, pointIdxs, newName):
for pointIdx in pointIdxs:
self._renamePoint(pointIdx, newName)
# now resync the output points
self._syncOutputSelectedPoints()
# and redraw stuff
self.slice3dVWR.render3D()
def setSavePoints(self, savedPoints, boundsForPoints):
"""Re-install the saved points that were returned with getPoints.
"""
for sp in savedPoints:
self._storePoint(sp['discrete'], sp['world'], sp['value'],
sp['name'], sp['lockToSurface'],
boundsForPoints)
def _storeCursor(self, cursor):
"""Store the point represented by the cursor parameter.
cursor is a 4-tuple with the discrete (data-relative) xyz coords and
the value at that point.
"""
# we first have to check that we don't have this pos already
new_discrete = (int(cursor[0]), int(cursor[1]), int(cursor[2]))
discretes = [i['discrete'] for i in self._pointsList]
if new_discrete in discretes:
return
worldPos = self.slice3dVWR.getWorldPositionInInputData(cursor[0:3])
if worldPos == None:
return
pointName = self.slice3dVWR.controlFrame.sliceCursorNameCombo.\
GetValue()
self._storePoint(new_discrete, tuple(worldPos), cursor[3],
pointName)
def _storePoint(self, discrete, world, value, pointName,
lockToSurface=False, boundsForPoints=None):
tdren = self.slice3dVWR._threedRenderer
tdrwi = self.slice3dVWR.threedFrame.threedRWI
if not boundsForPoints:
bounds = tdren.ComputeVisiblePropBounds()
else:
bounds = boundsForPoints
if bounds[1] - bounds[0] <= 0 or \
bounds[3] - bounds[2] <= 0 or \
bounds[5] - bounds[4] <= 0:
bounds = (-1,1,-1,1,-1,1)
# we use a pointwidget
pw = vtk.vtkPointWidget()
#pw.SetInput(inputData)
pw.PlaceWidget(bounds[0], bounds[1], bounds[2], bounds[3], bounds[4],
bounds[5])
pw.SetPosition(world)
# make priority higher than the default of vtk3DWidget so
# that imageplanes behind us don't get selected the whole time
pw.SetPriority(0.6)
pw.SetInteractor(tdrwi)
pw.AllOff()
pw.On()
#ss.SetRadius((bounds[1] - bounds[0]) / 100.0)
ca = vtk.vtkCaptionActor2D()
ca.GetProperty().SetColor(1,1,0)
tp = ca.GetCaptionTextProperty()
tp.SetColor(1,1,0)
tp.ShadowOff()
ca.SetPickable(0)
ca.SetAttachmentPoint(world)
ca.SetPosition(25,10)
ca.BorderOff()
ca.SetWidth(0.3)
ca.SetHeight(0.04)
# I used to have the problem on my ATI X1600 that interaction
# was extremely slow of 3D was on... problem seems to have
# gone away by itself, or it rather has to do with the slow-
# glcontext-things
ca.ThreeDimensionalLeaderOn()
ca.SetMaximumLeaderGlyphSize(10)
ca.SetLeaderGlyphSize(0.025)
coneSource = vtk.vtkConeSource()
coneSource.SetResolution(6)
# we want the cone's very tip to by at 0,0,0
coneSource.SetCenter(- coneSource.GetHeight() / 2.0, 0, 0)
ca.SetLeaderGlyph(coneSource.GetOutput())
if len(pointName) > 0:
ca.SetCaption(pointName)
else:
ca.SetCaption(".")
# since VTK 20070628, caption actor doesn't like an empty label
tdren.AddActor(ca)
def pw_ei_cb(pw, evt_name):
# make sure our output is good
self._syncOutputSelectedPoints()
pw.AddObserver('StartInteractionEvent', lambda pw, evt_name,
s=self:
s._observerPointWidgetInteraction(pw, evt_name))
pw.AddObserver('InteractionEvent', lambda pw, evt_name,
s=self:
s._observerPointWidgetInteraction(pw, evt_name))
pw.AddObserver('EndInteractionEvent', pw_ei_cb)
# we start with it disabled
pw.Off()
# store the cursor (discrete coords) the coords and the actor
self._pointsList.append({'discrete' : tuple(discrete),
'world' : tuple(world),
'value' : value,
'name' : pointName,
'pointWidget' : pw,
'lockToSurface' : lockToSurface,
'sphereActor' : ca})
self._grid.AppendRows()
#self._grid.AdjustScrollBars()
row = self._grid.GetNumberRows() - 1
self._syncGridRowToSelPoints(row)
# make sure self._outputSelectedPoints is up to date
self._syncOutputSelectedPoints()
self.slice3dVWR.render3D()
def _syncGridRowToSelPoints(self, row):
# this just formats the real point
name = self._pointsList[row]['name']
discrete = self._pointsList[row]['discrete']
world = self._pointsList[row]['world']
value = self._pointsList[row]['value']
discreteStr = "%.0f, %.0f, %.0f" % discrete
worldStr = "%.2f, %.2f, %.2f" % world
self._grid.SetCellValue(row, self._gridNameCol, name)
self._grid.SetCellValue(row, self._gridWorldCol, worldStr)
self._grid.SetCellValue(row, self._gridDiscreteCol, discreteStr)
self._grid.SetCellValue(row, self._gridValueCol, str(value))
def _syncOutputSelectedPoints(self):
"""Sync up the output vtkPoints and names to _sel_points.
We play it safe, as the number of points in this list is usually
VERY low.
"""
temp_output_selected_points = []
# then transfer everything
for i in self._pointsList:
temp_output_selected_points.append({'name' : i['name'],
'discrete' : i['discrete'],
'world' : i['world'],
'value' : i['value']})
if temp_output_selected_points != self.outputSelectedPoints:
# only if the points have changed do we send them out
# we have to copy like this so that outputSelectedPoints
# keeps its type.
self.outputSelectedPoints[:] = temp_output_selected_points[:]
# make sure that the input-independent part of this module knows
# that it has been modified
mm = self.slice3dVWR._module_manager
# sub-part 1 is responsible for producing the points
mm.modify_module(self.slice3dVWR, 1)
mm.request_auto_execute_network(self.slice3dVWR)
| [
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... | [
"from module_kits.misc_kit.mixins import SubjectMixin",
"from modules.viewers.slice3dVWRmodules.shared import s3dcGridMixin",
"import operator",
"import vtk",
"import wx",
"class outputSelectedPoints(list, SubjectMixin):\n \"\"\"class for passing selected points to an output port.\n\n Derived from l... |
# implicits.py copyright (c) 2003 Charl P. Botha <cpbotha@ieee.org>
# $Id$
import gen_utils
from modules.viewers.slice3dVWRmodules.shared import s3dcGridMixin
import vtk
import wx
# -------------------------------------------------------------------------
class implicitInfo:
def __init__(self):
self.name = None
self.type = None
self.widget = None
self.bounds = None
self.function = None
class implicits(s3dcGridMixin):
_gridCols = [('Name', 100), ('Type', 75), ('Enabled', 0)]
_gridNameCol = 0
_gridTypeCol = 1
_gridEnabledCol = 2
_implicitTypes = ['Plane', 'Sphere']
_boundsTypes = ['Primary Input', 'Selected object', 'Visible objects',
'Manual']
def __init__(self, slice3dVWRThingy, implicitsGrid):
self.slice3dVWR = slice3dVWRThingy
self._grid = implicitsGrid
# dict with name as key, values are implicitInfo classes
self._implicitsDict = {}
# we have to update this function when:
# * a new implicit is created
# * an implicit is deleted
# * the user has adjusted the representative widget
self.outputImplicitFunction = vtk.vtkImplicitBoolean()
self.outputImplicitFunction.SetOperationTypeToUnion()
self._initialiseGrid()
self._setupGUI()
self._bindEvents()
def close(self):
# delete all implicits, the good way
# this shouldn't cause problems, because the whole slice3dVWR module
# has been disconnected by this time
dNames = self._implicitsDict.keys()
for dName in dNames:
self._deleteImplicit(dName)
# make sure we have no more bindings to any of the implicits data
self._implicitsDict.clear()
# various other thingies
self.slice3dVWR = None
self._grid.ClearGrid()
self._grid = None
def _createImplicitFromUI(self):
cf = self.slice3dVWR.controlFrame
implicitType = cf.implicitTypeChoice.GetStringSelection()
implicitName = cf.implicitNameText.GetValue()
if implicitType in self._implicitTypes:
if implicitName in self._implicitsDict:
md = wx.MessageDialog(
self.slice3dVWR.controlFrame,
"You have to enter a unique name for the new implicit. "
"Please try again.",
"Information",
wx.OK | wx.ICON_INFORMATION)
md.ShowModal()
return
#implicitWidget = None
ren = self.slice3dVWR._threedRenderer
# let's find out which bounds the user wanted
cf = self.slice3dVWR.controlFrame
bt = cf.implicitBoundsChoice.GetStringSelection()
pi = None
bounds = None
bti = self._boundsTypes.index(bt)
if bti == 0:
# primary input
pi = self.slice3dVWR.getPrimaryInput()
if pi == None:
md = wx.MessageDialog(
cf,
"There is no primary input. "
"Please try another bounds type.",
"Information",
wx.OK | wx.ICON_INFORMATION)
md.ShowModal()
return
elif bti == 1:
# selected object
objs = self.slice3dVWR._tdObjects._getSelectedObjects()
if not objs:
md = wx.MessageDialog(
cf,
"No object has been selected. "
"Please try another bounds type or select an object.",
"Information",
wx.OK | wx.ICON_INFORMATION)
md.ShowModal()
return
try:
prop = self.slice3dVWR._tdObjects.findPropByObject(objs[0])
bounds = prop.GetBounds()
except KeyError:
# this should never ever happen
return
elif bti == 2:
# visible objects
bounds = self.slice3dVWR._threedRenderer.\
ComputeVisiblePropBounds()
elif bti == 3:
# manual
v = cf.implicitManualBoundsText.GetValue()
t = gen_utils.textToTypeTuple(v, (-1, 1, -1, 1, -1, 1),
6, float)
cf.implicitManualBoundsText.SetValue(str(t))
if bounds:
b0 = bounds[1] - bounds[0]
b1 = bounds[3] - bounds[2]
b2 = bounds[5] - bounds[4]
if b0 <= 0 or b1 <= 0 or b2 <= 0:
# not good enough...
bounds = None
md = wx.MessageDialog(
cf,
"Resultant bounds are invalid. "
"Please try again.",
"Information",
wx.OK | wx.ICON_INFORMATION)
md.ShowModal()
return
# at this stage, you MUST have pi or bounds!
self._createImplicit(implicitType, implicitName, bounds, pi)
def _createImplicit(self, implicitType, implicitName, bounds, primaryInput):
if implicitType in self._implicitTypes and \
implicitName not in self._implicitsDict:
pi = primaryInput
rwi = self.slice3dVWR.threedFrame.threedRWI
implicitInfoBounds = None
if implicitType == "Plane":
implicitWidget = vtk.vtkImplicitPlaneWidget()
implicitWidget.SetPlaceFactor(1.25)
if pi != None:
implicitWidget.SetInput(pi)
implicitWidget.PlaceWidget()
b = pi.GetBounds()
implicitWidget.SetOrigin(b[0], b[2], b[4])
implicitInfoBounds = b
elif bounds != None:
implicitWidget.PlaceWidget(bounds)
implicitWidget.SetOrigin(bounds[0], bounds[2], bounds[4])
implicitInfoBounds = bounds
else:
# this can never happen
pass
implicitWidget.SetInteractor(rwi)
implicitWidget.On()
# create the implicit function
implicitFunction = vtk.vtkPlane()
# sync it to the initial widget
self._syncPlaneFunctionToWidget(implicitWidget)
# add it to the output
self.outputImplicitFunction.AddFunction(implicitFunction)
# now add an observer to the widget
def observerImplicitPlaneWidget(widget, eventName):
# sync it to the initial widget
ret = self._syncPlaneFunctionToWidget(widget)
# also select the correct grid row
if ret != None:
name, ii = ret
row = self.findGridRowByName(name)
if row >= 0:
self._grid.SelectRow(row)
oId = implicitWidget.AddObserver('EndInteractionEvent',
observerImplicitPlaneWidget)
elif implicitType == "Sphere":
implicitWidget = vtk.vtkSphereWidget()
implicitWidget.SetPlaceFactor(1.25)
implicitWidget.TranslationOn()
implicitWidget.ScaleOn()
#implicitWidget.HandleVisibilityOn()
if pi != None:
implicitWidget.SetInput(pi)
implicitWidget.PlaceWidget()
b = pi.GetBounds()
implicitInfoBounds = b
#implicitWidget.SetOrigin(b[0], b[2], b[4])
elif bounds != None:
implicitWidget.PlaceWidget(bounds)
implicitInfoBounds = bounds
#implicitWidget.SetOrigin(bounds[0], bounds[2], bounds[4])
else:
# this can never happen
pass
implicitWidget.SetInteractor(rwi)
implicitWidget.On()
# create the implicit function
implicitFunction = vtk.vtkSphere()
# sync it to the initial widget
self._syncSphereFunctionToWidget(implicitWidget)
# add it to the output
self.outputImplicitFunction.AddFunction(implicitFunction)
# now add an observer to the widget
def observerImplicitSphereWidget(widget, eventName):
# sync it to the initial widget
ret = self._syncSphereFunctionToWidget(widget)
# also select the correct grid row
if ret != None:
name, ii = ret
row = self.findGridRowByName(name)
if row >= 0:
self._grid.SelectRow(row)
oId = implicitWidget.AddObserver('EndInteractionEvent',
observerImplicitSphereWidget)
if implicitWidget:
# set the priority so it gets interaction before the
# ImagePlaneWidget. 3D widgets have default priority 0.5,
# so we assign our widgets just a tad higher. (voiwidget
# has 0.6 for example)
# NB: in a completely weird twist of events, only slices
# added AFTER this widget will act like they have lower
# priority. The initial slice still takes events from us!
implicitWidget.SetPriority(0.7)
# add to our internal thingy
ii = implicitInfo()
ii.name = implicitName
ii.type = implicitType
ii.widget = implicitWidget
ii.bounds = implicitInfoBounds
ii.oId = oId
ii.function = implicitFunction
self._implicitsDict[implicitName] = ii
# now add to the grid
nrGridRows = self._grid.GetNumberRows()
self._grid.AppendRows()
self._grid.SetCellValue(nrGridRows, self._gridNameCol,
implicitName)
self._grid.SetCellValue(nrGridRows, self._gridTypeCol,
implicitType)
# set the relevant cells up for Boolean
for col in [self._gridEnabledCol]:
self._grid.SetCellRenderer(nrGridRows, col,
wx.grid.GridCellBoolRenderer())
self._grid.SetCellAlignment(nrGridRows, col,
wx.ALIGN_CENTRE,
wx.ALIGN_CENTRE)
self._setImplicitEnabled(ii.name, True)
def _deleteImplicit(self, name):
dRow = self.findGridRowByName(name)
if dRow >= 0:
# delete that row
self._grid.DeleteRows(dRow)
ii = self._implicitsDict[name]
# take care of the widget
w = ii.widget
w.RemoveObserver(ii.oId)
w.Off()
w.SetInteractor(None)
self.outputImplicitFunction.RemoveFunction(ii.function)
# finally remove our record of everything
del self._implicitsDict[name]
def _appendGridCommandsToMenu(self, menu, eventWidget, disable=True):
"""Appends the points grid commands to a menu. This can be used
to build up the context menu or the drop-down one.
"""
commandsTuple = [
('&Create Implicit', 'Create a new implicit with the currently '
'selected name and type',
self._handlerCreateImplicit, False),
('---',),
('Select &All', 'Select all implicits',
self._handlerSelectAllImplicits, False),
('D&Eselect All', 'Deselect all implicits',
self._handlerDeselectAllImplicits, False),
('---',),
('&Show', 'Show selected implicits',
self._handlerShowImplicits, True),
('&Hide', 'Hide selected implicits',
self._handlerHideImplicits, True),
('---',), # important! one-element tuple...
('&Rename',
'Rename selected implicits',
self._handlerRenameImplicits, True),
('&Flip',
'Flip selected implicits if possible.',
self._handlerFlipImplicits, True),
('---',), # important! one-element tuple...
('&Delete', 'Delete selected implicits',
self._handlerDeleteImplicits, True)]
disableList = self._appendGridCommandsTupleToMenu(
menu, eventWidget, commandsTuple, disable)
return disableList
def _bindEvents(self):
controlFrame = self.slice3dVWR.controlFrame
# the store button
wx.EVT_BUTTON(controlFrame, controlFrame.createImplicitButtonId,
self._handlerCreateImplicit)
wx.grid.EVT_GRID_CELL_RIGHT_CLICK(
self._grid, self._handlerGridRightClick)
wx.grid.EVT_GRID_LABEL_RIGHT_CLICK(
self._grid, self._handlerGridRightClick)
wx.grid.EVT_GRID_RANGE_SELECT(
self._grid, self._handlerGridRangeSelect)
def enablePointsInteraction(self, enable):
"""Enable/disable points interaction in the 3d scene.
"""
if enable:
for selectedPoint in self._pointsList:
if selectedPoint['pointWidget']:
selectedPoint['pointWidget'].On()
else:
for selectedPoint in self._pointsList:
if selectedPoint['pointWidget']:
selectedPoint['pointWidget'].Off()
def findNameImplicitInfoUsingWidget(self, widget):
# let's find widget in our records
found = False
for name, ii in self._implicitsDict.items():
if ii.widget == widget:
found = True
break
if found:
return name, ii
else:
return None
def findGridRowByName(self, name):
nrGridRows = self._grid.GetNumberRows()
rowFound = False
row = 0
while not rowFound and row < nrGridRows:
value = self._grid.GetCellValue(row, self._gridNameCol)
rowFound = (value == name)
row += 1
if rowFound:
# prepare and return the row
row -= 1
return row
else:
return -1
def getImplicitsState(self):
"""Get state of current implicits in a pickle-able data structure.
"""
implicitsState = []
for implicitName, implicitInfo in self._implicitsDict.items():
functionState = None
if implicitInfo.type == 'Plane':
# we need to get origin and normal
o = implicitInfo.widget.GetOrigin()
n = implicitInfo.widget.GetNormal()
functionState = (o, n)
elif implicitInfo.type == 'Sphere':
# we need to get center and radius
c = implicitInfo.widget.GetCenter()
r = implicitInfo.widget.GetRadius()
functionState = (c, r)
else:
break
implicitsState.append({'name' : implicitName,
'type' : implicitInfo.type,
'bounds' : implicitInfo.bounds,
'fState' : functionState})
return implicitsState
def setImplicitsState(self, implicitsState):
"""Given an implicitsState data structure, create implicits exactly
as they were when the implicitsState was generated.
"""
# first delete all implicits
for dname in self._implicitsDict.keys():
self._deleteImplicit(dname)
# now start creating new ones
for state in implicitsState:
self._createImplicit(state['type'], state['name'], state['bounds'], None)
if state['name'] in self._implicitsDict:
# succesful creation - now restore function state
ii = self._implicitsDict[state['name']]
if ii.type == 'Plane':
ii.widget.SetOrigin(state['fState'][0])
ii.widget.SetNormal(state['fState'][1])
self._syncPlaneFunctionToWidget(ii.widget)
elif ii.type == 'Sphere':
ii.widget.SetCenter(state['fState'][0])
ii.widget.SetRadius(state['fState'][1])
self._syncSphereFunctionToWidget(ii.widget)
else:
pass
def _getSelectedImplicitNames(self):
"""Return a list of names representing the currently selected
implicits.
"""
selRows = self._grid.GetSelectedRows()
sNames = []
for sRow in selRows:
sNames.append(self._grid.GetCellValue(sRow, self._gridNameCol))
return sNames
def _handlerFlipImplicits(self, event):
"""If any of the selected implicits are of 'Plane' type, flip it, i.e.
change the direction of the normal.
"""
sNames = self._getSelectedImplicitNames()
for sName in sNames:
ii = self._implicitsDict[sName]
if ii.type == 'Plane':
# flip both the function and the widget
n = ii.function.GetNormal()
fn = [-1.0 * e for e in n]
ii.function.SetNormal(fn)
ii.widget.SetNormal(fn)
if sNames:
# if we don't re-render, we don't see the flipped thingies
self.slice3dVWR.render3D()
def _handlerGridRightClick(self, gridEvent):
"""This will popup a context menu when the user right-clicks on the
grid.
"""
imenu = wx.Menu('Implicits Context Menu')
self._appendGridCommandsToMenu(imenu, self._grid)
self._grid.PopupMenu(imenu, gridEvent.GetPosition())
def _handlerRenameImplicits(self, event):
selRows = self._grid.GetSelectedRows()
rNames = []
for sRow in selRows:
rNames.append(self._grid.GetCellValue(sRow, self._gridNameCol))
for rName in rNames:
self._renameImplicit(rName)
def _renameImplicit(self, name):
"""Pop-up text box asking the user for a new name.
