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def queue_status(self, client_id, msg):
"""Return the Queue status of one or more targets.
if verbose: return the msg_ids
else: return len of each type.
keys: queue (pending MUX jobs)
tasks (pending Task jobs)
completed (finished jobs from both queues)"""
... |
def purge_results(self, client_id, msg):
"""Purge results from memory. This method is more valuable before we move
to a DB based message storage mechanism."""
content = msg['content']
self.log.info("Dropping records with %s", content)
msg_ids = content.get('msg_ids', [])
... |
def resubmit_task(self, client_id, msg):
"""Resubmit one or more tasks."""
def finish(reply):
self.session.send(self.query, 'resubmit_reply', content=reply, ident=client_id)
content = msg['content']
msg_ids = content['msg_ids']
reply = dict(status='ok')
try:
... |
def _extract_record(self, rec):
"""decompose a TaskRecord dict into subsection of reply for get_result"""
io_dict = {}
for key in ('pyin', 'pyout', 'pyerr', 'stdout', 'stderr'):
io_dict[key] = rec[key]
content = { 'result_content': rec['result_content'],
... |
def get_results(self, client_id, msg):
"""Get the result of 1 or more messages."""
content = msg['content']
msg_ids = sorted(set(content['msg_ids']))
statusonly = content.get('status_only', False)
pending = []
completed = []
content = dict(status='ok')
con... |
def get_history(self, client_id, msg):
"""Get a list of all msg_ids in our DB records"""
try:
msg_ids = self.db.get_history()
except Exception as e:
content = error.wrap_exception()
else:
content = dict(status='ok', history=msg_ids)
self.sessi... |
def db_query(self, client_id, msg):
"""Perform a raw query on the task record database."""
content = msg['content']
query = content.get('query', {})
keys = content.get('keys', None)
buffers = []
empty = list()
try:
records = self.db.find_records(query,... |
def cd(self, newdir):
"""
go to the path
"""
prevdir = os.getcwd()
os.chdir(newdir)
try:
yield
finally:
os.chdir(prevdir) |
def decode_cmd_out(self, completed_cmd):
"""
return a standard message
"""
try:
stdout = completed_cmd.stdout.encode('utf-8').decode()
except AttributeError:
try:
stdout = str(bytes(completed_cmd.stdout), 'big5').strip()
except ... |
def run_command_under_r_root(self, cmd, catched=True):
"""
subprocess run on here
"""
RPATH = self.path
with self.cd(newdir=RPATH):
if catched:
process = sp.run(cmd, stdout=sp.PIPE, stderr=sp.PIPE)
else:
process = sp.run(cmd... |
def execute(self):
"""
Execute R script
"""
rprocess = OrderedDict()
commands = OrderedDict([
(self.file, ['Rscript', self.file] + self.cmd),
])
for cmd_name, cmd in commands.items():
rprocess[cmd_name] = self.run_command_under_r_root(cmd)
... |
def _set_kernel_manager(self, kernel_manager):
""" Disconnect from the current kernel manager (if any) and set a new
kernel manager.
"""
# Disconnect the old kernel manager, if necessary.
old_manager = self._kernel_manager
if old_manager is not None:
old_m... |
def _dispatch(self, msg):
""" Calls the frontend handler associated with the message type of the
given message.
"""
msg_type = msg['header']['msg_type']
handler = getattr(self, '_handle_' + msg_type, None)
if handler:
handler(msg) |
def _is_from_this_session(self, msg):
""" Returns whether a reply from the kernel originated from a request
from this frontend.
"""
session = self._kernel_manager.session.session
parent = msg['parent_header']
if not parent:
# if the message has no parent, ... |
def report(self, morfs, directory=None):
"""Run the report.
See `coverage.report()` for arguments.
"""
self.report_files(self.annotate_file, morfs, directory) |
def annotate_file(self, cu, analysis):
"""Annotate a single file.
`cu` is the CodeUnit for the file to annotate.