"""
if name in self._implicitsDict:
newName = wx.GetTextFromUser(
'Please enter a new name for "%s".' % (name,),
'Implicit Rename', name)
if newName:
if newName in self._implicitsDict:
md = wx.MessageDialog(
self.slice3dVWR.controlFrame,
"You have to enter a unique name. "
"Please try again.",
"Information",
wx.OK | wx.ICON_INFORMATION)
md.ShowModal()
else:
# first the grid
row = self.findGridRowByName(name)
if row >= 0:
self._grid.SetCellValue(row, self._gridNameCol,
newName)
# do the actual renaming
ii = self._implicitsDict[name]
ii.name = newName
del self._implicitsDict[name]
self._implicitsDict[newName] = ii
def _handlerSelectAllImplicits(self, event):
# calling SelectAll and then GetSelectedRows() returns nothing
# so, we select row by row, and that does seem to work!
for row in range(self._grid.GetNumberRows()):
self._grid.SelectRow(row, True)
def _handlerDeselectAllImplicits(self, event):
self._grid.ClearSelection()
def _handlerDeleteImplicits(self, event):
selRows = self._grid.GetSelectedRows()
# first get a list of names
dNames = []
for sRow in selRows:
name = self._grid.GetCellValue(sRow, self._gridNameCol)
dNames.append(name)
for name in dNames:
self._deleteImplicit(name)
def _handlerHideImplicits(self, event):
selectedRows = self._grid.GetSelectedRows()
for sRow in selectedRows:
name = self._grid.GetCellValue(sRow, self._gridNameCol)
self._setImplicitEnabled(name, False)
def _handlerShowImplicits(self, event):
selectedRows = self._grid.GetSelectedRows()
for sRow in selectedRows:
name = self._grid.GetCellValue(sRow, self._gridNameCol)
self._setImplicitEnabled(name, True)
def _handlerImplicitsInteractionOn(self, event):
for idx in self._grid.GetSelectedRows():
self._pointsList[idx]['pointWidget'].On()
def _handlerImplicitsInteractionOff(self, event):
for idx in self._grid.GetSelectedRows():
self._pointsList[idx]['pointWidget'].Off()
def _handlerCreateImplicit(self, event):
"""Create 3d widget and the actual implicit function.
"""
self._createImplicitFromUI()
def hasWorldPoint(self, worldPoint):
worldPoints = [i['world'] for i in self._pointsList]
if worldPoint in worldPoints:
return True
else:
return False
def _initialiseGrid(self):
# setup default selection background
gsb = self.slice3dVWR.gridSelectionBackground
self._grid.SetSelectionBackground(gsb)
# delete all existing columns
self._grid.DeleteCols(0, self._grid.GetNumberCols())
# we need at least one row, else adding columns doesn't work (doh)
self._grid.AppendRows()
# setup columns
self._grid.AppendCols(len(self._gridCols))
for colIdx in range(len(self._gridCols)):
# add labels
self._grid.SetColLabelValue(colIdx, self._gridCols[colIdx][0])
# set size according to labels
self._grid.AutoSizeColumns()
for colIdx in range(len(self._gridCols)):
# now set size overrides
size = self._gridCols[colIdx][1]
if size > 0:
self._grid.SetColSize(colIdx, size)
# make sure we have no rows again...
self._grid.DeleteRows(0, self._grid.GetNumberRows())
def _renameImplicits(self, Idxs, newName):
for idx in Idxs:
self._renameImplicit(idx, newName)
def _setImplicitEnabled(self, implicitName, enabled):
if implicitName in self._implicitsDict:
ii = self._implicitsDict[implicitName]
# in our internal list
ii.enabled = bool(enabled)
# the widget
if ii.widget:
ii.widget.SetEnabled(ii.enabled)
# in the grid
gridRow = self.findGridRowByName(implicitName)
if gridRow >= 0:
gen_utils.setGridCellYesNo(
self._grid, gridRow, self._gridEnabledCol, ii.enabled)
def _setupGUI(self):
# fill out our drop-down menu
self._disableMenuItems = self._appendGridCommandsToMenu(
self.slice3dVWR.controlFrame.implicitsMenu,
self.slice3dVWR.controlFrame, disable=True)
# setup choice component
# first clear
cf = self.slice3dVWR.controlFrame
cf.implicitTypeChoice.Clear()
for implicitType in self._implicitTypes:
cf.implicitTypeChoice.Append(implicitType)
cf.implicitTypeChoice.SetSelection(0)
cf.implicitNameText.SetValue("implicit 0")
# setup bounds type thingies
cf.implicitBoundsChoice.Clear()
for t in self._boundsTypes:
cf.implicitBoundsChoice.Append(t)
cf.implicitBoundsChoice.SetSelection(0)
# setup default value for the manual bounds thingy
cf.implicitManualBoundsText.SetValue('(-1, 1, -1, 1, -1, 1)')
def _syncPlaneFunctionToWidget(self, widget):
# let's find widget in our records
found = False
for name, ii in self._implicitsDict.items():
if ii.widget == widget:
found = True
break
if found:
ii.function.SetOrigin(ii.widget.GetOrigin())
# FIXME: incorporate "sense" setting
ii.function.SetNormal(ii.widget.GetNormal())
self._auto_execute()
# as a convenience, we return the name and ii
return name, ii
else:
return None
def _syncSphereFunctionToWidget(self, widget):
r = self.findNameImplicitInfoUsingWidget(widget)
if r != None:
name, ii = r
ii.function.SetCenter(ii.widget.GetCenter())
ii.function.SetRadius(ii.widget.GetRadius())
self._auto_execute()
# as a convenience, we return the name and ii
return name, ii
else:
return None
def _auto_execute(self):
"""Invalidate part 2 of the slice3dVWR module (the implicits part) and
request an auto execution.
This method should be called when any of the implicits is modified.
"""
mm = self.slice3dVWR._module_manager
# part 2 is responsible for the implicit output
mm.modify_module(self.slice3dVWR, 2)
mm.request_auto_execute_network(self.slice3dVWR)
| [
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1,
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[
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0.0013,
0,
0.66... | [
"import gen_utils",
"from modules.viewers.slice3dVWRmodules.shared import s3dcGridMixin",
"import vtk",
"import wx",
"class implicitInfo:\n def __init__(self):\n self.name = None\n self.type = None\n self.widget = None\n self.bounds = None\n self.function = None",
" ... |
# dumy __init__ so this directory can function as a package
| [] | [] |
# dumy __init__ so this directory can function as a package
| [] | [] |
# dumy __init__ so this directory can function as a package
| [] | [] |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
import cStringIO
import vtk
from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor
import wx
# wxPython 2.8.8.1 wx.aui bugs severely on GTK. See:
# http://trac.wxwidgets.org/ticket/9716
# Until this is fixed, use this PyAUI to which I've added a
# wx.aui compatibility layer.
if wx.Platform == "__WXGTK__":
from external import PyAUI
wx.aui = PyAUI
else:
import wx.aui
# using Andrea Gavana's latest Python AUI:
#from external import aui
#wx.aui = aui
# this works fine on Windows. Have not been able to test on Linux
# whilst in Magdeburg.
import resources.python.comedi_frames
reload(resources.python.comedi_frames)
class CMIPane:
"""Class for anything that would like to populate the interface.
Each _create* method returns an instance of this class, populated
with the various required ivars.
"""
def __init__(self):
self.window = None
class CoMedIFrame(wx.Frame):
"""wx.Frame child class used by SkeletonAUIViewer for its
interface.
This is an AUI-managed window, so we create the top-level frame,
and then populate it with AUI panes.
"""
def __init__(self, parent, id=-1, title="", name=""):
wx.Frame.__init__(self, parent, id=id, title=title,
pos=wx.DefaultPosition, size=(1000,600), name=name)
self.menubar = wx.MenuBar()
self.SetMenuBar(self.menubar)
file_menu = wx.Menu()
self.id_file_open = wx.NewId()
file_menu.Append(self.id_file_open, "&Open\tCtrl-O",
"Open a file", wx.ITEM_NORMAL)
self.menubar.Append(file_menu, "&File")
###################################################################
camera_menu = wx.Menu()
self.id_camera_perspective = wx.NewId()
camera_menu.Append(self.id_camera_perspective, "&Perspective",
"Perspective projection mode", wx.ITEM_RADIO)
self.id_camera_parallel = wx.NewId()
camera_menu.Append(self.id_camera_parallel, "Pa&rallel",
"Parallel projection mode", wx.ITEM_RADIO)
camera_menu.AppendSeparator()
self.id_camera_xyzp = wx.NewId()
camera_menu.Append(self.id_camera_xyzp, "View XY from Z+",
"View XY plane face-on from Z+", wx.ITEM_NORMAL)
self.menubar.Append(camera_menu, "&Camera")
###################################################################
views_menu = wx.Menu()
self.id_views_synchronised = wx.NewId()
mi = views_menu.Append(self.id_views_synchronised, "&Synchronised",
"Toggle view synchronisation", wx.ITEM_CHECK)
mi.Check(True)
views_menu.AppendSeparator()
self.id_views_slice2 = wx.NewId()
mi = views_menu.Append(self.id_views_slice2, "Slice &2",
"Toggle slice 2", wx.ITEM_CHECK)
mi.Check(False)
self.id_views_slice3 = wx.NewId()
mi = views_menu.Append(self.id_views_slice3, "Slice &3",
"Toggle slice 3", wx.ITEM_CHECK)
mi.Check(False)
views_menu.AppendSeparator()
views_default_id = wx.NewId()
views_menu.Append(views_default_id, "&Default\tCtrl-0",
"Activate default view layout.", wx.ITEM_NORMAL)
views_max_image_id = wx.NewId()
views_menu.Append(views_max_image_id, "&Maximum image size\tCtrl-1",
"Activate maximum image view size layout.",
wx.ITEM_NORMAL)
self.menubar.Append(views_menu, "&Views")
adv_menu = wx.Menu()
self.id_adv_introspect = wx.NewId()
adv_menu.Append(self.id_adv_introspect, '&Introspect\tAlt-I',
'Introspect this CoMedI instance.', wx.ITEM_NORMAL)
self.menubar.Append(adv_menu, '&Advanced')
# tell FrameManager to manage this frame
self._mgr = wx.aui.AuiManager()
self._mgr.SetManagedWindow(self)
self.pane_controls = self._create_controls_pane()
self._mgr.AddPane(self.pane_controls.window, wx.aui.AuiPaneInfo().
Name("controls").Caption("Controls").
Left().Layer(2).
BestSize(wx.Size(500,800)).
CloseButton(False).MaximizeButton(True))
self.rwi_pane_data1 = self._create_rwi_pane()
self._mgr.AddPane(self.rwi_pane_data1.window, wx.aui.AuiPaneInfo().
Name("data1 rwi").Caption("Data 1").
Left().Position(0).Layer(1).
BestSize(wx.Size(500,400)).
CloseButton(False).MaximizeButton(True))
self.rwi_pane_data2 = self._create_rwi_pane()
self._mgr.AddPane(self.rwi_pane_data2.window, wx.aui.AuiPaneInfo().
Name("data2 rwi").Caption("Data 2").
Left().Position(1).Layer(1).
BestSize(wx.Size(500,400)).
CloseButton(False).MaximizeButton(True))
self.rwi_pane_compvis = self._create_rwi_pane()
self._mgr.AddPane(self.rwi_pane_compvis.window, wx.aui.AuiPaneInfo().
Name("compvis1 rwi").Caption("Main CompVis").
Center().
BestSize(wx.Size(800,800)).
CloseButton(False).MaximizeButton(True))
self.SetMinSize(wx.Size(400, 300))
# first we save this default perspective with all panes
# visible
self._perspectives = {}
self._perspectives['default'] = self._mgr.SavePerspective()
# then we hide all of the panes except the renderer
self._mgr.GetPane("series").Hide()
self._mgr.GetPane("files").Hide()
self._mgr.GetPane("meta").Hide()
# save the perspective again
self._perspectives['max_image'] = self._mgr.SavePerspective()
# and put back the default perspective / view
self._mgr.LoadPerspective(self._perspectives['default'])
# finally tell the AUI manager to do everything that we've
# asked
self._mgr.Update()
# we bind the views events here, because the functionality is
# completely encapsulated in the frame and does not need to
# round-trip to the DICOMBrowser main module.
self.Bind(wx.EVT_MENU, self._handler_default_view,
id=views_default_id)
self.Bind(wx.EVT_MENU, self._handler_max_image_view,
id=views_max_image_id)
def close(self):
for rwi_pane in self.get_rwi_panes():
self._close_rwi_pane(rwi_pane)
self.Destroy()
def _create_files_pane(self):
sl = wx.ListCtrl(self, -1,
style=wx.LC_REPORT)
sl.InsertColumn(0, "Full name")
# we'll autosize this column later
sl.SetColumnWidth(0, 300)
#sl.InsertColumn(SeriesColumns.modality, "Modality")
self.files_lc = sl
return sl
def _create_controls_pane(self):
f = resources.python.comedi_frames.CoMedIControlsFrame(self)
# reparent the panel to us
panel = f.main_panel
panel.Reparent(self)
# still need fpf.* to bind everything
# but we can destroy fpf (everything has been reparented)
f.Destroy()
panel.cursor_text = f.cursor_text
panel.data1_landmarks_olv = f.data1_landmarks_olv
panel.data2_landmarks_olv = f.data2_landmarks_olv
panel.lm_add_button = f.lm_add_button
panel.compare_button = f.compare_button
panel.update_compvis_button = f.update_compvis_button
panel.match_mode_notebook = f.match_mode_notebook
panel.comparison_mode_notebook = f.comparison_mode_notebook
panel.cm_checkerboard_divx = f.cm_checkerboard_divx
panel.cm_checkerboard_divy = f.cm_checkerboard_divy
panel.cm_checkerboard_divz = f.cm_checkerboard_divz
# ok, so this is easier and cleaner.
cm_diff_controls = [
'cm_diff_conf_thresh_txt',
'cm_diff_focus_target_choice',
'cm_diff_context_target_choice',
'cm_diff_cmap_choice',
'cm_diff_range0_text',
'cm_diff_range1_text',
'cm_diff_autorange_button'
]
for ivar in cm_diff_controls:
setattr(panel, ivar, getattr(f, ivar))
cmi_pane = CMIPane()
cmi_pane.window = panel
return cmi_pane
def _create_rwi_pane(self):
"""Return pane with renderer and buttons.
"""
panel = wx.Panel(self, -1)
rwi = wxVTKRenderWindowInteractor(panel, -1, (300,300))
if False:
self.button1 = wx.Button(panel, -1, "Add Superquadric")
self.button2 = wx.Button(panel, -1, "Reset Camera")
button_sizer = wx.BoxSizer(wx.HORIZONTAL)
button_sizer.Add(self.button1)
button_sizer.Add(self.button2)
sizer1 = wx.BoxSizer(wx.VERTICAL)
sizer1.Add(rwi, 1, wx.EXPAND|wx.BOTTOM, 7)
sizer1.Add(button_sizer)
tl_sizer = wx.BoxSizer(wx.VERTICAL)
tl_sizer.Add(rwi, 1, wx.ALL|wx.EXPAND, 7)
panel.SetSizer(tl_sizer)
tl_sizer.Fit(panel)
ren = vtk.vtkRenderer()
ren.SetBackground(0.5,0.5,0.5)
ren.SetBackground2(1,1,1)
ren.SetGradientBackground(1)
rwi.GetRenderWindow().AddRenderer(ren)
cmi_pane = CMIPane()
cmi_pane.window = panel
cmi_pane.renderer = ren
cmi_pane.rwi = rwi
return cmi_pane
def _close_rwi_pane(self, cmi_pane):
cmi_pane.renderer.RemoveAllViewProps()
cmi_pane.rwi.GetRenderWindow().Finalize()
cmi_pane.rwi.SetRenderWindow(None)
del cmi_pane.rwi
del cmi_pane.renderer # perhaps not...
def _create_meta_pane(self):
ml = wx.ListCtrl(self, -1,
style=wx.LC_REPORT |
wx.LC_HRULES | wx.LC_VRULES |
wx.LC_SINGLE_SEL)
ml.InsertColumn(0, "Key")
ml.SetColumnWidth(0, 70)
ml.InsertColumn(1, "Value")
ml.SetColumnWidth(1, 70)
self.meta_lc = ml
return ml
def _create_series_pane(self):
sl = wx.ListCtrl(self, -1,
style=wx.LC_REPORT | wx.LC_HRULES | wx.LC_SINGLE_SEL,
size=(600,120))
sl.InsertColumn(0, "Description")
sl.SetColumnWidth(1, 170)
sl.InsertColumn(2, "Modality")
sl.InsertColumn(3, "# Images")
sl.InsertColumn(4, "Size")
self.series_lc = sl
return sl
def get_rwi_panes(self):
return [self.rwi_pane_data1,
self.rwi_pane_data2,
self.rwi_pane_compvis]
def get_rwis(self):
return [rwi_pane.rwi for rwi_pane in self.get_rwi_panes()]
def render_all(self):
"""Update embedded RWI, i.e. update the image.
"""
for rwi in self.get_rwis():
rwi.Render()
def set_cam_parallel(self):
"""Set check next to "parallel" menu item.
"""
mi = self.menubar.FindItemById(self.id_camera_parallel)
mi.Check(True)
def set_cam_perspective(self):
"""Set check next to "perspective" menu item.
"""
mi = self.menubar.FindItemById(self.id_camera_perspective)
mi.Check(True)
def _handler_default_view(self, event):
"""Event handler for when the user selects View | Default from
the main menu.
"""
self._mgr.LoadPerspective(
self._perspectives['default'])
def _handler_max_image_view(self, event):
"""Event handler for when the user selects View | Max Image
from the main menu.
"""
self._mgr.LoadPerspective(
self._perspectives['max_image'])
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"import cStringIO",
"import vtk",
"from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor",
"import wx",
"if wx.Platform == \"__WXGTK__\":\n from external import PyAUI\n wx.aui = PyAUI\nelse:\n import wx.aui",
" from external import PyAUI",
" wx.aui = PyAUI",
" im... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
import cStringIO
from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor
import wx
# wxPython 2.8.8.1 wx.aui bugs severely on GTK. See:
# http://trac.wxwidgets.org/ticket/9716
# Until this is fixed, use this PyAUI to which I've added a
# wx.aui compatibility layer.
if wx.Platform == "__WXGTK__":
from external import PyAUI
wx.aui = PyAUI
else:
import wx.aui
# need listmix.ColumnSorterMixin
import wx.lib.mixins.listctrl as listmix
from wx import BitmapFromImage, ImageFromStream
from resources.python import DICOMBrowserPanels
reload(DICOMBrowserPanels)
class StudyColumns:
patient = 0
patient_id = 1
description = 2
date = 3
num_images = 4
num_series = 5
class SeriesColumns:
description = 0
modality = 1
num_images = 2
row_col = 3
class FilesColumns:
name = 0
#----------------------------------------------------------------------
def getSmallUpArrowData():
return \
'\x89PNG\r\n\x1a\n\x00\x00\x00\rIHDR\x00\x00\x00\x10\x00\x00\x00\x10\x08\x06\
\x00\x00\x00\x1f\xf3\xffa\x00\x00\x00\x04sBIT\x08\x08\x08\x08|\x08d\x88\x00\
\x00\x00<IDAT8\x8dcddbf\xa0\x040Q\xa4{h\x18\xf0\xff\xdf\xdf\xffd\x1b\x00\xd3\
\x8c\xcf\x10\x9c\x06\xa0k\xc2e\x08m\xc2\x00\x97m\xd8\xc41\x0c \x14h\xe8\xf2\
\x8c\xa3)q\x10\x18\x00\x00R\xd8#\xec\xb2\xcd\xc1Y\x00\x00\x00\x00IEND\xaeB`\
\x82'
def getSmallUpArrowBitmap():
return BitmapFromImage(getSmallUpArrowImage())
def getSmallUpArrowImage():
stream = cStringIO.StringIO(getSmallUpArrowData())
return ImageFromStream(stream)
#----------------------------------------------------------------------
def getSmallDnArrowData():
return \
"\x89PNG\r\n\x1a\n\x00\x00\x00\rIHDR\x00\x00\x00\x10\x00\x00\x00\x10\x08\x06\
\x00\x00\x00\x1f\xf3\xffa\x00\x00\x00\x04sBIT\x08\x08\x08\x08|\x08d\x88\x00\
\x00\x00HIDAT8\x8dcddbf\xa0\x040Q\xa4{\xd4\x00\x06\x06\x06\x06\x06\x16t\x81\
\xff\xff\xfe\xfe'\xa4\x89\x91\x89\x99\x11\xa7\x0b\x90%\ti\xc6j\x00>C\xb0\x89\
\xd3.\x10\xd1m\xc3\xe5*\xbc.\x80i\xc2\x17.\x8c\xa3y\x81\x01\x00\xa1\x0e\x04e\
?\x84B\xef\x00\x00\x00\x00IEND\xaeB`\x82"
def getSmallDnArrowBitmap():
return BitmapFromImage(getSmallDnArrowImage())
def getSmallDnArrowImage():
stream = cStringIO.StringIO(getSmallDnArrowData())
return ImageFromStream(stream)
#----------------------------------------------------------------------
class SortedListCtrl(wx.ListCtrl, listmix.ColumnSorterMixin):
def __init__(self, parent, ID, pos=wx.DefaultPosition,
size=wx.DefaultSize, style=0):
wx.ListCtrl.__init__(self, parent, ID, pos, size, style)
# for the ColumnSorterMixin: this should be a dict mapping
# from item data values to sequence of values for the columns.
# These values will be used for sorting
self.itemDataMap = {}
self.il = wx.ImageList(16, 16)
self.sm_up = self.il.Add(getSmallUpArrowBitmap())
self.sm_dn = self.il.Add(getSmallDnArrowBitmap())
self.SetImageList(self.il, wx.IMAGE_LIST_SMALL)
listmix.ColumnSorterMixin.__init__(self, 5)
def GetListCtrl(self):
"""Method required by ColumnSorterMixin.
"""
return self
def GetSortImages(self):
"""Used by the ColumnSorterMixin.
"""
return (self.sm_dn, self.sm_up)
def auto_size_columns(self):
for idx in range(self.GetColumnCount()):
self.SetColumnWidth(idx, wx.LIST_AUTOSIZE)
class SortedAutoWidthListCtrl(listmix.ListCtrlAutoWidthMixin, SortedListCtrl):
def __init__(self, parent, ID, pos=wx.DefaultPosition,
size=wx.DefaultSize, style=0):
SortedListCtrl.__init__(self, parent, ID, pos, size, style)
listmix.ListCtrlAutoWidthMixin.__init__(self)
class DICOMBrowserFrame(wx.Frame):
def __init__(self, parent, id=-1, title="", name=""):
wx.Frame.__init__(self, parent, id=id, title=title,
pos=wx.DefaultPosition, size=(800,800), name=name)
self.menubar = wx.MenuBar()
self.SetMenuBar(self.menubar)
nav_menu = wx.Menu()
self.id_next_image = wx.NewId()
nav_menu.Append(self.id_next_image, "&Next image\tCtrl-N",
"Go to next image in series", wx.ITEM_NORMAL)
self.id_prev_image = wx.NewId()
nav_menu.Append(self.id_prev_image, "&Previous image\tCtrl-P",
"Go to previous image in series", wx.ITEM_NORMAL)
self.menubar.Append(nav_menu, "&Navigation")
views_menu = wx.Menu()
views_default_id = wx.NewId()
views_menu.Append(views_default_id, "&Default\tCtrl-0",
"Activate default view layout.", wx.ITEM_NORMAL)
views_max_image_id = wx.NewId()
views_menu.Append(views_max_image_id, "&Maximum image size\tCtrl-1",
"Activate maximum image view size layout.",
wx.ITEM_NORMAL)
self.menubar.Append(views_menu, "&Views")
# tell FrameManager to manage this frame
self._mgr = wx.aui.AuiManager()
self._mgr.SetManagedWindow(self)
self._mgr.AddPane(self._create_dirs_pane(), wx.aui.AuiPaneInfo().
Name("dirs").
Caption("Files and Directories to Scan").
Top().Row(0).
Top().
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_studies_pane(), wx.aui.AuiPaneInfo().
Name("studies").Caption("Studies").
Top().Row(1).
BestSize(wx.Size(600, 100)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_series_pane(), wx.aui.AuiPaneInfo().
Name("series").Caption("Series").Top().Row(2).
BestSize(wx.Size(600, 100)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_files_pane(), wx.aui.AuiPaneInfo().
Name("files").Caption("Image Files").
Left().
BestSize(wx.Size(200,400)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_meta_pane(), wx.aui.AuiPaneInfo().
Name("meta").Caption("Image Metadata").
Left().
BestSize(wx.Size(200,400)).
CloseButton(False).MaximizeButton(True))
self._mgr.AddPane(self._create_image_pane(), wx.aui.AuiPaneInfo().
Name("image").Caption("Image").
Center().
BestSize(wx.Size(400,400)).
CloseButton(False).MaximizeButton(True))
self.SetMinSize(wx.Size(400, 300))
self._perspectives = {}
self._perspectives['default'] = self._mgr.SavePerspective()
self._mgr.GetPane("dirs").Hide()
self._mgr.GetPane("studies").Hide()
self._mgr.GetPane("series").Hide()
self._mgr.GetPane("files").Hide()
self._mgr.GetPane("meta").Hide()
self._perspectives['max_image'] = self._mgr.SavePerspective()
self._mgr.LoadPerspective(self._perspectives['default'])
self._mgr.Update()
# we bind the views events here, because the functionality is
# completely encapsulated in the frame and does not need to
# round-trip to the DICOMBrowser main module.
self.Bind(wx.EVT_MENU, lambda e: self._mgr.LoadPerspective(
self._perspectives['default']), id=views_default_id)
self.Bind(wx.EVT_MENU, lambda e: self._mgr.LoadPerspective(
self._perspectives['max_image']), id=views_max_image_id)
def close(self):
del self.dirs_pane
del self.studies_lc
del self.series_lc
del self.files_lc
del self.files_pane
self.Destroy()
def _create_dirs_pane(self):
# instantiate the wxGlade-created frame
fpf = DICOMBrowserPanels.FilesPanelFrame(self, id=-1,
size=(200, 150))
# reparent the panel to us
panel = fpf.files_panel
panel.Reparent(self)
# still need fpf.* to bind everything
# but we can destroy fpf (everything has been reparented)
fpf.Destroy()
panel.ad_button = fpf.ad_button
panel.af_button = fpf.af_button
panel.scan_button = fpf.scan_button
panel.dirs_files_tc = fpf.dirs_files_tc
self.dirs_pane = panel
return panel
def _create_files_pane(self):
# instantiated wxGlade frame
iff = DICOMBrowserPanels.ImageFilesFrame(self, id=-1,
size=(400,300))
panel = iff.files_panel
# reparent the panel to us
panel.Reparent(self)
iff.Destroy()
panel.ipp_sort_button = iff.ipp_sort_button
sl = iff.files_lc
sl.InsertColumn(FilesColumns.name, "Full name")
# we'll autosize this column later
sl.SetColumnWidth(FilesColumns.name, 300)
#sl.InsertColumn(SeriesColumns.modality, "Modality")
self.files_lc = sl
self.files_pane = panel
return panel
def _create_image_pane(self):
# instantiate the wxGlade-created frame
ipf = DICOMBrowserPanels.ImagePanelFrame(self, id=-1,
size=(400, 300))
# reparent the panel to us
panel = ipf.image_panel
panel.Reparent(self)
# still need fpf.* to bind everything
# but we can destroy fpf (everything has been reparented)
ipf.Destroy()
panel.rwi = ipf.rwi
panel.lock_pz_cb = ipf.lock_pz_cb
panel.lock_wl_cb = ipf.lock_wl_cb
panel.reset_b = ipf.reset_b
self.image_pane = panel
return panel
def _create_meta_pane(self):
ml = SortedAutoWidthListCtrl(self, -1,
style=wx.LC_REPORT |
wx.LC_HRULES | wx.LC_VRULES |
wx.LC_SINGLE_SEL)
ml.InsertColumn(0, "Key")
ml.SetColumnWidth(0, 70)
ml.InsertColumn(1, "Value")
ml.SetColumnWidth(1, 70)
self.meta_lc = ml
return ml
def _create_studies_pane(self):
sl = SortedAutoWidthListCtrl(self, -1,
style=wx.LC_REPORT |
wx.LC_HRULES |
wx.LC_SINGLE_SEL)
sl.InsertColumn(StudyColumns.patient, "Patient")
sl.SetColumnWidth(StudyColumns.patient, 170)
sl.InsertColumn(StudyColumns.patient_id, "Patient ID")
sl.SetColumnWidth(StudyColumns.patient_id, 100)
sl.InsertColumn(StudyColumns.description, "Description")
sl.SetColumnWidth(StudyColumns.description, 170)
sl.InsertColumn(StudyColumns.date, "Date") # study date
sl.SetColumnWidth(StudyColumns.date, 70)
# total number of images
sl.InsertColumn(StudyColumns.num_images, "# Images")
sl.InsertColumn(StudyColumns.num_series, "# Series")
self.studies_lc = sl
return sl
def _create_series_pane(self):
sl = SortedAutoWidthListCtrl(self, -1,
style=wx.LC_REPORT | wx.LC_HRULES | wx.LC_SINGLE_SEL,
size=(600,120))
sl.InsertColumn(SeriesColumns.description, "Description")
sl.SetColumnWidth(SeriesColumns.description, 170)
sl.InsertColumn(SeriesColumns.modality, "Modality")
sl.InsertColumn(SeriesColumns.num_images, "# Images")
sl.InsertColumn(SeriesColumns.row_col, "Size")
self.series_lc = sl
return sl
def render_image(self):
"""Update embedded RWI, i.e. update the image.
"""
self.image_pane.rwi.Render()
def set_default_view(self):
self._mgr.LoadPerspective(
self._perspectives['default'])
| [
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"import cStringIO",
"from vtk.wx.wxVTKRenderWindowInteractor import wxVTKRenderWindowInteractor",
"import wx",
"if wx.Platform == \"__WXGTK__\":\n from external import PyAUI\n wx.aui = PyAUI\nelse:\n import wx.aui",
" from external import PyAUI",
" wx.aui = PyAUI",
" import wx.aui",
... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
# NOTES:
# you can't put the RWI in a StaticBox, it never manages to appear.
# mode: add / subtract
# tool: new region growing, level set (with existing mask), draw
# closed polygon, delete
# ARGH. region growing results in bitmask, but polyline and level set
# require a more accurate representation.
# http://www.nabble.com/vtkContourWidget-with-vtkImageViewer2-td18485627.html
# has more information on how to use the vtkContourWidget
# MITK does segmentation on all three orthogonal directions. For more
# info: http://www.mitk.org/slicebasedsegmentation.html
# to scan convert polygon, you could use: vtkPolyDataToImageStencil
# see the example linked to in the VTK documentation (should be the
# same as the ImageTracerWidget example)
# I checked the documentation, it SHOULD work for 2D as well.
# NBNBNB
# think about having bitmaps as the primary storage (or stencils)
# you also start with a regiongrowing (for example)
# can always convert to polygon to do stuff there, convert back
# add mode, subtract mode, current object, delete (like MITK)
# also list of objects with checkboxes for vis and buttons to change
# colour
# snake still missing
# general requirements:
# * multiple objects (i.e. multiple coloured contours per slice)
# slice segmentation modes:
# * polygon mode
# * freehand drawing
# * 2d levelset
# see design notes on p39 of AM2 moleskine
# mask volume import! (user clicks import, gets to select from which
# input) - mask volume is contoured.
# add reset image button just like the DICOMBrowser
# mouse wheel should go to next/previous slice
from module_base import ModuleBase
from module_mixins import IntrospectModuleMixin
import module_utils
import vtk
import wx
class Contour:
pass
class Object:
pass
class Slicinator(IntrospectModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# internal variables
# config variables
self._config.somevar = 3
self._view_frame = None
self._create_view_frame()
self._create_vtk_pipeline()
# dummy input has been set by create_vtk_pipeline, we this
# ivar we record that we are not connected.
self._input_data = None
self._bind_events()
self.view()
# all modules should toggle this once they have shown their
# stuff.
self.view_initialised = True
self.config_to_logic()
self.logic_to_config()
self.config_to_view()
def close(self):
# with this complicated de-init, we make sure that VTK is
# properly taken care of
self._image_viewer.GetRenderer().RemoveAllViewProps()
self._image_viewer.SetupInteractor(None)
self._image_viewer.SetRenderer(None)
# this finalize makes sure we don't get any strange X
# errors when we kill the module.
self._image_viewer.GetRenderWindow().Finalize()
self._image_viewer.SetRenderWindow(None)
self._image_viewer.DebugOn()
del self._image_viewer
# done with VTK de-init
self._view_frame.Destroy()
del self._view_frame
IntrospectModuleMixin.close(self)
ModuleBase.close(self)
def execute_module(self):
pass
def get_input_descriptions(self):
return ('Input VTK image data',)
def set_input(self, idx, input_data):
if input_data == self._input_data:
return
# handle disconnects
if input_data is None:
self._input_data = None
self._set_image_viewer_dummy_input()
else:
# try and link this up
# method will throw an exception if not valid
self._set_image_viewer_input(input_data)
# if we get here, connection was successful
self._input_data = input_data
def get_output_descriptions(self):
return ()
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def config_to_view(self):
pass
def view_to_config(self):
pass
def view(self):
self._view_frame.Show()
self._view_frame.Raise()
# because we have an RWI involved, we have to do this
# SafeYield, so that the window does actually appear before we
# call the render. If we don't do this, we get an initial
# empty renderwindow.
wx.SafeYield()
self._render()
# end of API calls
def _bind_events(self):
self._view_frame.reset_image_button.Bind(
wx.EVT_BUTTON, self._handler_reset_image_button)
def _create_view_frame(self):
import resources.python.slicinator_frames
reload(resources.python.slicinator_frames)
self._view_frame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
resources.python.slicinator_frames.SlicinatorFrame)
vf = self._view_frame
def _create_vtk_pipeline(self):
if False:
vf = self._view_frame
ren = vtk.vtkRenderer()
vf.rwi.GetRenderWindow().AddRenderer(ren)
else:
self._image_viewer = vtk.vtkImageViewer2()
self._image_viewer.SetupInteractor(self._view_frame.rwi)
self._image_viewer.GetRenderer().SetBackground(0.3,0.3,0.3)
self._set_image_viewer_dummy_input()
def _handler_reset_image_button(self, event):
self._reset_image()
def _init_cw(self):
self._cw = vtk.vtkContourWidget()
rep = vtk.vtkOrientedGlyphContourRepresentation()
self._cw.SetRepresentation(rep)
iapp = vtk.vtkImageActorPointPlacer()
iapp.SetImageActor(self._image_viewer.GetImageActor())
rep.SetPointPlacer(iapp)
self._cw.SetInteractor(self._view_frame.rwi)
self._cw.On()
def _render(self):
self._image_viewer.Render()
#self._view_frame.rwi.Render()
def _reset_image(self):
self._reset_image_wl()
self._reset_image_pz()
self._render()
def _reset_image_pz(self):
"""Reset the pan/zoom of the current image.
"""
ren = self._image_viewer.GetRenderer()
ren.ResetCamera()
def _reset_image_wl(self):
"""Reset the window/level of the current image.
This assumes that the image has already been read and that it
has a valid scalar range.
"""
iv = self._image_viewer
inp = iv.GetInput()
if inp:
r = inp.GetScalarRange()
iv.SetColorWindow(r[1] - r[0])
iv.SetColorLevel(0.5 * (r[1] + r[0]))
def _set_image_viewer_dummy_input(self):
ds = vtk.vtkImageGridSource()
self._image_viewer.SetInput(ds.GetOutput())
def _set_image_viewer_input(self, input_data):
try:
if not input_data.IsA('vtkImageData'):
raise RuntimeError('Invalid input data.')
except AttributeError:
raise RuntimeError('Invalid input data.')
self._image_viewer.SetInput(input_data)
# module.set_input() only gets called right before an
# execute_module, so we can do our thing here.
self._reset_image()
we = input_data.GetWholeExtent()
min,max = we[4], we[5]
self._reset_slice_spin(min, min, max)
def _reset_slice_spin(self, val, min, max):
self._view_frame.slice_spin.SetValue(val)
self._view_frame.slice_spin.SetRange(min,max)
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"from module_base import ModuleBase",
"from module_mixins import IntrospectModuleMixin",
"import module_utils",
"import vtk",
"import wx",
"class Contour:\n pass",
"class Object:\n pass",
"class Slicinator(IntrospectModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n Modu... |
# Copyright (c) Charl P. Botha, TU Delft.
# All rights reserved.
# See COPYRIGHT for details.
from module_kits.vtk_kit.utils import DVOrientationWidget
import operator
import vtk
import wx
class SyncSliceViewers:
"""Class to link a number of CMSliceViewer instances w.r.t.
camera.
FIXME: consider adding option to block certain slice viewers from
participation. Is this better than just removing them?
"""
def __init__(self):
# store all slice viewer instances that are being synced
self.slice_viewers = []
self.observer_tags = {}
# if set to False, no syncing is done.
# user is responsible for doing the initial sync with sync_all
# after this variable is toggled from False to True
self.sync = True
def add_slice_viewer(self, slice_viewer):
if slice_viewer in self.slice_viewers:
return
# we'll use this to store all observer tags for this
# slice_viewer
t = self.observer_tags[slice_viewer] = {}
istyle = slice_viewer.rwi.GetInteractorStyle()
# the following two observers are workarounds for a bug in VTK
# the interactorstyle does NOT invoke an InteractionEvent at
# mousewheel, so we make sure it does in our workaround
# observers.
t['istyle MouseWheelForwardEvent'] = \
istyle.AddObserver('MouseWheelForwardEvent',
self._observer_mousewheel_forward)
t['istyle MouseWheelBackwardEvent'] = \
istyle.AddObserver('MouseWheelBackwardEvent',
self._observer_mousewheel_backward)
# this one only gets called for camera interaction (of course)
t['istyle InteractionEvent'] = \
istyle.AddObserver('InteractionEvent',
lambda o,e: self._observer_camera(slice_viewer))
# this gets call for all interaction with the slice
# (cursoring, slice pushing, perhaps WL)
for idx in range(3):
# note the i=idx in the lambda expression. This is
# because that gets evaluated at define time, whilst the
# body of the lambda expression gets evaluated at
# call-time
t['ipw%d InteractionEvent' % (idx,)] = \
slice_viewer.ipws[idx].AddObserver('InteractionEvent',
lambda o,e,i=idx: self._observer_ipw(slice_viewer, i))
t['ipw%d WindowLevelEvent' % (idx,)] = \
slice_viewer.ipws[idx].AddObserver('WindowLevelEvent',
lambda o,e,i=idx: self._observer_window_level(slice_viewer,i))
self.slice_viewers.append(slice_viewer)
def close(self):
for sv in self.slice_viewers:
self.remove_slice_viewer(sv)
def _observer_camera(self, sv):
"""This observer will keep the cameras of all the
participating slice viewers synched.
It's only called when the camera is moved.
"""
if not self.sync:
return
cc = self.sync_cameras(sv)
[sv.render() for sv in cc]
def _observer_mousewheel_forward(self, vtk_o, vtk_e):
vtk_o.OnMouseWheelForward()
vtk_o.InvokeEvent('InteractionEvent')
def _observer_mousewheel_backward(self, vtk_o, vtk_e):
vtk_o.OnMouseWheelBackward()
vtk_o.InvokeEvent('InteractionEvent')
def _observer_ipw(self, slice_viewer, idx=0):
"""This is called whenever the user does ANYTHING with the
IPW.
"""
if not self.sync:
return
cc = self.sync_ipws(slice_viewer, idx)
[sv.render() for sv in cc]
def _observer_window_level(self, slice_viewer, idx=0):
"""This is called whenever the window/level is changed. We
don't have to render, because the SetWindowLevel() call does
that already.
"""
if not self.sync:
return
self.sync_window_level(slice_viewer, idx)
def remove_slice_viewer(self, slice_viewer):
if slice_viewer in self.slice_viewers:
# first remove all observers that we might have added
t = self.observer_tags[slice_viewer]
istyle = slice_viewer.rwi.GetInteractorStyle()
istyle.RemoveObserver(
t['istyle InteractionEvent'])
istyle.RemoveObserver(
t['istyle MouseWheelForwardEvent'])
istyle.RemoveObserver(
t['istyle MouseWheelBackwardEvent'])
for idx in range(3):
ipw = slice_viewer.ipws[idx]
ipw.RemoveObserver(
t['ipw%d InteractionEvent' % (idx,)])
ipw.RemoveObserver(
t['ipw%d WindowLevelEvent' % (idx,)])
# then delete our record of these observer tags
del self.observer_tags[slice_viewer]
# then delete our record of the slice_viewer altogether
idx = self.slice_viewers.index(slice_viewer)
del self.slice_viewers[idx]
def sync_cameras(self, sv, dest_svs=None):
"""Sync all cameras to that of sv.
Returns a list of changed SVs (so that you know which ones to
render).
"""
cam = sv.renderer.GetActiveCamera()
pos = cam.GetPosition()
fp = cam.GetFocalPoint()
vu = cam.GetViewUp()
ps = cam.GetParallelScale()
if dest_svs is None:
dest_svs = self.slice_viewers
changed_svs = []
for other_sv in dest_svs:
if not other_sv is sv:
other_ren = other_sv.renderer
other_cam = other_ren.GetActiveCamera()
other_cam.SetPosition(pos)
other_cam.SetFocalPoint(fp)
other_cam.SetViewUp(vu)
# you need this too, else the parallel mode does not
# synchronise.
other_cam.SetParallelScale(ps)
other_ren.UpdateLightsGeometryToFollowCamera()
other_ren.ResetCameraClippingRange()
changed_svs.append(other_sv)
return changed_svs
def sync_ipws(self, sv, idx=0, dest_svs=None):
"""Sync all slice positions to that of sv.
Returns a list of cahnged SVs so that you know on which to
call render.
"""
ipw = sv.ipws[idx]
o,p1,p2 = ipw.GetOrigin(), \
ipw.GetPoint1(), ipw.GetPoint2()
if dest_svs is None:
dest_svs = self.slice_viewers
changed_svs = []
for other_sv in dest_svs:
if other_sv is not sv:
other_ipw = other_sv.ipws[idx]
# we only synchronise slice position if it's actually
# changed.
if o != other_ipw.GetOrigin() or \
p1 != other_ipw.GetPoint1() or \
p2 != other_ipw.GetPoint2():
other_ipw.SetOrigin(o)
other_ipw.SetPoint1(p1)
other_ipw.SetPoint2(p2)
other_ipw.UpdatePlacement()
changed_svs.append(other_sv)
return changed_svs
def sync_window_level(self, sv, idx=0, dest_svs=None):
"""Sync all window level settings with that of SV.
Returns list of changed SVs: due to the SetWindowLevel call,
these have already been rendered!
"""
ipw = sv.ipws[idx]
w,l = ipw.GetWindow(), ipw.GetLevel()
if dest_svs is None:
dest_svs = self.slice_viewers
changed_svs = []
for other_sv in dest_svs:
if other_sv is not sv:
other_ipw = other_sv.ipws[idx]
if w != other_ipw.GetWindow() or \
l != other_ipw.GetLevel():
other_ipw.SetWindowLevel(w,l,0)
changed_svs.append(other_sv)
return changed_svs
def sync_all(self, sv, dest_svs=None):
"""Convenience function that performs all syncing possible of
dest_svs to sv. It also take care of making only the
necessary render calls.
"""
# FIXME: take into account all other slices too.
c1 = set(self.sync_cameras(sv, dest_svs))
c2 = set(self.sync_ipws(sv, 0, dest_svs))
c3 = set(self.sync_window_level(sv, 0, dest_svs))
# we only need to call render on SVs that are in c1 or c2, but
# NOT in c3, because WindowLevel syncing already does a
# render. Use set operations for this:
c4 = (c1 | c2) - c3
[isv.render() for isv in c4]
###########################################################################
class CMSliceViewer:
"""Simple class for enabling 1 or 3 ortho slices in a 3D scene.