"""
if not cu.relative:
return
filename = cu.filename
source = cu.source_file()
if self.directory:
dest_file = os.path.join(... |
def find(name):
'''
returns a list of tuples (package_name, description) for apt-cache search results
'''
cmd = 'apt-cache search %s' % name
args = shlex.split(cmd)
try:
output = subprocess.check_output(args)
except CalledProcessError:
return []
lines = output.splitli... |
def get_installed_version(name):
'''
returns installed package version and None if package is not installed
'''
pattern = re.compile(r'''Installed:\s+(?P<version>.*)''')
cmd = 'apt-cache policy %s' % name
args = shlex.split(cmd)
try:
output = subprocess.check_output(args)
... |
def squash_unicode(obj):
"""coerce unicode back to bytestrings."""
if isinstance(obj,dict):
for key in obj.keys():
obj[key] = squash_unicode(obj[key])
if isinstance(key, unicode):
obj[squash_unicode(key)] = obj.pop(key)
elif isinstance(obj, list):
for ... |
def default_secure(cfg):
"""Set the default behavior for a config environment to be secure.
If Session.key/keyfile have not been set, set Session.key to
a new random UUID.
"""
if 'Session' in cfg:
if 'key' in cfg.Session or 'keyfile' in cfg.Session:
return
# key/key... |
def extract_header(msg_or_header):
"""Given a message or header, return the header."""
if not msg_or_header:
return {}
try:
# See if msg_or_header is the entire message.
h = msg_or_header['header']
except KeyError:
try:
# See if msg_or_header is just the heade... |
def _check_packers(self):
"""check packers for binary data and datetime support."""
pack = self.pack
unpack = self.unpack
# check simple serialization
msg = dict(a=[1,'hi'])
try:
packed = pack(msg)
except Exception:
raise ValueError("packe... |
def msg(self, msg_type, content=None, parent=None, subheader=None, header=None):
"""Return the nested message dict.
This format is different from what is sent over the wire. The
serialize/unserialize methods converts this nested message dict to the wire
format, which is a list of messag... |
def sign(self, msg_list):
"""Sign a message with HMAC digest. If no auth, return b''.
Parameters
----------
msg_list : list
The [p_header,p_parent,p_content] part of the message list.
"""
if self.auth is None:
return b''
h = self.auth.copy... |
def serialize(self, msg, ident=None):
"""Serialize the message components to bytes.
This is roughly the inverse of unserialize. The serialize/unserialize
methods work with full message lists, whereas pack/unpack work with
the individual message parts in the message list.
Parame... |
def send(self, stream, msg_or_type, content=None, parent=None, ident=None,
buffers=None, subheader=None, track=False, header=None):
"""Build and send a message via stream or socket.
The message format used by this function internally is as follows:
[ident1,ident2,...,DELIM,HMAC,p_... |
def send_raw(self, stream, msg_list, flags=0, copy=True, ident=None):
"""Send a raw message via ident path.
This method is used to send a already serialized message.
Parameters
----------
stream : ZMQStream or Socket
The ZMQ stream or socket to use for sending the m... |
def recv(self, socket, mode=zmq.NOBLOCK, content=True, copy=True):
"""Receive and unpack a message.
Parameters
----------
socket : ZMQStream or Socket
The socket or stream to use in receiving.
Returns
-------
[idents], msg
[idents] is a l... |
def feed_identities(self, msg_list, copy=True):
"""Split the identities from the rest of the message.
Feed until DELIM is reached, then return the prefix as idents and
remainder as msg_list. This is easily broken by setting an IDENT to DELIM,
but that would be silly.
Parameters... |
def unserialize(self, msg_list, content=True, copy=True):
"""Unserialize a msg_list to a nested message dict.
This is roughly the inverse of serialize. The serialize/unserialize
methods work with full message lists, whereas pack/unpack work with
the individual message parts in the messa... |
def save_svg(string, parent=None):
""" Prompts the user to save an SVG document to disk.
Parameters:
-----------
string : basestring
A Python string containing a SVG document.
parent : QWidget, optional
The parent to use for the file dialog.
Returns:
--------
The name ... |
def svg_to_clipboard(string):
""" Copy a SVG document to the clipboard.
Parameters:
-----------
string : basestring
A Python string containing a SVG document.