"""
def __init__(self, rwi, renderer):
self.rwi = rwi
self.renderer = renderer
istyle = vtk.vtkInteractorStyleTrackballCamera()
rwi.SetInteractorStyle(istyle)
# we unbind the existing mousewheel handler so it doesn't
# interfere
rwi.Unbind(wx.EVT_MOUSEWHEEL)
rwi.Bind(wx.EVT_MOUSEWHEEL, self._handler_mousewheel)
self.ipws = [vtk.vtkImagePlaneWidget() for _ in range(3)]
lut = self.ipws[0].GetLookupTable()
for ipw in self.ipws:
ipw.SetInteractor(rwi)
ipw.SetLookupTable(lut)
# we only set the picker on the visible IPW, else the
# invisible IPWs block picking!
self.picker = vtk.vtkCellPicker()
self.picker.SetTolerance(0.005)
self.ipws[0].SetPicker(self.picker)
self.outline_source = vtk.vtkOutlineCornerFilter()
m = vtk.vtkPolyDataMapper()
m.SetInput(self.outline_source.GetOutput())
a = vtk.vtkActor()
a.SetMapper(m)
a.PickableOff()
self.outline_actor = a
self.dv_orientation_widget = DVOrientationWidget(rwi)
# this can be used by clients to store the current world
# position
self.current_world_pos = (0,0,0)
self.current_index_pos = (0,0,0)
def close(self):
self.set_input(None)
self.dv_orientation_widget.close()
def activate_slice(self, idx):
if idx in [1,2]:
self.ipws[idx].SetEnabled(1)
self.ipws[idx].SetPicker(self.picker)
def deactivate_slice(self, idx):
if idx in [1,2]:
self.ipws[idx].SetEnabled(0)
self.ipws[idx].SetPicker(None)
def get_input(self):
return self.ipws[0].GetInput()
def get_world_pos(self, image_pos):
"""Given image coordinates, return the corresponding world
position.
"""
idata = self.get_input()
if not idata:
return None
ispacing = idata.GetSpacing()
iorigin = idata.GetOrigin()
# calculate real coords
world = map(operator.add, iorigin,
map(operator.mul, ispacing, image_pos[0:3]))
return world
def set_perspective(self):
cam = self.renderer.GetActiveCamera()
cam.ParallelProjectionOff()
def set_parallel(self):
cam = self.renderer.GetActiveCamera()
cam.ParallelProjectionOn()
def _handler_mousewheel(self, event):
# event.GetWheelRotation() is + or - 120 depending on
# direction of turning.
if event.ControlDown():
delta = 10
elif event.ShiftDown():
delta = 1
else:
# if user is NOT doing shift / control, we pass on to the
# default handling which will give control to the VTK
# mousewheel handlers.
self.rwi.OnMouseWheel(event)
return
if event.GetWheelRotation() > 0:
self._ipw1_delta_slice(+delta)
else:
self._ipw1_delta_slice(-delta)
self.render()
self.ipws[0].InvokeEvent('InteractionEvent')
def _ipw1_delta_slice(self, delta):
"""Move to the delta slices fw/bw, IF the IPW is currently
aligned with one of the axes.
"""
ipw = self.ipws[0]
if ipw.GetPlaneOrientation() < 3:
ci = ipw.GetSliceIndex()
ipw.SetSliceIndex(ci + delta)
def render(self):
self.rwi.GetRenderWindow().Render()
def reset_camera(self):
self.renderer.ResetCamera()
def reset_to_default_view(self, view_index):
"""
@param view_index 2 for XY
"""
if view_index == 2:
cam = self.renderer.GetActiveCamera()
# then make sure it's up is the right way
cam.SetViewUp(0,1,0)
# just set the X,Y of the camera equal to the X,Y of the
# focal point.
fp = cam.GetFocalPoint()
cp = cam.GetPosition()
if cp[2] < fp[2]:
z = fp[2] + (fp[2] - cp[2])
else:
z = cp[2]
cam.SetPosition(fp[0], fp[1], z)
# first reset the camera
self.renderer.ResetCamera()
self.render()
def set_input(self, input):
ipw = self.ipws[0]
if input == ipw.GetInput():
return
if input is None:
# remove outline actor, else this will cause errors when
# we disable the IPWs (they call a render!)
self.renderer.RemoveViewProp(self.outline_actor)
self.outline_source.SetInput(None)
self.dv_orientation_widget.set_input(None)
for ipw in self.ipws:
# argh, this disable causes a render
ipw.SetEnabled(0)
ipw.SetInput(None)
else:
self.outline_source.SetInput(input)
self.renderer.AddViewProp(self.outline_actor)
orientations = [2, 0, 1]
active = [1, 0, 0]
for i, ipw in enumerate(self.ipws):
ipw.SetInput(input)
ipw.SetPlaneOrientation(orientations[i]) # axial
ipw.SetSliceIndex(0)
ipw.SetEnabled(active[i])
self.dv_orientation_widget.set_input(input)
| [
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1,
0,
0,
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0,
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],
[
1,
0,
0.0161,
0.0023,
0,
0.6... | [
"from module_kits.vtk_kit.utils import DVOrientationWidget",
"import operator",
"import vtk",
"import wx",
"class SyncSliceViewers:\n \"\"\"Class to link a number of CMSliceViewer instances w.r.t.\n camera.\n\n FIXME: consider adding option to block certain slice viewers from\n participation. I... |
# $Id: vtpWRT.py 2401 2006-12-20 20:29:15Z cpbotha $
from module_base import ModuleBase
from module_mixins import FilenameViewModuleMixin
import module_utils
import types
class MatlabPointsWriter(FilenameViewModuleMixin, ModuleBase):
def __init__(self, module_manager):
# call parent constructor
ModuleBase.__init__(self, module_manager)
# ctor for this specific mixin
FilenameViewModuleMixin.__init__(
self,
'Select a filename',
'MATLAB file (*.m)|*.m|All files (*)|*',
{'Module (self)': self},
fileOpen=False)
# set up some defaults
self._config.filename = ''
self._input_points = None
self.sync_module_logic_with_config()
def close(self):
# we should disconnect all inputs
self.set_input(0, None)
FilenameViewModuleMixin.close(self)
def get_input_descriptions(self):
return ('DeVIDE points',)
def set_input(self, idx, input_stream):
self._input_points = input_stream
def get_output_descriptions(self):
return ()
def get_output(self, idx):
raise Exception
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
self._config.filename = self._getViewFrameFilename()
def config_to_view(self):
self._setViewFrameFilename(self._config.filename)
def execute_module(self):
if self._input_points and hasattr(self._input_points, 'devideType') \
and self._input_points.devideType == 'namedPoints' \
and self._config.filename:
fh = file(self._config.filename, 'w')
for p in self._input_points:
tup = (p['name'],) + tuple(p['world'])
fh.write('%s = [%f %f %f];\n' % tup)
fh.close()
| [
[
1,
0,
0.0435,
0.0145,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.058,
0.0145,
0,
0.66,
0.25,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0725,
0.0145,
0,
0.6... | [
"from module_base import ModuleBase",
"from module_mixins import FilenameViewModuleMixin",
"import module_utils",
"import types",
"class MatlabPointsWriter(FilenameViewModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n\n # call parent constructor\n ModuleBase.__init__(self, m... |
# $Id: vtpWRT.py 2401 2006-12-20 20:29:15Z cpbotha $
from module_base import ModuleBase
from module_mixins import FilenameViewModuleMixin
import module_utils
import types
class points_writer(FilenameViewModuleMixin, ModuleBase):
def __init__(self, module_manager):
# call parent constructor
ModuleBase.__init__(self, module_manager)
# ctor for this specific mixin
FilenameViewModuleMixin.__init__(
self,
'Select a filename',
'DeVIDE points (*.dvp)|*.dvp|All files (*)|*',
{'Module (self)': self},
fileOpen=False)
# set up some defaults
self._config.filename = ''
self._input_points = None
self.sync_module_logic_with_config()
def close(self):
# we should disconnect all inputs
self.set_input(0, None)
FilenameViewModuleMixin.close(self)
def get_input_descriptions(self):
return ('DeVIDE points',)
def set_input(self, idx, input_stream):
self._input_points = input_stream
def get_output_descriptions(self):
return ()
def get_output(self, idx):
raise Exception
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
self._config.filename = self._getViewFrameFilename()
def config_to_view(self):
self._setViewFrameFilename(self._config.filename)
def execute_module(self):
if self._input_points and hasattr(self._input_points, 'devideType') \
and self._input_points.devideType == 'namedPoints' \
and self._config.filename:
fh = file(self._config.filename, 'w')
fh.write(str(self._input_points))
fh.close()
| [
[
1,
0,
0.0462,
0.0154,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0615,
0.0154,
0,
0.66,
0.25,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0769,
0.0154,
0,
0.... | [
"from module_base import ModuleBase",
"from module_mixins import FilenameViewModuleMixin",
"import module_utils",
"import types",
"class points_writer(FilenameViewModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n\n # call parent constructor\n ModuleBase.__init__(self, module... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
# Random development notes:
# * SetFileDimensionality(2) if you want multiple slices written from
# a single volume
# * just generate im%05d.dcm filenames, as many as there are slices
# * study / series UIDs are auto generated
from module_base import ModuleBase
from module_mixins import \
ScriptedConfigModuleMixin
import module_utils
import os
import vtk
import vtkgdcm
import wx # need this for wx.SAVE
RADIOBOX_IDX, DIR_IDX, FILE_IDX = 0, 1, 2
class DICOMWriter(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._writer = vtkgdcm.vtkGDCMImageWriter()
# NB NB NB: for now we're SWITCHING off the VTK-compatible
# Y-flip, until the X-mirror issues can be solved.
self._writer.SetFileLowerLeft(1)
module_utils.setup_vtk_object_progress(self, self._writer,
'Writing DICOM data')
self._caster = vtk.vtkImageCast()
self._caster.SetOutputScalarTypeToShort()
module_utils.setup_vtk_object_progress(self, self._caster,
'Casting DICOM data to short')
self._input_data = None
self._input_metadata = None
self._config.output_mode = 0
self._config.output_directory = ''
self._config.output_filename = ''
self._config.cast_to_short = True
config_list = [
('Output mode:', 'output_mode', 'base:int',
'radiobox', 'Output mode',
['Slice-per-file (directory)',
'Multi-slice per file (file)']),
('Output directory:', 'output_directory', 'base:str',
'dirbrowser',
'Directory that takes slice-per-file output'),
('Output filename:', 'output_filename', 'base:str',
'filebrowser',
'Output filename for multi-slice per file output.',
{'fileMode' : wx.SAVE,
'fileMask' : 'DICOM file (*.dcm)|*.dcm|'
'All files (*.*)|*.*'}
),
('Cast to short:', 'cast_to_short', 'base:bool',
'checkbox',
'Should the data be cast to signed 16-bit (short), '
'common for DICOM.')
]
ScriptedConfigModuleMixin.__init__(self, config_list,
{'Module (self)' : self})
self.sync_module_logic_with_config()
def close(self):
ScriptedConfigModuleMixin.close(self)
ModuleBase.close(self)
del self._writer
def get_input_descriptions(self):
return ('VTK image data', 'Medical Meta Data')
def set_input(self, idx, input_stream):
if idx == 0:
self._input_data = input_stream
if input_stream is None:
# we explicitly disconnect our filters too
self._caster.SetInput(None)
self._writer.SetInput(None)
else:
self._input_metadata = input_stream
def get_output_descriptions(self):
return ()
def get_output(self, idx):
raise RuntimeError
def execute_module(self):
if self._config.output_mode == 0:
# slice-per-file mode
if not os.path.isdir(self._config.output_directory):
raise RuntimeError(
'Please specify a valid output directory.')
# generate filenamelist with as many entries as there are
# z-slices
self._input_data.UpdateInformation() # shouldn't be nec.
z_len = self._input_data.GetDimensions()[2]
odir = self._config.output_directory
fn_list = [os.path.join(odir,'im%05d.dcm' % (i,))
for i in range(1, z_len+1)]
fn_sa = vtk.vtkStringArray()
[fn_sa.InsertNextValue(fn) for fn in fn_list]
self._writer.SetFileNames(fn_sa)
self._writer.SetFileDimensionality(2)
else: # output_mode == 1, multi-slices per file
if not self._config.output_filename:
raise RuntimeError(
'Please specify an output filename.')
self._writer.SetFileName(self._config.output_filename)
self._writer.SetFileDimensionality(3)
# now setup the common stuff
mip = vtk.vtkMedicalImageProperties()
try:
mip.DeepCopy(self._input_metadata.medical_image_properties)
except AttributeError:
# this simply means that we have no input metadata
pass
self._writer.SetMedicalImageProperties(mip)
try:
self._writer.SetDirectionCosines(
self._input_metadata.direction_cosines)
except AttributeError:
# we have no input metadata, set the default
# identity matrix
m = vtk.vtkMatrix4x4()
self._writer.SetDirectionCosines(m)
if self._config.cast_to_short:
self._caster.SetInput(self._input_data)
# if we don't call this update, it crashes on Windows with
# GDCM 2.0.5, and everything else shortly before DeVIDE
# 8.5. The crash is inside the vtkGDCMImageWriter.
self._caster.Update()
self._writer.SetInput(self._caster.GetOutput())
else:
# just to be sure
self._caster.SetInput(None)
self._writer.SetInput(self._input_data)
self._writer.Write()
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view(self):
# call to our parent
ScriptedConfigModuleMixin.view(self)
# get binding to radiobox
radiobox = self._getWidget(RADIOBOX_IDX)
# bind change event to it
radiobox.Bind(wx.EVT_RADIOBOX, self._handler_output_mode_radiobox)
# make sure the initial state is ok
self._toggle_filedir(radiobox.GetSelection())
def _handler_output_mode_radiobox(self, event):
self._toggle_filedir(event.GetEventObject().GetSelection())
def _toggle_filedir(self, idx):
dir_widget = self._getWidget(DIR_IDX)
file_widget = self._getWidget(FILE_IDX)
if idx == 0:
# user wants slice-per-file, so we enable dir widget
dir_widget.Enable()
file_widget.Disable()
else:
dir_widget.Disable()
file_widget.Enable()
| [
[
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0,
0.0558,
0.0051,
0,
0.66,
0,
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0,
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0,
0,
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0,
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],
[
1,
0,
0.0635,
0.0102,
0,
0.66,
0.125,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0711,
0.0051,
0,
0... | [
"from module_base import ModuleBase",
"from module_mixins import \\\n ScriptedConfigModuleMixin",
"import module_utils",
"import os",
"import vtk",
"import vtkgdcm",
"import wx # need this for wx.SAVE",
"RADIOBOX_IDX, DIR_IDX, FILE_IDX = 0, 1, 2",
"class DICOMWriter(ScriptedConfigModuleMixin, Mo... |
# $Id$
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
import module_utils
import vtk
import wx # need this for wx.SAVE
class metaImageWRT(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
# call parent constructor
ModuleBase.__init__(self, module_manager)
self._writer = vtk.vtkMetaImageWriter()
module_utils.setup_vtk_object_progress(
self, self._writer,
'Writing VTK ImageData')
# set up some defaults
self._config.filename = ''
self._config.compression = True
config_list = [
('Filename:', 'filename', 'base:str', 'filebrowser',
'Output filename for MetaImage file.',
{'fileMode' : wx.SAVE,
'fileMask' : 'MetaImage single file (*.mha)|*.mha|MetaImage separate header/(z)raw files (*.mhd)|*.mhd|All files (*)|*',
'defaultExt' : '.mha'}
),
('Compression:', 'compression', 'base:bool', 'checkbox',
'Compress the image / volume data')
]
ScriptedConfigModuleMixin.__init__(self, config_list,
{'Module (self)' : self})
def close(self):
# we should disconnect all inputs
self.set_input(0, None)
del self._writer
# deinit our mixins
ScriptedConfigModuleMixin.close(self)
ModuleBase.close(self)
def get_input_descriptions(self):
return ('vtkImageData',)
def set_input(self, idx, input_stream):
self._writer.SetInput(input_stream)
def get_output_descriptions(self):
return ()
def get_output(self, idx):
raise Exception
def logic_to_config(self):
filename = self._writer.GetFileName()
if filename == None:
filename = ''
self._config.filename = filename
self._config.compression = self._writer.GetCompression()
def config_to_logic(self):
self._writer.SetFileName(self._config.filename)
self._writer.SetCompression(self._config.compression)
def execute_module(self):
if self._writer.GetFileName() and self._writer.GetInput():
self._writer.GetInput().UpdateInformation()
self._writer.GetInput().SetUpdateExtentToWholeExtent()
self._writer.GetInput().Update()
self._writer.Write()
def streaming_execute_module(self):
if self._writer.GetFileName() and self._writer.GetInput():
# if you use Update(), everything crashes (VTK 5.6.1, Ubuntu 10.04 x86_64)
self._writer.Write()
| [
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0,
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0,
1,
0,
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0,
0
],
[
1,
0,
0.0455,
0.0114,
0,
0.66,
0.2,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0568,
0.0114,
0,
0.6... | [
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"import module_utils",
"import vtk",
"import wx # need this for wx.SAVE",
"class metaImageWRT(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n\n # call parent constructor\n... |
class batchConverter:
kits = ['vtk_kit', 'wx_kit']
cats = ['Readers','Writers','Converters']
keywords = ['batch','convert','read','write','vti','mha','gipl']
help = """Batch converts image volume files from one type to another.
Source and target types can be VTK ImageData (.vti), MetaImage (.mha),
or Guys Image Processing Lab (.gipl).
All the files in the specified directory matching the given
source extension are converted.
The user may specify whether source files should be deleted
or target files should be automatically overwritten (be careful
with these settings!)
Known bug: writing to GIPL (forced binary uchar) will result in a thrown exception.
Circumvent this by first casting to binary uchar when writing to VTI, and then
converting to GIPL in a second pass.
(Module by Francois Malan)"""
class cptBrepWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Writes polydata to disc in the format required by the Closest
Point Transform (CPT) driver software. Input data is put through
a triangle filter first, as that is what the CPT requires.
See the
<a href="http://www.acm.caltech.edu/~seanm/projects/cpt/cpt.html">CPT
home page</a> for more information about the algorithm and the
software.
"""
class DICOMWriter:
kits = ['vtk_kit', 'gdcm_kit']
cats = ['Writers', 'Medical', 'DICOM']
help = """Writes image data to disc as DICOM images.
This GDCM2-based module writes data to disc as one (multi-frame)
or more DICOM files. As input, it requires a special DeVIDE
datastructure containing the raw data, the medical image
properties and direction cosines (indicating the orientation of
the dataset in world / scanner space). You can create such a
datastructure by making use of the DVMedicalImageData module.
"""
class ivWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """ivWRT is an Inventor Viewer polygonal data writer devide module.
"""
class metaImageWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Writes VTK image data or structured points in MetaImage format.
"""
class pngWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Writes a volume as a series of PNG images.
Set the file pattern by making use of the file browsing dialog. Replace
the increasing index by a %d format specifier. %3d can be used for
example, in which case %d will be replaced by an integer zero padded to 3
digits, i.e. 000, 001, 002 etc. %d starts from 0.
Module by Joris van Zwieten.
"""
class MatlabPointsWriter:
kits = ['vtk_kit']
cats = ['Writers']
help = """Writes slice3dVWR world-points to an m-file.
"""
class points_writer:
# BUG: empty kits list screws up dependency checking
kits = ['vtk_kit']
cats = ['Writers']
help = """TBD
"""
class stlWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Writes STL format data.
"""
class vtiWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Writes VTK image data or structured points in the VTK XML
format. The data attribute is compressed.
This is the preferred way of saving image data in DeVIDE.
"""
class vtkPolyDataWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Module for writing legacy VTK polydata. vtpWRT should be
preferred for all VTK-compatible polydata storage.
"""
class vtkStructPtsWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Module for writing legacy VTK structured points data. vtiWRT
should be preferred for all VTK-compatible image data storage.
"""
class vtpWRT:
kits = ['vtk_kit']
cats = ['Writers']
help = """Writes VTK PolyData in the VTK XML format. The data attribute
is compressed.
This is the preferred way of saving PolyData in DeVIDE.
"""
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[
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... | [
"class batchConverter:\n kits = ['vtk_kit', 'wx_kit']\n cats = ['Readers','Writers','Converters']\n keywords = ['batch','convert','read','write','vti','mha','gipl']\n help = \"\"\"Batch converts image volume files from one type to another.\n Source and target types can be VTK ImageData (.vti), MetaIm... |
# BatchConverter.py by Francois Malan - 2010-03-05. Updated 2011-12-11#
import os.path
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
import wx
import os
import vtk
import itk
class batchConverter(
ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
# initialise our base class
ModuleBase.__init__(self, module_manager)
self._config.source_folder = ''
self._config.source_file_type = -1
self._config.source_forced_numerical_type = 0
self._config.source_numerical_type = 0
self._config.target_folder = ''
self._config.target_file_type = -2
self._config.target_forced_numerical_type = 0
self._config.target_numerical_type = 0
self._config.overwrite = False
self._config.delete_after_conversion = False
#Make sure that the values below match the definitions in the config list!
self._config.extensions = {0 : '.vti', 1 : '.mha', 2 : '.mhd', 3 : '.gipl'}
self._vtk_data_types = (0, 1, 2) #The list of the above extensions which are VTK types
#Make sure that these two dictionaries match the definitions in the config list!
self._config.data_types_by_number = {0 : 'auto', 1 : 'float', 2 : 'short', 3 : 'unsigned char', 4 : 'binary (uchar)'}
self._config.data_types_by_name = {'auto' : 0, 'float' : 1, 'short' : 2, 'unsigned char' : 3, 'binary (uchar)' : 4}
config_list = [
('Source Folder:', 'source_folder', 'base:str', 'dirbrowser',
'Select the source directory'),
('Source type:', 'source_file_type', 'base:int', 'choice',
'The source file type',
('VTK Imagedata (.vti)', 'MetaImage (.mha)', 'MetaImage: header + raw (.mhd, .raw)', 'Guys Image Processing Lab (.gipl)')),
('Read input as:', 'source_forced_numerical_type', 'base:int', 'choice',
'The data type we assume the input to be in',
('auto detect', 'float', 'signed int', 'unsigned char', 'binary (uchar)')),
('Delete source after conversion', 'delete_after_conversion', 'base:bool', 'checkbox',
'Do you want to delete the source files after conversion? (not recommended)'),
('Destination Folder:', 'target_folder', 'base:str', 'dirbrowser',
'Select the target directory'),
('Destination type:', 'target_file_type', 'base:int', 'choice',
'The destination file type',
('VTK Imagedata (.vti)', 'MetaImage (.mha)', 'MetaImage: header + raw (.mhd, .raw)', 'Guys Image Processing Lab (.gipl)')),
('Cast output to:', 'target_forced_numerical_type', 'base:int', 'choice',
'The data type we cast and write the output to',
('auto detect', 'float', 'signed int', 'unsigned char', 'binary (uchar)')),
('Automatically overwrite', 'overwrite', 'base:bool', 'checkbox',
'Do you want to automatically overwrite existing files?'),
]
ScriptedConfigModuleMixin.__init__(
self, config_list,
{'Module (self)' : self})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
#for input_idx in range(len(self.get_input_descriptions())): self.set_input(input_idx, None)
# this will take care of GUI
ScriptedConfigModuleMixin.close(self)
def set_input(self):
pass
def get_input_descriptions(self):
return ()
def get_output_descriptions(self):
return ()
# def get_output(self, idx):
# return ()
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def _read_input(self, source_file_path):
"""
Reads the input specified by the source file path, according to the parameters chosen by the user
"""
#We choose the correct reader for the job
reader = None
if self._config.source_file_type == 0: # VTI
reader = vtk.vtkXMLImageDataReader()
elif self._config.source_file_type == 1 or self._config.source_file_type == 2: # MHA or MHD
reader = vtk.vtkMetaImageReader()
elif self._config.source_file_type == 3: # GIPL.
#GIPL needs an ITK reader, and that needs an explicit type
if self._config.source_forced_numerical_type == 0: #auto
# create ImageFileReader we'll be using for autotyping
autotype_reader = itk.ImageFileReader[itk.Image.F3].New()
#and the actual reader
reader = itk.ImageFileReader[itk.Image.F3].New()
reader_type_text_default = 'F3'
autotype_reader.SetFileName(source_file_path)
autotype_reader.UpdateOutputInformation()
iio = autotype_reader.GetImageIO()
comp_type = iio.GetComponentTypeAsString(iio.GetComponentType())
if comp_type == 'short':
comp_type = 'signed_short'
# lc will convert e.g. unsigned_char to UC
short_type = ''.join([i[0].upper() for i in comp_type.split('_')])
dim = iio.GetNumberOfDimensions()
num_comp = iio.GetNumberOfComponents()
reader_type_text = '%s%d' % (short_type, dim)
if num_comp > 1:
# e.g. VF33
reader_type_text = 'V%s%d' % (reader_type_text, num_comp)
# if things have changed, make a new reader, else re-use the old
if reader_type_text != reader_type_text_default:
# equivalent to e.g. itk.Image.UC3
reader = itk.ImageFileReader[
getattr(itk.Image, reader_type_text)].New()
print '%s was auto-detected as ITK %s' % (source_file_path, reader_type_text)
if reader_type_text == 'F3':
self._config.source_numerical_type = 1
elif reader_type_text == 'SS3':
self._config.source_numerical_type = 2
elif reader_type_text == 'UC3':
self._config.source_numerical_type = 3
else:
print "Warning: data of type '%s' is not explicitly supported. Reverting to IF3 (float)." % reader_type_text
self._config.source_numerical_type = 1
reader = autotype_reader
elif self._config.source_forced_numerical_type == 1: #float
reader = itk.ImageFileReader.IF3.New()
self._config.source_numerical_type = 1
elif self._config.source_forced_numerical_type == 2: #short
reader = itk.ImageFileReader.ISS3.New()
self._config.source_numerical_type = 2
elif self._config.source_forced_numerical_type == 3 or self._config.source_forced_numerical_type == 4: #unsigned char
reader = itk.ImageFileReader.IUC3.New()
self._config.source_numerical_type = 3
else:
raise Exception('Undefined input data type with numerical index %d' % self._config.source_forced_numerical_type)
else:
raise Exception('Undefined file type with numerical index %d' % self._config.source_file_type)
print "Reading %s ..." % source_file_path
reader.SetFileName(source_file_path)
reader.Update()
return reader.GetOutput()
def _convert_input(self, input_data):
"""
Converts the input data so that it can be sent to the writer.
This includes VTK to ITK conversion as well as type casting.
"""
#These values will be used to determine if conversion is required
source_is_vtk = self._config.source_file_type in self._vtk_data_types
target_is_vtk = self._config.target_file_type in self._vtk_data_types
#Set up the relevant data converter (e.g. VTK2ITK or ITK2VTK)
converter = None
caster = None
output_data = None
if source_is_vtk:
#We autotype the VTK data, and compare it to the specified input type, if specified
auto_data_type_as_string = input_data.GetPointData().GetArray(0).GetDataTypeAsString()
auto_data_type_as_number = self._config.data_types_by_name[auto_data_type_as_string]
if self._config.source_forced_numerical_type == 0: #auto
self._config.source_numerical_type = auto_data_type_as_number
else:
set_data_type_as_string = self._config.data_types_by_number[self._config.source_forced_numerical_type]
if auto_data_type_as_number == self._config.source_forced_numerical_type:
self._config.source_numerical_type = self._config.source_forced_numerical_type
else:
raise Exception("Auto-detected data type (%s) doesn't match specified type (%s)" % (auto_data_type_as_string, set_data_type_as_string) )
#Perform type casting, if required
if (self._config.source_numerical_type == self._config.target_forced_numerical_type) or (self._config.target_forced_numerical_type == 0):
self._config.target_numerical_type = self._config.source_numerical_type
else:
self._config.target_numerical_type = self._config.target_forced_numerical_type
print 'Type casting VTK data from (%s) to (%s)...' % (self._config.data_types_by_number[self._config.source_numerical_type], self._config.data_types_by_number[self._config.target_numerical_type])
caster = vtk.vtkImageCast()
caster.SetInput(input_data)
if self._config.target_numerical_type == 1: #float
caster.SetOutputScalarTypeToFloat()
elif self._config.target_numerical_type == 2: #short
caster.SetOutputScalarTypeToShort()
elif self._config.target_numerical_type == 3 or self._config.target_numerical_type == 4: #unsigned char
caster.SetOutputScalarTypeToUnsignedChar()
if target_is_vtk:
if caster == None:
output_data = input_data
else:
caster.Update()
output_data = vtk.vtkImageData()
output_data.DeepCopy(caster.GetOutput())
else: #target is ITK - requires vtk2itk
print 'Converting from VTK to ITK... (%s)' % self._config.data_types_by_number[self._config.target_numerical_type]
if self._config.target_numerical_type == 1: #float
converter = itk.VTKImageToImageFilter[itk.Image.F3].New()
elif self._config.target_numerical_type == 2: #short
converter = itk.VTKImageToImageFilter[itk.Image.SS3].New()
elif self._config.target_numerical_type == 3 or self._config.target_numerical_type == 4: #unsigned char
converter = itk.VTKImageToImageFilter[itk.Image.UC3].New()
else:
raise Exception('Conversion of VTK %s to ITK not currently supported.' % data_types_by_number[self._config.source_file_type])
if caster == None:
converter.SetInput(input_data)
else:
converter.SetInput(caster.GetOutput())
converter.Update()
output_data = converter.GetOutput()
else: #Source is ITK
#The source type was already set when the data was read, so we don't need to autotype.
#We don't know how to autotype ITK data anyway
if self._config.source_numerical_type == 0:
raise 'This should never happen - ITK data should be typed upon being read and not require autotyping'
#Perform type casting, if required
if (self._config.source_numerical_type == self._config.target_forced_numerical_type) or (self._config.target_forced_numerical_type == 0):
self._config.target_numerical_type = self._config.source_numerical_type
else:
self._config.target_numerical_type = self._config.target_forced_numerical_type
print 'Type casting ITK data from (%s) to (%s)...' % (self._config.data_types_by_number[self._config.source_numerical_type], self._config.data_types_by_number[self._config.target_numerical_type])
if self._config.source_numerical_type == 1: #float
if self._config.target_numerical_type == 2: #short
caster = itk.CastImageFilter.IF3ISS3()
elif self._config.target_numerical_type == 3 or self._config.target_numerical_type == 4: #unsigned char
caster = itk.CastImageFilter.IF3IUC3()
else:
raise Exceception('Error - this case should not occur!')
if self._config.source_numerical_type == 2: #short
if self._config.target_numerical_type == 1: #float
caster = itk.CastImageFilter.ISS3IF3()
elif self._config.target_numerical_type == 3 or self._config.target_numerical_type == 4: #unsigned char
caster = itk.CastImageFilter.ISS3IUC3()
else:
raise Exceception('Error - this case should not occur!')
if self._config.source_numerical_type == 3 or self._config.source_numerical_type == 4: #unsigned short
if self._config.target_numerical_type == 1: #float
caster = itk.CastImageFilter.IUC3IF3()
elif self._config.target_numerical_type == 2: #short
caster = itk.CastImageFilter.IUC3ISS3()
else:
raise Exceception('Error - this case should not occur!')
caster.SetInput(input_data)
if not target_is_vtk:
if caster == None:
output_data = input_data
else:
caster.Update()
output_data = vtk.vtkImageData()
output_data.DeepCopy(caster.GetOutput())
else: #target is VTK - requires itk2vtk
print 'Converting from ITK to VTK... (%s)' % self._config.data_types_by_number[self._config.target_numerical_type]
if self._config.target_numerical_type == 1: #float
converter = itk.ImageToVTKImageFilter[itk.Image.F3].New()
elif self._config.target_numerical_type == 2: #short
converter = itk.ImageToVTKImageFilter[itk.Image.SS3].New()
elif self._config.target_numerical_type == 3 or self._config.target_numerical_type == 4: #unsigned char
converter = itk.ImageToVTKImageFilter[itk.Image.UC3].New()
else:
raise Exception('Conversion of ITK %s to VTK not currently supported.' % self._config.data_types_by_number[self._config.target_numerical_type])
data_to_convert = None
if caster == None:
data_to_convert = input_data
else:
data_to_convert = caster.GetOutput()
#These three lines are from DeVIDE's ITKtoVTK. Not clear why, but it's necessary
data_to_convert.UpdateOutputInformation()
data_to_convert.SetBufferedRegion(data_to_convert.GetLargestPossibleRegion())
data_to_convert.Update()
converter.SetInput(data_to_convert)
converter.Update()
output_data = vtk.vtkImageData()
output_data.DeepCopy(converter.GetOutput())
return output_data
def _write_output(self, data, target_file_path):
#Check for existing target file, and ask for overwrite confirmation if required
if (not self._config.overwrite) and os.path.exists(target_file_path):
dlg = wx.MessageDialog(self._view_frame, "%s already exists! \nOverwrite?" % target_file_path,"File already exists",wx.YES_NO|wx.NO_DEFAULT)
if dlg.ShowModal() == wx.ID_NO:
print 'Skipped writing %s' % target_file_path
if self._config.delete_after_conversion:
print 'Source %s not deleted, since no output was written' % source_file_path
return #skip this file if overwrite is denied
writer = None
if self._config.target_file_type == 0: # VTI
writer = vtk.vtkXMLImageDataWriter()
elif self._config.target_file_type == 1: # MHA
writer = vtk.vtkMetaImageWriter()
writer.SetCompression(True)
writer.SetFileDimensionality(3)
elif self._config.target_file_type == 2: # MHD
writer = vtk.vtkMetaImageWriter()
writer.SetCompression(False)
writer.SetFileDimensionality(3)
elif self._config.target_file_type == 3: # GIPL. We assume floating point values.
if self._config.target_numerical_type == 1: #float
writer = itk.ImageFileWriter.IF3.New()
elif self._config.target_numerical_type == 2: #short
writer = itk.ImageFileWriter.ISS3.New()
elif self._config.target_numerical_type == 3 or self._config.target_numerical_type == 4: #unsigned char
writer = itk.ImageFileWriter.IUC3.New()
else:
raise Exception('Writing ITK %s is not currently supported.' % data_types_by_number[self._config.source_file_type])
else:
raise Exception('Undefined file type with numerical index %d' % self._config.target_file_type)
final_data = data
if self._config.target_numerical_type == 4:
th = vtk.vtkImageThreshold()
th.ThresholdByLower(0.0)
th.SetInValue(0.0)
th.SetOutValue(1.0)
th.SetOutputScalarTypeToUnsignedChar()
th.SetInput(data)
th.Update()
final_data = th.GetOutput()
#Write the output
writer.SetInput(final_data)
writer.SetFileName(target_file_path)
print "Writing %s ..." % target_file_path
writer.Write()
def execute_module(self):
if self._config.source_folder == '':
dlg = wx.MessageDialog(self._view_frame, "No source folder specified", "No source folder",wx.OK)
dlg.ShowModal()
return
elif self._config.target_folder == '':
dlg = wx.MessageDialog(self._view_frame, "No destination folder specified", "No destination folder",wx.OK)
dlg.ShowModal()
return
elif self._config.source_file_type < 0:
dlg = wx.MessageDialog(self._view_frame, "No source type selected", "No source type",wx.OK)
dlg.ShowModal()
return
elif self._config.target_file_type < 0:
dlg = wx.MessageDialog(self._view_frame, "No destination type selected", "No destination type",wx.OK)
dlg.ShowModal()
return
source_ext = self._config.extensions[self._config.source_file_type]
target_ext = self._config.extensions[self._config.target_file_type]
print 'Source type = %s, target type = %s' % (source_ext, target_ext)
print 'source dir = %s' % (self._config.source_folder)
print 'target dir = %s' % (self._config.target_folder)
all_files = os.listdir(self._config.source_folder)
#First we set up a list of files with the correct extension
file_list = []
source_ext = self._config.extensions[self._config.source_file_type]
for f in all_files:
file_name = os.path.splitext(f)
if file_name[1] == source_ext:
file_list.append(file_name[0])
source_file_type_str = self._config.extensions[self._config.source_file_type]
target_extension_str = self._config.extensions[self._config.target_file_type]
#Iterate over all input files
for file_prefix in file_list:
#Read the input file
source_file_name = '%s%s' % (file_prefix, source_file_type_str)
source_file_path = os.path.join(self._config.source_folder, source_file_name)
input_data = self._read_input(source_file_path)
converted_data = self._convert_input(input_data)
target_file_name = '%s%s' % (file_prefix, target_extension_str)
target_file_path = os.path.join(self._config.target_folder, target_file_name)
self._write_output(converted_data, target_file_path)
#Now we delete the input IFF the check-box is checked, and only if source and destination names differ
if self._config.delete_after_conversion:
if source_file_path != target_file_path:
print 'Deleting source %s' % source_file_path
os.remove(source_file_path)
else:
print 'Source not deleted, since already overwritten by output: %s' % source_file_path
print 'Done'
| [
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1,
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[
1,
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0.... | [
"import os.path",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"import wx",
"import os",
"import vtk",
"import itk",
"class batchConverter(\n ScriptedConfigModuleMixin, ModuleBase):\n\n def __init__(self, module_manager):\n # initialise our ... |
# dumy __init__ so this directory can function as a package
| [] | [] |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class nbhSeedConnect(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# floats
self._config.lower = 128.0
self._config.upper = 255.0
# segmented pixels will be replaced with this value
self._config.replaceValue = 1.0
# size of neighbourhood around candidate pixel
self._config.radius = (1, 1, 1)
configList = [
('Lower threshold:', 'lower', 'base:float', 'text',
'Pixels have to have an intensity equal to or higher than '
'this.'),
('Higher threshold:', 'upper', 'base:float', 'text',
'Pixels have to have an intensity equal to or lower than this.'),
('Replace value:', 'replaceValue', 'base:float', 'text',
'Segmented pixels will be assigned this value.'),
('Neighbourhood size:', 'radius', 'tuple:int,3', 'text',
'3D integer radii of neighbourhood around candidate pixel.')]
# this will contain our binding to the input points
self._inputPoints = None
# setup the pipeline
if3 = itk.Image[itk.F, 3]
self._nbhCIF = itk.NeighborhoodConnectedImageFilter[if3,if3].New()
itk_kit.utils.setupITKObjectProgress(
self, self._nbhCIF, 'itkNeighborhoodConnectedImageFilter',
'Region growing...')
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkNeighborhoodConnectedImageFilter' : self._nbhCIF})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._nbhCIF
def execute_module(self):
self._transferPoints()
self._nbhCIF.Update()
def get_input_descriptions(self):
return ('ITK Image (3D, float)', 'Seed points')
def set_input(self, idx, inputStream):
if idx == 0:
self._nbhCIF.SetInput(inputStream)
else:
if inputStream != self._inputPoints:
self._inputPoints = inputStream
def get_output_descriptions(self):
return ('Segmented ITK Image (3D, float)',)
def get_output(self, idx):
return self._nbhCIF.GetOutput()
def config_to_logic(self):
self._nbhCIF.SetLower(self._config.lower)
self._nbhCIF.SetUpper(self._config.upper)
self._nbhCIF.SetReplaceValue(self._config.replaceValue)
# now setup the radius
sz = self._nbhCIF.GetRadius()
sz.SetElement(0, self._config.radius[0])
sz.SetElement(1, self._config.radius[1])
sz.SetElement(2, self._config.radius[2])
self._nbhCIF.SetRadius(sz)
def logic_to_config(self):
self._config.lower = self._nbhCIF.GetLower()
self._config.upper = self._nbhCIF.GetUpper()
self._config.replaceValue = self._nbhCIF.GetReplaceValue()
sz = self._nbhCIF.GetRadius()
self._config.radius = tuple(
(sz.GetElement(0), sz.GetElement(1), sz.GetElement(2)))
def _transferPoints(self):
"""This will transfer all points from self._inputPoints to the nbhCIF
instance.
"""
# SetSeed calls ClearSeeds and then AddSeed
self._nbhCIF.ClearSeeds()
if len(self._inputPoints) > 0:
for ip in self._inputPoints:
# bugger, it could be that our input dataset has an extent
# that doesn't start at 0,0,0... ITK doesn't understand this
# we have to cast these to int... they are discrete,
# but the IPW seems to be returning them as floats
x,y,z = [int(i) for i in ip['discrete']]
idx = itk.Index[3]()
idx.SetElement(0, x)
idx.SetElement(1, y)
idx.SetElement(2, z)
self._nbhCIF.AddSeed(idx)
print "Added %d,%d,%d" % (x,y,z)
| [
[
1,
0,
0.0362,
0.0072,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0435,
0.0072,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0507,
0.0072,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class nbhSeedConnect(ScriptedConfigModuleMixin, ModuleBase):\n \n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class nbCurvesLevelSet(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# setup defaults
self._config.propagationScaling = 1.0
self._config.advectionScaling = 1.0
self._config.curvatureScaling = 1.0
self._config.numberOfIterations = 500
configList = [
('Propagation scaling:', 'propagationScaling', 'base:float',
'text', 'Weight factor for the propagation term'),
('Advection scaling:', 'advectionScaling', 'base:float',
'text', 'Weight factor for the advection term'),
('Curvature scaling:', 'curvatureScaling', 'base:float',
'text', 'Weight factor for the curvature term'),
('Number of iterations:', 'numberOfIterations', 'base:int',
'text',
'Number of iterations that the algorithm should be run for')]
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self})
# create all pipeline thingies
self._createITKPipeline()
self.sync_module_logic_with_config()
def close(self):
self._destroyITKPipeline()
ScriptedConfigModuleMixin.close(self)
ModuleBase.close(self)
def execute_module(self):
self.get_output(0).Update()
def get_input_descriptions(self):
return ('Feature image (ITK)', 'Initial level set (ITK)' )
def set_input(self, idx, inputStream):
if idx == 0:
self._nbcLS.SetFeatureImage(inputStream)
else:
self._nbcLS.SetInput(inputStream)
def get_output_descriptions(self):
return ('Image Data (ITK)',)
def get_output(self, idx):
return self._nbcLS.GetOutput()
def config_to_logic(self):
self._nbcLS.SetPropagationScaling(
self._config.propagationScaling)
self._nbcLS.SetAdvectionScaling(
self._config.advectionScaling)
self._nbcLS.SetCurvatureScaling(
self._config.curvatureScaling)
def logic_to_config(self):
self._config.propagationScaling = self._nbcLS.\
GetPropagationScaling()
self._config.advectionScaling = self._nbcLS.GetAdvectionScaling()
self._config.curvatureScaling = self._nbcLS.GetCurvatureScaling()
# --------------------------------------------------------------------
# END OF API CALLS
# --------------------------------------------------------------------
def _createITKPipeline(self):
# input: smoothing.SetInput()
# output: thresholder.GetOutput()
if3 = itk.Image[itk.F, 3]
self._nbcLS = itk.NarrowBandCurvesLevelSetImageFilter[if3,if3].New()
#self._nbcLS.SetMaximumRMSError( 0.1 );
self._nbcLS.SetNumberOfIterations( 500 );
itk_kit.utils.setupITKObjectProgress(
self, self._nbcLS,
'NarrowBandCurvesLevelSetImageFilter',
'Evolving level set')
def _destroyITKPipeline(self):
"""Delete all bindings to components of the ITK pipeline.
"""
del self._nbcLS
| [
[
1,
0,
0.0459,
0.0092,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.055,
0.0092,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0642,
0.0092,
0,
0.66,... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class nbCurvesLevelSet(ScriptedConfigModuleMixin, ModuleBase):\n\n def __init__(self, module_manager):\n\n ModuleBase.__init__(self, module_manager)\... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class curvatureFlowDenoising(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.numberOfIterations = 3
self._config.timeStep = 0.05
configList = [
('Number of iterations:', 'numberOfIterations', 'base:int',
'text',
'Number of update iterations that will be performed.'),
('Timestep:', 'timeStep', 'base:float',
'text', 'Timestep between update iterations.')]
# setup the pipeline
if3 = itk.Image[itk.F, 3]
self._cfif = itk.CurvatureFlowImageFilter[if3, if3].New()
itk_kit.utils.setupITKObjectProgress(
self, self._cfif, 'itkCurvatureFlowImageFilter',
'Denoising data')
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkCurvatureFlowImageFilter' : self._cfif})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._cfif
def execute_module(self):
self._cfif.Update()
self._module_manager.setProgress(100, "Denoising data [DONE]")
def get_input_descriptions(self):
return ('ITK Image (3D, float)',)
def set_input(self, idx, inputStream):
self._cfif.SetInput(inputStream)
def get_output_descriptions(self):
return ('Denoised ITK Image (3D, float)',)
def get_output(self, idx):
return self._cfif.GetOutput()
def config_to_logic(self):
self._cfif.SetNumberOfIterations(self._config.numberOfIterations)
self._cfif.SetTimeStep(self._config.timeStep)
def logic_to_config(self):
self._config.numberOfIterations = self._cfif.GetNumberOfIterations()
self._config.timeStep = self._cfif.GetTimeStep()
| [
[
1,
0,
0.0602,
0.012,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0723,
0.012,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0843,
0.012,
0,
0.66,
... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class curvatureFlowDenoising(ScriptedConfigModuleMixin, ModuleBase):\n \n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_m... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class curvatureAnisotropicDiffusion(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.numberOfIterations = 5
self._config.conductanceParameter = 3.0
configList = [
('Number of iterations:', 'numberOfIterations', 'base:int', 'text',
'Number of time-step updates (iterations) the solver will '
'perform.'),
('Conductance parameter:', 'conductanceParameter', 'base:float',
'text', 'Sensitivity of the conductance term. Lower == more '
'preservation of image features.')]
# setup the pipeline
if3 = itk.Image[itk.F, 3]
d = itk.CurvatureAnisotropicDiffusionImageFilter[if3, if3].New()
d.SetTimeStep(0.0625) # standard for 3D
self._diffuse = d
itk_kit.utils.setupITKObjectProgress(
self, self._diffuse,
'itkCurvatureAnisotropicDiffusionImageFilter',
'Smoothing data')
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkCurvatureAnisotropicDiffusion' : self._diffuse})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._diffuse
def execute_module(self):
self._diffuse.Update()
def get_input_descriptions(self):
return ('ITK Image (3D, float)',)
def set_input(self, idx, inputStream):
self._diffuse.SetInput(inputStream)
def get_output_descriptions(self):
return ('ITK Image (3D, float)',)
def get_output(self, idx):
return self._diffuse.GetOutput()
def config_to_logic(self):
self._diffuse.SetNumberOfIterations(self._config.numberOfIterations)
self._diffuse.SetConductanceParameter(
self._config.conductanceParameter)
def logic_to_config(self):
self._config.numberOfIterations = self._diffuse.GetNumberOfIterations()
self._config.conductanceParameter = self._diffuse.\
GetConductanceParameter()
| [
[
1,
0,
0.0588,
0.0118,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0706,
0.0118,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0824,
0.0118,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class curvatureAnisotropicDiffusion(ScriptedConfigModuleMixin, ModuleBase):\n\n def __init__(self, module_manager):\n ModuleBase.__init__(self, modul... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class sigmoid(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.alpha = - 0.5
self._config.beta = 3.0
self._config.min = 0.0
self._config.max = 1.0
configList = [
('Alpha:', 'alpha', 'base:float', 'text',
'Alpha parameter for the sigmoid filter'),
('Beta:', 'beta', 'base:float', 'text',
'Beta parameter for the sigmoid filter'),
('Minimum:', 'min', 'base:float', 'text',
'Minimum output of sigmoid transform'),
('Maximum:', 'max', 'base:float', 'text',
'Maximum output of sigmoid transform')]
if3 = itk.Image[itk.F, 3]
self._sigmoid = itk.SigmoidImageFilter[if3,if3].New()
itk_kit.utils.setupITKObjectProgress(
self, self._sigmoid,
'itkSigmoidImageFilter',
'Performing sigmoid transformation')
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkSigmoidImageFilter' :
self._sigmoid})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._sigmoid
def execute_module(self):
self._sigmoid.Update()
def get_input_descriptions(self):
return ('Input Image (ITK Image 3D, float)',)
def set_input(self, idx, inputStream):
self._sigmoid.SetInput(inputStream)
def get_output_descriptions(self):
return ('Sigmoid Image (ITK Image, 3D, float)',)
def get_output(self, idx):
return self._sigmoid.GetOutput()
def config_to_logic(self):
self._sigmoid.SetAlpha(self._config.alpha)
self._sigmoid.SetBeta(self._config.beta)
self._sigmoid.SetOutputMinimum(self._config.min)
self._sigmoid.SetOutputMaximum(self._config.max)
def logic_to_config(self):
# there're no getters for alpha, beta, min or max (itk 1.6)
pass
| [
[
1,
0,
0.0595,
0.0119,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0714,
0.0119,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0833,
0.0119,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class sigmoid(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\n\n se... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class symmetricDemonsRegistration(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.numberOfIterations = 50
self._config.deformationSmoothingStd = 1.0
self._config.idiffThresh = 0.001
configList = [
('Number of iterations:', 'numberOfIterations',
'base:int', 'text',
'Number of iterations for the Demons registration to run.'),
('Standard deviation of vector smoothing:',
'deformationSmoothingStd', 'base:float', 'text',
'Standard deviation of Gaussian kernel used to smooth '
'intermediate deformation field'),
('Intensity difference threshold:', 'idiffThresh',
'base:float', 'text',
'Voxels differing with less than this threshold are considered '
'equal')]
# input 1 is fixed, input 2 is moving
# matcher.SetInput(moving)
# matcher.SetReferenceImage(fixed)
if3 = itk.Image.F3
self._matcher = itk.HistogramMatchingImageFilter[if3,if3].New()
self._matcher.SetNumberOfHistogramLevels(1024)
self._matcher.SetNumberOfMatchPoints(7)
self._matcher.ThresholdAtMeanIntensityOn()
self._demons = itk.SymmetricForcesDemonsRegistrationFilter[
itk.Image.F3, itk.Image.F3, itk.Image.VF33].New()
self._demons.SetStandardDeviations(1.0)
self._demons.SetMovingImage(self._matcher.GetOutput())
itk_kit.utils.setupITKObjectProgress(
self, self._demons, 'itkSymmetricForcesDemonsRegistration',
'Performing registration, metric = %.2f', ('GetMetric()',))
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkSymmetricForcesDemonsRegistrationFilter' : self._demons,
'itkHistogramMatchingImageFilter' : self._matcher})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._demons
del self._matcher
def execute_module(self):
self.get_output(0).Update()
def get_input_descriptions(self):
return ('Fixed image (ITK 3D Float)', 'Moving image (ITK 3D Float)')
def set_input(self, idx, inputStream):
if idx == 0:
self._matcher.SetReferenceImage(inputStream)
self._demons.SetFixedImage(inputStream)
else:
self._matcher.SetInput(inputStream)
def get_output_descriptions(self):
return ('Deformation field (ITK 3D Float vectors)',)
def get_output(self, idx):
return self._demons.GetOutput()
def config_to_logic(self):
self._demons.SetNumberOfIterations(self._config.numberOfIterations)
self._demons.SetStandardDeviations(
self._config.deformationSmoothingStd)
self._demons.SetIntensityDifferenceThreshold(
self._config.idiffThresh)
def logic_to_config(self):
self._config.numberOfIterations = self._demons.GetNumberOfIterations()
# we can't get the StandardDeviations back...
self._config.idiffThresh = \
self._demons.GetIntensityDifferenceThreshold()
| [
[
1,
0,
0.045,
0.009,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0541,
0.009,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0631,
0.009,
0,
0.66,
... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class symmetricDemonsRegistration(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n \n ModuleBase.__init__(self,... |
# $Id$
from genMixins import subjectMixin, updateCallsExecuteModuleMixin
class transformStackClass(list,
subjectMixin,
updateCallsExecuteModuleMixin):
def __init__(self, d3Module):
# call base ctors
subjectMixin.__init__(self)
updateCallsExecuteModuleMixin.__init__(self, d3Module)
def close(self):
subjectMixin.close(self)
updateCallsExecuteModuleMixin.close(self)
| [
[
1,
0,
0.1765,
0.0588,
0,
0.66,
0,
968,
0,
2,
0,
0,
968,
0,
0
],
[
3,
0,
0.6176,
0.7059,
0,
0.66,
1,
25,
0,
2,
0,
0,
430,
0,
4
],
[
2,
1,
0.6176,
0.2353,
1,
0.52,
... | [
"from genMixins import subjectMixin, updateCallsExecuteModuleMixin",
"class transformStackClass(list,\n subjectMixin,\n updateCallsExecuteModuleMixin):\n \n def __init__(self, d3Module):\n # call base ctors\n subjectMixin.__init__(self)\n ... |
# dumy __init__ so this directory can function as a package
| [] | [] |
# $Id$
from genMixins import subjectMixin, updateCallsExecuteModuleMixin
class imageStackClass(list,
subjectMixin,
updateCallsExecuteModuleMixin):
def __init__(self, d3Module):
# call base ctors
subjectMixin.__init__(self)
updateCallsExecuteModuleMixin.__init__(self, d3Module)
def close(self):
subjectMixin.close(self)
updateCallsExecuteModuleMixin.close(self)
| [
[
1,
0,
0.1765,
0.0588,
0,
0.66,
0,
968,
0,
2,
0,
0,
968,
0,
0
],
[
3,
0,
0.6176,
0.7059,
0,
0.66,
1,
554,
0,
2,
0,
0,
430,
0,
4
],
[
2,
1,
0.6176,
0.2353,
1,
0.09,... | [
"from genMixins import subjectMixin, updateCallsExecuteModuleMixin",
"class imageStackClass(list,\n subjectMixin,\n updateCallsExecuteModuleMixin):\n \n def __init__(self, d3Module):\n # call base ctors\n subjectMixin.__init__(self)\n updateCall... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
from module_base import ModuleBase
import module_kits.itk_kit
from module_mixins import ScriptedConfigModuleMixin
class gradientAnisotropicDiffusion(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.numberOfIterations = 5
self._config.conductanceParameter = 3.0
configList = [
('Number of iterations:', 'numberOfIterations', 'base:int', 'text',
'Number of time-step updates (iterations) the solver will '
'perform.'),
('Conductance parameter:', 'conductanceParameter', 'base:float',
'text', 'Sensitivity of the conductance term. Lower == more '
'preservation of image features.')]
# setup the pipeline
if3 = itk.Image[itk.F, 3]
d = itk.GradientAnisotropicDiffusionImageFilter[if3, if3].New()
d.SetTimeStep(0.0625) # standard for 3D
self._diffuse = d
module_kits.itk_kit.utils.setupITKObjectProgress(
self, self._diffuse, 'itkGradientAnisotropicDiffusionImageFilter',
'Smoothing data')
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkGradientAnisotropicDiffusion' : self._diffuse})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._diffuse
def execute_module(self):
self._diffuse.Update()
def get_input_descriptions(self):
return ('ITK Image (3D, float)',)
def set_input(self, idx, inputStream):
self._diffuse.SetInput(inputStream)
def get_output_descriptions(self):
return ('ITK Image (3D, float)',)
def get_output(self, idx):
return self._diffuse.GetOutput()
def config_to_logic(self):
self._diffuse.SetNumberOfIterations(self._config.numberOfIterations)
self._diffuse.SetConductanceParameter(
self._config.conductanceParameter)
def logic_to_config(self):
self._config.numberOfIterations = self._diffuse.GetNumberOfIterations()
self._config.conductanceParameter = self._diffuse.\
GetConductanceParameter()
| [
[
1,
0,
0.0602,
0.012,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
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],
[
1,
0,
0.0723,
0.012,
0,
0.66,
0.25,
745,
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0,
0,
745,
0,
0
],
[
1,
0,
0.0843,
0.012,
0,
0.66,
... | [
"import itk",
"from module_base import ModuleBase",
"import module_kits.itk_kit",
"from module_mixins import ScriptedConfigModuleMixin",
"class gradientAnisotropicDiffusion(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\n\n... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class cannyEdgeDetection(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.variance = (0.7, 0.7, 0.7)
self._config.maximum_error = (0.01, 0.01, 0.01)
self._config.upper_threshold = 0.0
self._config.lower_threshold = 0.0
self._config.outside_value = 0.0
configList = [
('Variance:', 'variance', 'tuple:float,3', 'text',
'Variance of Gaussian used for smoothing the input image (units: '
'true spacing).'),
('Maximum error:', 'maximum_error', 'tuple:float,3', 'text',
'The discrete Gaussian kernel will be sized so that the '
'truncation error is smaller than this.'),
('Upper threshold:', 'upper_threshold', 'base:float', 'text',
'Highest allowed value in the output image.'),
('Lower threshold:', 'lower_threshold', 'base:float', 'text',
'Lowest allowed value in the output image.'),
('Outside value:', 'outside_value', 'base:float', 'text',
'Pixels lower than threshold will be set to this.')]
# setup the pipeline
if3 = itk.Image[itk.F, 3]
self._canny = itk.CannyEdgeDetectionImageFilter[if3, if3].New()
itk_kit.utils.setupITKObjectProgress(
self, self._canny, 'itkCannyEdgeDetectionImageFilter',
'Performing Canny edge detection')
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._canny
def execute_module(self):
# create a new canny filter
if3 = itk.Image.F3
c = itk.CannyEdgeDetectionImageFilter[if3, if3].New()
c.SetInput(self._canny.GetInput())
# disconnect the old one
self._canny.SetInput(None)
# replace it with the new one
self._canny = c
# setup new progress handler
itk_kit.utils.setupITKObjectProgress(
self, self._canny, 'itkCannyEdgeDetectionImageFilter',
'Performing Canny edge detection')
# apply our config
self.sync_module_logic_with_config()
# and go!
self._canny.Update()
def get_input_descriptions(self):
return ('ITK Image (3D, float)',)
def set_input(self, idx, inputStream):
self._canny.SetInput(inputStream)
def get_output_descriptions(self):
return ('ITK Edge Image (3D, float)',)
def get_output(self, idx):
return self._canny.GetOutput()
def config_to_logic(self):
# thanks to WrapITK, we can now set / get tuples / lists!
# VARIANCE
self._canny.SetVariance(self._config.variance)
# MAXIMUM ERROR
self._canny.SetMaximumError(self._config.maximum_error)
# THRESHOLD
self._canny.SetUpperThreshold(self._config.upper_threshold)
self._canny.SetLowerThreshold(self._config.lower_threshold)
# OUTSIDE VALUE
self._canny.SetOutsideValue(self._config.outside_value)
def logic_to_config(self):
# VARIANCE
self._config.variance = tuple(self._canny.GetVariance())
# MAXIMUM ERROR
self._config.maximum_error = \
tuple(self._canny.GetMaximumError())
# THRESHOLDS
self._config.upper_threshold = self._canny.GetUpperThreshold()
self._config.lower_threshold = self._canny.GetLowerThreshold()
# OUTSIDE VALUE
self._config.outside_value = self._canny.GetOutsideValue()
| [
[
1,
0,
0.0397,
0.0079,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0476,
0.0079,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0556,
0.0079,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class cannyEdgeDetection(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\n\... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class demonsRegistration(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.numberOfIterations = 50
self._config.deformationSmoothingStd = 1.0
self._config.idiffThresh = 0.001
configList = [
('Number of iterations:', 'numberOfIterations',
'base:int', 'text',
'Number of iterations for the Demons registration to run.'),
('Standard deviation of vector smoothing:',
'deformationSmoothingStd', 'base:float', 'text',
'Standard deviation of Gaussian kernel used to smooth '
'intermediate deformation field'),
('Intensity difference threshold:', 'idiffThresh',
'base:float', 'text',
'Voxels differing with less than this threshold are considered '
'equal')]
# input 1 is fixed, input 2 is moving
# matcher.SetInput(moving)
# matcher.SetReferenceImage(fixed)
if3 = itk.Image.F3
self._matcher = itk.HistogramMatchingImageFilter[if3,if3].New()
self._matcher.SetNumberOfHistogramLevels(1024)
self._matcher.SetNumberOfMatchPoints(7)
self._matcher.ThresholdAtMeanIntensityOn()
self._demons = itk.DemonsRegistrationFilter[
itk.Image.F3, itk.Image.F3, itk.Image.VF33].New()
self._demons.SetStandardDeviations(1.0)
self._demons.SetMovingImage(self._matcher.GetOutput())
itk_kit.utils.setupITKObjectProgress(
self, self._demons, 'itkDemonsRegistration',
'Performing registration, metric = %.2f', ('GetMetric()',))
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkDemonsRegistrationFilter' : self._demons,
'itkHistogramMatchingImageFilter' : self._matcher})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._demons
del self._matcher
def execute_module(self):
self.get_output(0).Update()
def get_input_descriptions(self):
return ('Fixed image (ITK 3D Float)', 'Moving image (ITK 3D Float)')
def set_input(self, idx, inputStream):
if idx == 0:
self._matcher.SetReferenceImage(inputStream)
self._demons.SetFixedImage(inputStream)
else:
self._matcher.SetInput(inputStream)
def get_output_descriptions(self):
return ('Deformation field (ITK 3D Float vectors)',)
def get_output(self, idx):
return self._demons.GetOutput()
def config_to_logic(self):
self._demons.SetNumberOfIterations(self._config.numberOfIterations)
self._demons.SetStandardDeviations(
self._config.deformationSmoothingStd)
self._demons.SetIntensityDifferenceThreshold(
self._config.idiffThresh)
def logic_to_config(self):
self._config.numberOfIterations = self._demons.GetNumberOfIterations()
# we can't get the StandardDeviations back...
self._config.idiffThresh = \
self._demons.GetIntensityDifferenceThreshold()
| [
[
1,
0,
0.0446,
0.0089,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0536,
0.0089,
0,
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0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0625,
0.0089,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class demonsRegistration(ScriptedConfigModuleMixin, ModuleBase):\n \n def __init__(self, module_manager):\n \n ModuleBase.__init__(self, mo... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import copy
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
import wx
class ITKReader(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
# call parent constructor
ModuleBase.__init__(self, module_manager)
self._config.filename = ''
self._config.autotype = True
self._config.type = 'float'
self._config.dimensionality = '3'
self._logic = copy.deepcopy(self._config)
# we change this one ivar so that config_to_logic will return True
# the first time
self._logic.filename = None
wild_card_string = 'Meta Image all-in-one (*.mha)|*.mha|' \
'Meta Image separate header/data (*.mhd)|*.mhd|' \
'Analyze separate header/data (*.hdr)|*.hdr|' \
'NIfTI (*.nii)|*.nii|' \
'NIfTI compressed (*.nii.gz)|*.nii.gz|' \
'All files (*)|*'
config_list = [
('Filename:', 'filename', 'base:str', 'filebrowser',
'Name of file that will be loaded.',
{'fileMode' : wx.OPEN, 'fileMask' : wild_card_string}),
('AutoType:', 'autotype', 'base:bool', 'checkbox',
'If activated, data type and dimensions will be determined '
'automatically.'),
('Data type:', 'type', 'base:str', 'choice',
'Data will be cast to this type if AutoType is not used.',
['float', 'signed short', 'unsigned long']),
('Data dimensionality:', 'dimensionality', 'base:str', 'choice',
'Data will be read using this number of dimensions if AutoType '
'is not used', ['2','3'])]
# create ImageFileReader we'll be using for autotyping
self._autotype_reader = itk.ImageFileReader[itk.Image.F3].New()
itk_kit.utils.setupITKObjectProgress(
self, self._autotype_reader, 'ImageFileReader',
'Determining type and dimensionality of file.')
# and create default ImageFileReader we'll use for the actual lifting
self._reader = itk.ImageFileReader[itk.Image.F3].New()
self._reader_type_text = 'F3'
itk_kit.utils.setupITKObjectProgress(
self, self._reader, 'ImageFileReader',
'Reading file.')
ScriptedConfigModuleMixin.__init__(self, config_list,
{'Module (self)' : self})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# and remove all bindings
del self._autotype_reader
del self._reader
def get_input_descriptions(self):
return ()
def set_input(self, idx, input_stream):
raise Exception
def get_output_descriptions(self):
return ('ITK Image',)
def get_output(self, idx):
return self._reader.GetOutput()
def logic_to_config(self):
# important to return False: logic_to_config can't and
# hasn't changed our config
return False
def config_to_logic(self):
# if the user has performed an 'Apply', we want to invalidate
return True
def execute_module(self):
if self._config.autotype:
self._autotype_reader.SetFileName(self._config.filename)
self._autotype_reader.UpdateOutputInformation()
iio = self._autotype_reader.GetImageIO()
comp_type = iio.GetComponentTypeAsString(iio.GetComponentType())
if comp_type == 'short':
comp_type = 'signed_short'
# lc will convert e.g. unsigned_char to UC
short_type = ''.join([i[0].upper() for i in comp_type.split('_')])
dim = iio.GetNumberOfDimensions()
num_comp = iio.GetNumberOfComponents()
else:
# lc will convert e.g. unsigned char to UC
comp_type = self._config.type
short_type = ''.join([i[0].upper() for i in comp_type.split(' ')])
if short_type == 'S':
short_type = 'SS'
dim = int(self._config.dimensionality)
num_comp = 1
# e.g. F3
reader_type_text = '%s%d' % (short_type, dim)
if num_comp > 1:
# e.g. VF33
reader_type_text = 'V%s%d' % (reader_type_text, num_comp)
# if things have changed, make a new reader, else re-use the old
if reader_type_text != self._reader_type_text:
# equivalent to e.g. itk.Image.UC3
self._reader = itk.ImageFileReader[
getattr(itk.Image, reader_type_text)].New()
self._reader_type_text = reader_type_text
print reader_type_text
itk_kit.utils.setupITKObjectProgress(
self, self._reader, 'ImageFileReader',
'Reading file.')
# now do the actual reading
self._reader.SetFileName(self._config.filename)
self._reader.Update()
| [
[
1,
0,
0.0333,
0.0067,
0,
0.66,
0,
739,
0,
1,
0,
0,
739,
0,
0
],
[
1,
0,
0.04,
0.0067,
0,
0.66,
0.1667,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0467,
0.0067,
0,
0.66... | [
"import copy",
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"import wx",
"class ITKReader(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n # call parent constru... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class gaussianConvolve(ScriptedConfigModuleMixin, ModuleBase):
_orders = ['Zero', 'First', 'Second']
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.direction = 0
self._config.sigma = 1.0
self._config.order = 'Zero'
self._config.normaliseAcrossScale = False
configList = [
('Direction:', 'direction', 'base:int', 'choice',
'Direction in which the filter has to be applied.',
['0', '1', '2']),
('Sigma:', 'sigma', 'base:float', 'text',
'Sigma of Gaussian kernel in world coordinates.'),
('Order of Gaussian', 'order', 'base:str', 'choice',
'Convolve with Gaussian, or first or second derivative.',
tuple(self._orders)),
('Normalise across scale', 'normaliseAcrossScale', 'base:bool',
'checkbox', 'Determine and use normalisation factor.')]
# setup the pipeline
if3 = itk.Image[itk.F, 3]
self._gaussian = itk.RecursiveGaussianImageFilter[if3,if3].New()
itk_kit.utils.setupITKObjectProgress(
self, self._gaussian, 'itkRecursiveGaussianImageFilter',
'Convolving with Gaussian')
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'itkRecursiveGaussianImageFilter' : self._gaussian})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._gaussian
def execute_module(self):
self._gaussian.Update()
def get_input_descriptions(self):
return ('ITK Image (3D, float)',)
def set_input(self, idx, inputStream):
self._gaussian.SetInput(inputStream)
def get_output_descriptions(self):
return ('Blurred ITK Image (3D, float)',)
def get_output(self, idx):
return self._gaussian.GetOutput()
def config_to_logic(self):
self._gaussian.SetDirection(self._config.direction)
# SIGMA
self._gaussian.SetSigma(self._config.sigma)
# ORDER
if self._config.order == 'Zero':
self._gaussian.SetZeroOrder()
elif self._config.order == 'First':
self._gaussian.SetFirstOrder()
elif self._config.order == 'Second':
self._gaussian.SetSecondOrder()
else:
self._config.order = 'Zero'
self._gaussian.SetZeroOrder()
# NORMALISEACROSSSCALE
self._gaussian.SetNormalizeAcrossScale(
self._config.normaliseAcrossScale)
def logic_to_config(self):
self._config.direction = self._gaussian.GetDirection()
# SIGMA
self._config.sigma = self._gaussian.GetSigma()
# ORDER
# FIMXE: dammit, we can't get the order.
# NORMALISEACROSSSCALE
self._config.normaliseAcrossScale = self._gaussian.\
GetNormalizeAcrossScale()
| [
[
1,
0,
0.0435,
0.0087,
0,
0.66,
0,
77,
0,
1,
0,
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77,
0,
0
],
[
1,
0,
0.0522,
0.0087,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0609,
0.0087,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class gaussianConvolve(ScriptedConfigModuleMixin, ModuleBase):\n\n _orders = ['Zero', 'First', 'Second']\n \n def __init__(self, module_manager):\n ... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
class ITKtoVTK:
kits = ['itk_kit']
cats = ['Insight']
help = """Use this module to convert from any ITK image type to
the corresponding VTK type.
"""
class VTKtoITK:
kits = ['itk_kit']
cats = ['Insight']
help = """Convert from a VTK image to an ITK image.
By default (AutoType active), the output ITK image has the same pixel
type as the input VTK image. However, if AutoType has been unchecked
in the configuration, the output ITK image has 'Data type' as its type.
"""
class cannyEdgeDetection:
kits = ['itk_kit']
cats = ['Insight']
help = """Performs 3D Canny edge detection on input image.
A rule of thumb for the thersholds: lower threshold == 0.5 * upper
threshold.
NOTE: Due to a bug in ITK [1], the Canny filter gives invalid
results when run more than once with different sets of parameters.
To work around this, DeVIDE re-instantiates the canny filter at
every execution. This means that only parameters that you see in
the GUI are transferred to the new instance.
[1] http://www.itk.org/pipermail/insight-users/2009-August/032018.html
"""
class confidenceSeedConnect:
kits = ['itk_kit']
cats = ['Insight']
keywords = ['region growing', 'confidence', 'seed']
help = """Confidence-based 3D region growing.
This module will perform a 3D region growing starting from the
user-supplied points. The mean and standard deviation are calculated in a
small initial region around the seed points. New contiguous points have
to have intensities on the range [mean - f*stdDev, mean + f*stdDev] to be
included. f is user-definable.
After this initial growing iteration, if the user has specified a larger
than 0 number of iterations, the mean and standard deviation are
recalculated over all the currently selected points and the process is
restarted. This process is repeated for the user-defined number of
iterations, or until now new pixels are added.
Due to weirdness in the underlying ITK filter, deleting all points
won't quite work. In other words, the output of this module can
only be trusted if there's at least a single seed point.
"""
class curvatureAnisotropicDiffusion:
kits = ['itk_kit']
cats = ['Insight']
class curvatureFlowDenoising:
kits = ['itk_kit']
cats = ['Insight', 'Level Sets']
help = """Curvature-driven image denoising.
This uses curvature-based level set techniques to smooth
homogeneous regions whilst retaining boundary information.
"""
class DanielssonDistance:
kits = ['itk_kit']
cats = ['Insight']
help = """Calculates distance image of input image.
The input image can either contain marked objects or binary objects.
"""
class demonsRegistration:
kits = ['itk_kit']
cats = ['Insight', 'Registration', 'Optic Flow']
help = """Performs demons registration on fixed and moving input images,
returns deformation field.
The intensity difference threshold is absolute, so check the values in
your datasets and adjust it accordingly. For example, if you find that
two regions should match but you see intensity differences of 50 (e.g.
in a CT dataset), the threshold should be approximately 60.
NOTE: remember to update help w.r.t. inverse direction of vectors in
deformation field.
Also read this thread:
http://public.kitware.com/pipermail/insight-users/2004-November/011002.html
"""
class discreteLaplacian:
kits = ['itk_kit']
cats = ['Insight']
help = """Calculates Laplacian of input image.
This makes use of a discrete implementation. Due to this, the input
image should probably be pre-smoothed with e.g. a Gaussian as the
Laplacian is very sensitive to noise.
Note: One could also calculate the Laplacian by convolving with the
second derivative of a Gaussian.
Laplacian == secondPartialDerivative(f,x0) + ... +
secondPartialDerivative(f,xn)
"""
# had to disable this one due to stupid itkLevelSetNode non-wrapping
# in ITK-2-4-1
class fastMarching:
kits = ['itk_kit']
cats = ['Insight', 'Level Sets']
help = """Given a set of seed points and a speed image, this module will
propagate a moving front out from those points using the fast marching
level set formulation.
"""
class gaussianConvolve:
kits = ['itk_kit']
cats = ['Insight']
help = """Convolves input with Gaussian, or its first or second
derivative.
Only a single dimension is convolved (i.e. the filter is separated).
Select which dimension in the View/Config window.
The convolution is implemented as an IIR filter.
$Revision: 1.4 $
"""
class geodesicActiveContour:
kits = ['itk_kit']
cats = ['Insight', 'Level Sets']
keywords = ['level set']
help = """Module for performing Geodesic Active Contour-based segmentation
on 3D data.
The input feature image is an edge potential map with values close to 0 in
regions close to the edges and values close to 1 otherwise. The level set
speed function is based on this. For example: smooth an input image,
determine the gradient magnitude and then pass it through a sigmoid
transformation to create an edge potential map.
The initial level set is a volume with the initial surface embedded as the
0 level set, i.e. the 0-value iso-contour (more or less).
Also see figure 9.18 in the ITK Software Guide.
"""
class gradientAnisotropicDiffusion:
kits = ['itk_kit']
cats = ['Insight']
help = """Performs a gradient-based anisotropic diffusion.
This will smooth homogeneous areas whilst preserving features
(e.g. edges).
"""
class gradientMagnitudeGaussian:
kits = ['itk_kit']
cats = ['Insight']
help = """Calculates gradient magnitude of an image by convolving with the
derivative of a Gaussian.
The ITK class that this is based on uses a recursive gaussian filter
implementation.
"""
# isn't wrapped anymore, no idea why.
#class gvfgac:
# kits = ['itk_kit']
# cats = ['Insight']
# will fix when I rework the registration modules
#class imageStackRDR:
# kits = ['itk_kit']
# cats = ['Insight']
class isolatedConnect:
kits = ['itk_kit']
cats = ['Insight']
keywords = ['segment']
help = """Voxels connected to the first group of seeds and NOT connected
to the second group of seeds are segmented by optimising an upper or
lower threshold.
For example, to separate two non-touching light objects, you would do the
following:
<ul>
<li>Select point(s) in the first object with slice3dVWR 1</li>
<li>Select point(s) in the second object with slice3dVWR 2</li>
<li>Connect up the three inputs of isolatedConnect as follows: input
image, point(s) of object 1, point(s) of object 2</li>
<li>isolatedConnect will now calculate a threshold so that when this
threshold is applied to the image and a region growing is performed using
the first set of points, only object 1 will be separated.</li>
</il>
</ul>
"""
class ITKReader:
kits = ['itk_kit']
cats = ['Insight', 'Readers']
help = """Reads all the 3D formats supported by ITK. In its default
configuration, this module will derive file type, data type and
dimensionality from the file itself. You can manually set the data type
and dimensionality, in which case ITK will attempt to cast the data.
Keep in mind that DeVIDE mostly uses the float versions of ITK components.
At least the following file formats are available (a choice is made based
on the filename extension that you choose):<br>
<ul>
<li>.mha: MetaImage all-in-one file</li>
<li>.mhd: MetaImage .mhd header file and .raw data file</li>
<li>.hdr or .img: Analyze .hdr header and .img data</li>
</ul>
"""
class ITKWriter:
kits = ['itk_kit']
cats = ['Insight', 'Writers']
help = """Writes any of the image formats supported by ITK.
At least the following file formats are available (a choice is made based
on the filename extension that you choose):<br>
<ul>
<li>.mha: MetaImage all-in-one file</li>
<li>.mhd: MetaImage .mhd header file and .raw data file</li>
<li>.hdr or .img: Analyze .hdr header and .img data</li>
</ul>
"""
# not wrapped by ITK-2-4-1 default wrappings
class levelSetMotionRegistration:
kits = ['itk_kit']
cats = ['Insight', 'Registration', 'Level Sets']
keywords = ['level set', 'registration', 'deformable', 'non-rigid']
help = """Performs deformable registration between two input volumes using
level set motion.
"""
# not wrapped by WrapITK 20060710
# class nbCurvesLevelSet:
# kits = ['itk_kit']
# cats = ['Insight', 'Level Set']
# keywords = ['level set']
# help = """Narrow band level set implementation.
# The input feature image is an edge potential map with values close to 0 in
# regions close to the edges and values close to 1 otherwise. The level set
# speed function is based on this. For example: smooth an input image,
# determine the gradient magnitude and then pass it through a sigmoid
# transformation to create an edge potential map.
# The initial level set is a volume with the initial surface embedded as the
# 0 level set, i.e. the 0-value iso-contour (more or less).
# """
class nbhSeedConnect:
kits = ['itk_kit']
cats = ['Insight']
help = """Neighbourhood-based 3D region growing.
This module will perform a 3D region growing starting from the
user-supplied points. Only pixels with intensities between the
user-configurable thresholds and with complete neighbourhoods where all
pixels have intensities between the thresholds are considered valid
candidates. The size of the neighbourhood can be set as well.
"""
# reactivate when I rework the registration modules
#class register2D:
# kits = ['itk_kit']
# cats = ['Insight']
class sigmoid:
kits = ['itk_kit']
cats = ['Insight']
help = """Perform sigmoid transformation on all input voxels.
f(x) = (max - min) frac{1}{1 + exp(- frac{x - beta}{alpha})} + min
"""
class symmetricDemonsRegistration:
kits = ['itk_kit']
cats = ['Insight', 'Registration', 'Optic Flow']
help = """Performs symmetric forces demons registration on fixed and
moving input images, returns deformation field.
"""
class tpgac:
kits = ['itk_kit']
cats = ['Insight', 'Level Sets']
keywords = ['segment', 'level set']
help = """Module for performing topology-preserving Geodesic Active
Contour-based segmentation on 3D data.
This module requires a DeVIDE-specific ITK class.
The input feature image is an edge potential map with values close to 0 in
regions close to the edges and values close to 1 otherwise. The level set
speed function is based on this. For example: smooth an input image,
determine the gradient magnitude and then pass it through a sigmoid
transformation to create an edge potential map.
The initial level set is a volume with the initial surface embedded as the
0 level set, i.e. the 0-value iso-contour (more or less).
Also see figure 9.18 in the ITK Software Guide.
"""
# will work on this when I rework the 2D registration
#class transform2D:
# kits = ['itk_kit']
# cats = ['Insight']
#class transformStackRDR:
# kits = ['itk_kit']
# cats = ['Insight']
#class transformStackWRT:
# kits = ['itk_kit']
# cats = ['Insight']
class watershed:
kits = ['itk_kit']
cats = ['Insight']
help = """Perform watershed segmentation on input.
Typically, the input will be the gradient magnitude image. Often, data
is smoothed with one of the anisotropic diffusion filters and then the
gradient magnitude image is calculated. This serves as input to the
watershed module.
"""
| [
[
3,
0,
0.0209,
0.0168,
0,
0.66,
0,
54,
0,
0,
0,
0,
0,
0,
0
],
[
14,
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1,
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0,
0,
0,
0,
5,
0
],
[
14,
1,
0.0196,
0.0028,
1,
0.6,
... | [
"class ITKtoVTK:\n kits = ['itk_kit']\n cats = ['Insight']\n help = \"\"\"Use this module to convert from any ITK image type to\n the corresponding VTK type.\n \"\"\"",
" kits = ['itk_kit']",
" cats = ['Insight']",
" help = \"\"\"Use this module to convert from any ITK image type to\n ... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
import vtk
class VTKtoITKF3(NoConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# setup the pipeline
self._imageCast = vtk.vtkImageCast()
self._imageCast.SetOutputScalarTypeToFloat()
self._vtk2itk = itk.VTKImageToImageFilter[itk.Image[itk.F, 3]].New()
self._vtk2itk.SetInput(self._imageCast.GetOutput())
NoConfigModuleMixin.__init__(
self,
{'Module (self)' : self,
'vtkImageCast' : self._imageCast,
'VTKImageToImageFilter' : self._vtk2itk})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
NoConfigModuleMixin.close(self)
ModuleBase.close(self)
del self._imageCast
del self._vtk2itk
def execute_module(self):
# the whole connectvtkitk thingy is quite shaky and was really
# designed for demand-driven use. using it in an event-driven
# environment, we have to make sure it does exactly what we want
# it to do. one day, we'll implement contracts and do this
# differently.
#o = self._itkImporter.GetOutput()
#o.UpdateOutputInformation()
#o.SetRequestedRegionToLargestPossibleRegion()
#o.Update()
self._vtk2itk.Update()
def get_input_descriptions(self):
return ('VTK Image Data',)
def set_input(self, idx, inputStream):
self._imageCast.SetInput(inputStream)
def get_output_descriptions(self):
return ('ITK Image (3D, float)',)
def get_output(self, idx):
return self._vtk2itk.GetOutput()
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
pass
def config_to_view(self):
pass
| [
[
1,
0,
0.0588,
0.0118,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0706,
0.0118,
0,
0.66,
0.25,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0824,
0.0118,
0,
0.66... | [
"import itk",
"from module_base import ModuleBase",
"from module_mixins import NoConfigModuleMixin",
"import vtk",
"class VTKtoITKF3(NoConfigModuleMixin, ModuleBase):\n\n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\n\n\n # setup the pipeline\n self... |
# dumy __init__ so this directory can function as a package
| [] | [] |
# dumy __init__ so this directory can function as a package
| [] | [] |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class levelSetMotionRegistration(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
self._config.numberOfIterations = 50
self._config.gradSmoothStd = 1.0
self._config.alpha = 0.1
self._config.idiffThresh = 0.001
configList = [
('Number of iterations:', 'numberOfIterations',
'base:int', 'text',
'Number of iterations for the Demons registration to run.'),
('Gradient smoothing standard deviation:', 'gradSmoothStd',
'base:float', 'text',
'The standard deviation of the Gaussian kernel in physical '
'units that will be '
'used to smooth the images before calculating gradients.'),
('Stability parameter alpha:', 'alpha', 'base:float', 'text',
'Used to stabilise small gradient magnitude values. Set to '
'approximately 0.04% of intensity range of input images.'),
('Intensity difference threshold:', 'idiffThresh',
'base:float', 'text',
'Voxels differing with less than this threshold are considered '
'equal')]
# input 1 is fixed, input 2 is moving
# matcher.SetInput(moving)
# matcher.SetReferenceImage(fixed)
if3 = itk.Image.F3
self._matcher = itk.HistogramMatchingImageFilter[if3,if3].New()
self._matcher.SetNumberOfHistogramLevels(1024)
self._matcher.SetNumberOfMatchPoints(7)
self._matcher.ThresholdAtMeanIntensityOn()
ivf3 = itk.Image.VF33
ls = itk.LevelSetMotionRegistrationFilter[if3, if3, ivf3].New()
self._levelSetMotion = ls
self._levelSetMotion.SetMovingImage(self._matcher.GetOutput())
# we should get a hold of GetElapsedIterations...
# DenseFiniteDifference -> PDEDeformableRegistration -> LevelSetMotion
# Dense still has it, PDE onwards doesn't. Dense is templated on
# input and output, PDE on two image types and a deformation field...
itk_kit.utils.setupITKObjectProgress(
self, self._levelSetMotion, 'LevelSetMotionRegistrationFilter',
'Performing registration, metric = %.2f',
('GetMetric()',))
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self,
'LevelSetMotionRegistrationFilter' : self._levelSetMotion,
'itkHistogramMatchingImageFilter' : self._matcher})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
ScriptedConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._levelSetMotion
del self._matcher
def execute_module(self):
self.get_output(0).Update()
def get_input_descriptions(self):
return ('Fixed image (ITK 3D Float)', 'Moving image (ITK 3D Float)')
def set_input(self, idx, inputStream):
if idx == 0:
self._matcher.SetReferenceImage(inputStream)
self._levelSetMotion.SetFixedImage(inputStream)
else:
self._matcher.SetInput(inputStream)
def get_output_descriptions(self):
return ('Deformation field (ITK 3D Float vectors)',)
def get_output(self, idx):
return self._levelSetMotion.GetOutput()
def config_to_logic(self):
self._levelSetMotion.SetNumberOfIterations(
self._config.numberOfIterations)
self._levelSetMotion.SetGradientSmoothingStandardDeviations(
self._config.gradSmoothStd)
self._levelSetMotion.SetAlpha(self._config.alpha)
self._levelSetMotion.SetIntensityDifferenceThreshold(
self._config.idiffThresh)
def logic_to_config(self):
self._config.numberOfIterations = self._levelSetMotion.\
GetNumberOfIterations()
self._config.gradSmoothStd = \
self._levelSetMotion.\
GetGradientSmoothingStandardDeviations()
self._config.alpha = \
self._levelSetMotion.GetAlpha()
self._config.idiffThresh = \
self._levelSetMotion.\
GetIntensityDifferenceThreshold()
| [
[
1,
0,
0.0373,
0.0075,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0448,
0.0075,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0522,
0.0075,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class levelSetMotionRegistration(ScriptedConfigModuleMixin, ModuleBase):\n def __init__(self, module_manager):\n \n ModuleBase.__init__(self, ... |
# dumy __init__ so this directory can function as a package
| [] | [] |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class gvfgac(ScriptedConfigModuleMixin, ModuleBase):
"""Module for performing Gradient Vector Flow-driven Geodesic Active
Contour-based segmentation on 3D data.
This module requires a DeVIDE-specific ITK class.
The input feature image is an edge potential map with values close to 0 in
regions close to the edges and values close to 1 otherwise. The level set
speed function is based on this. For example: smooth an input image,
determine the gradient magnitude and then pass it through a sigmoid
transformation to create an edge potential map.
The initial level set is a volume with the initial surface embedded as the
0 level set, i.e. the 0-value iso-contour (more or less). The inside of
the volume is indicated by negative values and the outside with positive
values.
Also see figure 9.18 in the ITK Software Guide.
$Revision: 1.2 $
"""
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# setup defaults
self._config.propagationScaling = 1.0
self._config.curvatureScaling = 1.0
self._config.advectionScaling = 1.0
self._config.numberOfIterations = 100
configList = [
('Propagation scaling:', 'propagationScaling', 'base:float',
'text', 'Propagation scaling parameter for the geodesic active '
'contour, '
'i.e. balloon force. Positive for outwards, negative for '
'inwards.'),
('Curvature scaling:', 'curvatureScaling', 'base:float',
'text', 'Curvature scaling term weighting.'),
('Advection scaling:', 'advectionScaling', 'base:float',
'text', 'Advection scaling term weighting.'),
('Number of iterations:', 'numberOfIterations', 'base:int',
'text',
'Number of iterations that the algorithm should be run for')]
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self})
# create all pipeline thingies
self._createITKPipeline()
self.sync_module_logic_with_config()
def close(self):
self._destroyITKPipeline()
ScriptedConfigModuleMixin.close(self)
ModuleBase.close(self)
def execute_module(self):
self.get_output(0).Update()
self._module_manager.setProgress(
100, "Geodesic active contour complete.")
def get_input_descriptions(self):
return ('Feature image (ITK)', 'Initial level set (ITK)' )
def set_input(self, idx, inputStream):
if idx == 0:
self._gvfgac.SetFeatureImage(inputStream)
else:
self._gvfgac.SetInput(inputStream)
def get_output_descriptions(self):
return ('Final level set (ITK Float 3D)',)
def get_output(self, idx):
return self._gvfgac.GetOutput()
def config_to_logic(self):
self._gvfgac.SetPropagationScaling(
self._config.propagationScaling)
self._gvfgac.SetCurvatureScaling(
self._config.curvatureScaling)
self._gvfgac.SetAdvectionScaling(
self._config.advectionScaling)
self._gvfgac.SetNumberOfIterations(
self._config.numberOfIterations)
def logic_to_config(self):
self._config.propagationScaling = self._gvfgac.\
GetPropagationScaling()
self._config.curvatureScaling = self._gvfgac.\
GetCurvatureScaling()
self._config.advectionScaling = self._gvfgac.\
GetAdvectionScaling()
self._config.numberOfIterations = self._gvfgac.\
GetNumberOfIterations()
# --------------------------------------------------------------------
# END OF API CALLS
# --------------------------------------------------------------------
def _createITKPipeline(self):
# input: smoothing.SetInput()
# output: thresholder.GetOutput()
self._gvfgac = itk.itkGVFGACLevelSetImageFilterF3F3_New()
#geodesicActiveContour.SetMaximumRMSError( 0.1 );
itk_kit.utils.setupITKObjectProgress(
self, self._gvfgac,
'GVFGACLevelSetImageFilter',
'Growing active contour')
def _destroyITKPipeline(self):
"""Delete all bindings to components of the ITK pipeline.
"""
del self._gvfgac
| [
[
1,
0,
0.0357,
0.0071,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0429,
0.0071,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.05,
0.0071,
0,
0.66,
... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class gvfgac(ScriptedConfigModuleMixin, ModuleBase):\n\n \"\"\"Module for performing Gradient Vector Flow-driven Geodesic Active\n Contour-based segmenta... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
class discreteLaplacian(NoConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# setup the pipeline
if3 = itk.Image[itk.F, 3]
self._laplacian = itk.LaplacianImageFilter[if3,if3].New()
itk_kit.utils.setupITKObjectProgress(
self, self._laplacian,
'itkLaplacianImageFilter',
'Calculating Laplacian')
NoConfigModuleMixin.__init__(
self,
{'Module (self)' : self,
'itkLaplacianImageFilter' :
self._laplacian})
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
NoConfigModuleMixin.close(self)
# and the baseclass close
ModuleBase.close(self)
# remove all bindings
del self._laplacian
def execute_module(self):
self._laplacian.Update()
def get_input_descriptions(self):
return ('Image (ITK, 3D, float)',)
def set_input(self, idx, inputStream):
self._laplacian.SetInput(inputStream)
def get_output_descriptions(self):
return ('Laplacian image (ITK, 3D, float)',)
def get_output(self, idx):
return self._laplacian.GetOutput()
| [
[
1,
0,
0.082,
0.0164,
0,
0.66,
0,
77,
0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0984,
0.0164,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.1148,
0.0164,
0,
0.66,... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import NoConfigModuleMixin",
"class discreteLaplacian(NoConfigModuleMixin, ModuleBase):\n \n def __init__(self, module_manager):\n ModuleBase.__init__(self, module_manager)\n\n\n ... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
import itk
import module_kits.itk_kit as itk_kit
from module_base import ModuleBase
from module_mixins import ScriptedConfigModuleMixin
class tpgac(ScriptedConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# setup defaults
self._config.propagationScaling = 1.0
self._config.curvatureScaling = 1.0
self._config.advectionScaling = 1.0
self._config.numberOfIterations = 100
configList = [
('Propagation scaling:', 'propagationScaling', 'base:float',
'text', 'Propagation scaling parameter for the geodesic active '
'contour, '
'i.e. balloon force. Positive for outwards, negative for '
'inwards.'),
('Curvature scaling:', 'curvatureScaling', 'base:float',
'text', 'Curvature scaling term weighting.'),
('Advection scaling:', 'advectionScaling', 'base:float',
'text', 'Advection scaling term weighting.'),
('Number of iterations:', 'numberOfIterations', 'base:int',
'text',
'Number of iterations that the algorithm should be run for')]
ScriptedConfigModuleMixin.__init__(
self, configList,
{'Module (self)' : self})
# create all pipeline thingies
self._createITKPipeline()
self.sync_module_logic_with_config()
def close(self):
self._destroyITKPipeline()
ScriptedConfigModuleMixin.close(self)
ModuleBase.close(self)
def execute_module(self):
self.get_output(0).Update()
self._module_manager.setProgress(
100, "Geodesic active contour complete.")
def get_input_descriptions(self):
return ('Feature image (ITK)', 'Initial level set (ITK)' )
def set_input(self, idx, inputStream):
if idx == 0:
self._tpgac.SetFeatureImage(inputStream)
else:
self._tpgac.SetInput(inputStream)
def get_output_descriptions(self):
return ('Final level set (ITK Float 3D)',)
def get_output(self, idx):
return self._tpgac.GetOutput()
def config_to_logic(self):
self._tpgac.SetPropagationScaling(
self._config.propagationScaling)
self._tpgac.SetCurvatureScaling(
self._config.curvatureScaling)
self._tpgac.SetAdvectionScaling(
self._config.advectionScaling)
self._tpgac.SetNumberOfIterations(
self._config.numberOfIterations)
def logic_to_config(self):
self._config.propagationScaling = self._tpgac.\
GetPropagationScaling()
self._config.curvatureScaling = self._tpgac.\
GetCurvatureScaling()
self._config.advectionScaling = self._tpgac.\
GetAdvectionScaling()
self._config.numberOfIterations = self._tpgac.\
GetNumberOfIterations()
# --------------------------------------------------------------------
# END OF API CALLS
# --------------------------------------------------------------------
def _createITKPipeline(self):
# input: smoothing.SetInput()
# output: thresholder.GetOutput()
if3 = itk.Image.F3
self._tpgac = itk.TPGACLevelSetImageFilter[if3, if3, itk.F].New()
#geodesicActiveContour.SetMaximumRMSError( 0.1 );
itk_kit.utils.setupITKObjectProgress(
self, self._tpgac,
'TPGACLevelSetImageFilter',
'Growing active contour')
def _destroyITKPipeline(self):
"""Delete all bindings to components of the ITK pipeline.
"""
del self._tpgac
| [
[
1,
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0,
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0,
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0,
1,
0,
0,
77,
0,
0
],
[
1,
0,
0.0496,
0.0083,
0,
0.66,
0.25,
452,
0,
1,
0,
0,
452,
0,
0
],
[
1,
0,
0.0579,
0.0083,
0,
0.66... | [
"import itk",
"import module_kits.itk_kit as itk_kit",
"from module_base import ModuleBase",
"from module_mixins import ScriptedConfigModuleMixin",
"class tpgac(ScriptedConfigModuleMixin, ModuleBase):\n\n\n def __init__(self, module_manager):\n\n ModuleBase.__init__(self, module_manager)\n ... |
# Copyright (c) Charl P. Botha, TU Delft
# All rights reserved.
# See COPYRIGHT for details.
from typeModules.imageStackClass import imageStackClass
import fixitk as itk
from module_base import ModuleBase
from module_mixins import FileOpenDialogModuleMixin
import module_utils
import wx
class imageStackRDR(ModuleBase, FileOpenDialogModuleMixin):
"""Loads a list of images as ITK Images.
This list can e.g. be used as input to the 2D registration module.
"""
def __init__(self, module_manager):
ModuleBase.__init__(self, module_manager)
# list of ACTUAL itk images
self._imageStack = imageStackClass(self)
self._viewFrame = None
self._createViewFrame()
# list of names that are to be loaded
self._config._imageFileNames = []
# we'll use this variable to check when we need to reload
# filenames.
self._imageFileNamesChanged = True
#
self.config_to_logic()
self.logic_to_config()
self.config_to_view()
def close(self):
# we took out explicit ITK references, let them go!
for img in self._imageStack:
img.UnRegister()
# take care of other refs to all the loaded images
self._imageStack.close()
self._imageStack = []
# destroy GUI
self._viewFrame.Destroy()
# base classes taken care of
ModuleBase.close(self)
def get_input_descriptions(self):
return ()
def set_input(self, idx, inputStream):
raise Exception
def get_output_descriptions(self):
return ('ITK Image Stack',)
def get_output(self, idx):
return self._imageStack
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
count = self._viewFrame.fileNamesListBox.GetCount()
tempList = []
for n in range(count):
tempList.append(self._viewFrame.fileNamesListBox.GetString(n))
if tempList != self._config._imageFileNames:
# this is a new list
self._imageFileNamesChanged = True
# copy...
self._config._imageFileNames = tempList
def config_to_view(self):
# clear wxListBox
self._viewFrame.fileNamesListBox.Clear()
for fileName in self._config._imageFileNames:
self._viewFrame.fileNamesListBox.Append(fileName)
def execute_module(self):
if self._imageFileNamesChanged:
# only if things have changed do we do our thing
# first take care of old refs
del self._imageStack[:]
# setup for progress counter
currentProgress = 0.0
if len(self._config._imageFileNames) > 0:
progressStep = 100.0 / len(self._config._imageFileNames)
else:
progressStep = 100.0
for imageFileName in self._config._imageFileNames:
self._module_manager.setProgress(
currentProgress, "Loading %s" % (imageFileName,))
currentProgress += progressStep
reader = itk.itkImageFileReaderF2_New()
reader.SetFileName(imageFileName)
reader.Update()
self._imageStack.append(reader.GetOutput())
# velly important; with ITK wrappings, ref count doesn't
# increase if there's a coincidental python binding
# it does if there was an explicit New()
self._imageStack[-1].Register()
self._module_manager.setProgress(100.0, "Done loading images.")
# make sure all observers know about the changes
self._imageStack.notify()
# indicate that we're in sync now
self._imageFileNamesChanged = False
def view(self, parent_window=None):
# if the window was visible already. just raise it
if not self._viewFrame.Show(True):
self._viewFrame.Raise()
def _bindEvents(self):
wx.EVT_BUTTON(self._viewFrame, self._viewFrame.addButtonId,
self._handlerAddButton)
def _createViewFrame(self):
self._module_manager.import_reload(
'modules.Insight.resources.python.imageStackRDRViewFrame')
import modules.Insight.resources.python.imageStackRDRViewFrame
self._viewFrame = module_utils.instantiate_module_view_frame(
self, self._module_manager,
modules.Insight.resources.python.imageStackRDRViewFrame.\
imageStackRDRViewFrame)
module_utils.create_eoca_buttons(self, self._viewFrame,
self._viewFrame.viewFramePanel)
self._bindEvents()
def _handlerAddButton(self, event):
fres = self.filenameBrowse(self._viewFrame,
"Select files to add to stack",
"*", wx.OPEN | wx.MULTIPLE)
if fres:
for fileName in fres:
self._viewFrame.fileNamesListBox.Append(fileName)
| [
[
1,
0,
0.0325,
0.0065,
0,
0.66,
0,
855,
0,
1,
0,
0,
855,
0,
0
],
[
1,
0,
0.039,
0.0065,
0,
0.66,
0.1667,
362,
0,
1,
0,
0,
362,
0,
0
],
[
1,
0,
0.0455,
0.0065,
0,
0... | [
"from typeModules.imageStackClass import imageStackClass",
"import fixitk as itk",
"from module_base import ModuleBase",
"from module_mixins import FileOpenDialogModuleMixin",
"import module_utils",
"import wx",
"class imageStackRDR(ModuleBase, FileOpenDialogModuleMixin):\n \"\"\"Loads a list of imag... |
import gen_utils
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
import module_utils
import vtktud
class imageEigenvectors(ModuleBase, NoConfigModuleMixin):
def __init__(self, module_manager):
# initialise our base class
ModuleBase.__init__(self, module_manager)
NoConfigModuleMixin.__init__(self)
self._imageEigenvectors = vtktud.vtkImageEigenvectors()
# module_utils.setup_vtk_object_progress(self, self._clipPolyData,
# 'Calculating normals')
self._viewFrame = self._createViewFrame(
{'ImageEigenvectors' : self._imageEigenvectors})
# pass the data down to the underlying logic
self.config_to_logic()
# and all the way up from logic -> config -> view to make sure
self.syncViewWithLogic()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
NoConfigModuleMixin.close(self)
# get rid of our reference
del self._imageEigenvectors
def get_input_descriptions(self):
return ('vtkImageData',)
def set_input(self, idx, inputStream):
self._imageEigenvectors.SetInput(idx, inputStream)
def get_output_descriptions(self):
return ('vtkImageData','vtkImageData','vtkImageData')
def get_output(self, idx):
return self._imageEigenvectors.GetOutput(idx)
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
pass
def config_to_view(self):
pass
def execute_module(self):
self._imageEigenvectors.Update()
def view(self, parent_window=None):
# if the window was visible already. just raise it
if not self._viewFrame.Show(True):
self._viewFrame.Raise()
| [
[
1,
0,
0.0143,
0.0143,
0,
0.66,
0,
714,
0,
1,
0,
0,
714,
0,
0
],
[
1,
0,
0.0286,
0.0143,
0,
0.66,
0.2,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0429,
0.0143,
0,
0.6... | [
"import gen_utils",
"from module_base import ModuleBase",
"from module_mixins import NoConfigModuleMixin",
"import module_utils",
"import vtktud",
"class imageEigenvectors(ModuleBase, NoConfigModuleMixin):\n\n def __init__(self, module_manager):\n # initialise our base class\n ModuleBase.... |
import gen_utils
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
import module_utils
import vtktud
class imageGradientStructureTensor(ModuleBase, NoConfigModuleMixin):
def __init__(self, module_manager):
# initialise our base class
ModuleBase.__init__(self, module_manager)
NoConfigModuleMixin.__init__(self)
self._imageGradientStructureTensor = vtktud.vtkImageGradientStructureTensor()
# module_utils.setup_vtk_object_progress(self, self._clipPolyData,
# 'Calculating normals')
self._viewFrame = self._createViewFrame(
{'ImageGradientStructureTensor' : self._imageGradientStructureTensor})
# pass the data down to the underlying logic
self.config_to_logic()
# and all the way up from logic -> config -> view to make sure
self.syncViewWithLogic()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
NoConfigModuleMixin.close(self)
# get rid of our reference
del self._imageGradientStructureTensor
def get_input_descriptions(self):
return ('vtkImageData', 'vtkImageData', 'vtkImageData')
def set_input(self, idx, inputStream):
self._imageGradientStructureTensor.SetInput(idx, inputStream)
def get_output_descriptions(self):
return ('vtkImageData',)
def get_output(self, idx):
return self._imageGradientStructureTensor.GetOutput()
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
pass
def config_to_view(self):
pass
def execute_module(self):
self._imageGradientStructureTensor.Update()
def view(self, parent_window=None):
# if the window was visible already. just raise it
if not self._viewFrame.Show(True):
self._viewFrame.Raise()
| [
[
1,
0,
0.0143,
0.0143,
0,
0.66,
0,
714,
0,
1,
0,
0,
714,
0,
0
],
[
1,
0,
0.0286,
0.0143,
0,
0.66,
0.2,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0429,
0.0143,
0,
0.6... | [
"import gen_utils",
"from module_base import ModuleBase",
"from module_mixins import NoConfigModuleMixin",
"import module_utils",
"import vtktud",
"class imageGradientStructureTensor(ModuleBase, NoConfigModuleMixin):\n\n def __init__(self, module_manager):\n # initialise our base class\n ... |
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
import module_utils
import vtk
class testModule(NoConfigModuleMixin, ModuleBase):
def __init__(self, module_manager):
# initialise our base class
ModuleBase.__init__(self, module_manager)
# we'll be playing around with some vtk objects, this could
# be anything
self._triangleFilter = vtk.vtkTriangleFilter()
self._curvatures = vtk.vtkCurvatures()
self._curvatures.SetCurvatureTypeToMaximum()
self._curvatures.SetInput(self._triangleFilter.GetOutput())
# initialise any mixins we might have
NoConfigModuleMixin.__init__(self,
{'Module (self)' : self,
'vtkTriangleFilter' : self._triangleFilter,
'vtkCurvatures' : self._curvatures})
module_utils.setup_vtk_object_progress(self, self._triangleFilter,
'Triangle filtering...')
module_utils.setup_vtk_object_progress(self, self._curvatures,
'Calculating curvatures...')
self.sync_module_logic_with_config()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# don't forget to call the close() method of the vtkPipeline mixin
NoConfigModuleMixin.close(self)
# get rid of our reference
del self._triangleFilter
del self._curvatures
def get_input_descriptions(self):
return ('vtkPolyData',)
def set_input(self, idx, inputStream):
self._triangleFilter.SetInput(inputStream)
def get_output_descriptions(self):
return (self._curvatures.GetOutput().GetClassName(),)
def get_output(self, idx):
return self._curvatures.GetOutput()
def execute_module(self):
self._curvatures.Update()
def streaming_execute_module(self):
self._curvatures.Update()
| [
[
1,
0,
0.0159,
0.0159,
0,
0.66,
0,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.0317,
0.0159,
0,
0.66,
0.25,
676,
0,
1,
0,
0,
676,
0,
0
],
[
1,
0,
0.0476,
0.0159,
0,
0.... | [
"from module_base import ModuleBase",
"from module_mixins import NoConfigModuleMixin",
"import module_utils",
"import vtk",
"class testModule(NoConfigModuleMixin, ModuleBase):\n\n def __init__(self, module_manager):\n # initialise our base class\n ModuleBase.__init__(self, module_manager)\n... |
import gen_utils
from module_base import ModuleBase
from module_mixins import NoConfigModuleMixin
import module_utils
import vtktud
class imageCurvature(ModuleBase, NoConfigModuleMixin):
"""Calculates image curvature with VTKTUD vtkImageCurvature filter.
You need 8 inputs, and in the following sequence: dx, dy, dz,
dxx, dyy, dzz, dxy, dxz, dyz.
This will output some curvature measure. The underlying filter will
be adapted to make the raw curvature data (principal curvatures
and directions of the isophote surface) available as well.
All code by Joris van Zwieten. This bit of documentation by cpbotha.
"""
def __init__(self, module_manager):
# initialise our base class
ModuleBase.__init__(self, module_manager)
NoConfigModuleMixin.__init__(self)
self._imageCurvature = vtktud.vtkImageCurvature()
# module_utils.setup_vtk_object_progress(self, self._clipPolyData,
# 'Calculating normals')
self._viewFrame = self._createViewFrame(
{'ImageCurvature' : self._imageCurvature})
# pass the data down to the underlying logic
self.config_to_logic()
# and all the way up from logic -> config -> view to make sure
self.syncViewWithLogic()
def close(self):
# we play it safe... (the graph_editor/module_manager should have
# disconnected us by now)
for input_idx in range(len(self.get_input_descriptions())):
self.set_input(input_idx, None)
# this will take care of all display thingies
NoConfigModuleMixin.close(self)
# get rid of our reference
del self._imageCurvature
def get_input_descriptions(self):
return ('dx', 'dy', 'dz', 'dxx', 'dyy', 'dzz', 'dxy', 'dxz', 'dyz')
def set_input(self, idx, inputStream):
self._imageCurvature.SetInput(idx, inputStream)
def get_output_descriptions(self):
return ('vtkImageData',)
def get_output(self, idx):
return self._imageCurvature.GetOutput()
def logic_to_config(self):
pass
def config_to_logic(self):
pass
def view_to_config(self):
pass
def config_to_view(self):
pass
def execute_module(self):
self._imageCurvature.Update()
def view(self, parent_window=None):
# if the window was visible already. just raise it
if not self._viewFrame.Show(True):
self._viewFrame.Raise()
| [
[
1,
0,
0.0123,
0.0123,
0,
0.66,
0,
714,
0,
1,
0,
0,
714,
0,
0
],
[
1,
0,
0.0247,
0.0123,
0,
0.66,
0.2,
745,
0,
1,
0,
0,
745,
0,
0
],
[
1,
0,
0.037,
0.0123,
0,
0.66... | [
"import gen_utils",
"from module_base import ModuleBase",
"from module_mixins import NoConfigModuleMixin",
"import module_utils",
"import vtktud",
"class imageCurvature(ModuleBase, NoConfigModuleMixin):\n \"\"\"Calculates image curvature with VTKTUD vtkImageCurvature filter.\n \n You need 8 input... |
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