"""
if isinstance(string, unicode):
string = string.encode('utf-8')
mime_data = QtCore.QMimeData()
mime_data.se... |
def svg_to_image(string, size=None):
""" Convert a SVG document to a QImage.
Parameters:
-----------
string : basestring
A Python string containing a SVG document.
size : QSize, optional
The size of the image that is produced. If not specified, the SVG
document's default si... |
def object_info(**kw):
"""Make an object info dict with all fields present."""
infodict = dict(izip_longest(info_fields, [None]))
infodict.update(kw)
return infodict |
def getdoc(obj):
"""Stable wrapper around inspect.getdoc.
This can't crash because of attribute problems.
It also attempts to call a getdoc() method on the given object. This
allows objects which provide their docstrings via non-standard mechanisms
(like Pyro proxies) to still be inspected by ipy... |
def getsource(obj,is_binary=False):
"""Wrapper around inspect.getsource.
This can be modified by other projects to provide customized source
extraction.
Inputs:
- obj: an object whose source code we will attempt to extract.
Optional inputs:
- is_binary: whether the object is known to co... |
def getargspec(obj):
"""Get the names and default values of a function's arguments.
A tuple of four things is returned: (args, varargs, varkw, defaults).
'args' is a list of the argument names (it may contain nested lists).
'varargs' and 'varkw' are the names of the * and ** arguments or None.
'def... |
def call_tip(oinfo, format_call=True):
"""Extract call tip data from an oinfo dict.
Parameters
----------
oinfo : dict
format_call : bool, optional
If True, the call line is formatted and returned as a string. If not, a
tuple of (name, argspec) is returned.
Returns
-------
... |
def find_file(obj):
"""Find the absolute path to the file where an object was defined.
This is essentially a robust wrapper around `inspect.getabsfile`.
Returns None if no file can be found.
Parameters
----------
obj : any Python object
Returns
-------
fname : str
The absol... |
def find_source_lines(obj):
"""Find the line number in a file where an object was defined.
This is essentially a robust wrapper around `inspect.getsourcelines`.
Returns None if no file can be found.
Parameters
----------
obj : any Python object
Returns
-------
lineno : int
... |
def _getdef(self,obj,oname=''):
"""Return the definition header for any callable object.
If any exception is generated, None is returned instead and the
exception is suppressed."""
try:
# We need a plain string here, NOT unicode!
hdef = oname + inspect.formatarg... |
def __head(self,h):
"""Return a header string with proper colors."""
return '%s%s%s' % (self.color_table.active_colors.header,h,
self.color_table.active_colors.normal) |
def noinfo(self, msg, oname):
"""Generic message when no information is found."""
print 'No %s found' % msg,
if oname:
print 'for %s' % oname
else:
print |
def pdef(self, obj, oname=''):
"""Print the definition header for any callable object.
If the object is a class, print the constructor information."""
if not callable(obj):
print 'Object is not callable.'
return
header = ''
if inspect.isclass(obj):
... |
def pdoc(self,obj,oname='',formatter = None):
"""Print the docstring for any object.
Optional:
-formatter: a function to run the docstring through for specially
formatted docstrings.
Examples
--------
In [1]: class NoInit:
...: pass
In [... |
def psource(self,obj,oname=''):
"""Print the source code for an object."""
# Flush the source cache because inspect can return out-of-date source
linecache.checkcache()
try:
src = getsource(obj)
except:
self.noinfo('source',oname)
else:
... |
def pfile(self, obj, oname=''):
"""Show the whole file where an object was defined."""
lineno = find_source_lines(obj)
if lineno is None:
self.noinfo('file', oname)
return
ofile = find_file(obj)
# run contents of file through pager starting at li... |
def _format_fields(self, fields, title_width=12):
"""Formats a list of fields for display.
Parameters
----------
fields : list
A list of 2-tuples: (field_title, field_content)
title_width : int
How many characters to pad titles to. Default 12.
"""
... |
def pinfo(self,obj,oname='',formatter=None,info=None,detail_level=0):
"""Show detailed information about an object.
Optional arguments:
- oname: name of the variable pointing to the object.
- formatter: special formatter for docstrings (see pdoc)
- info: a structure with some... |
def info(self, obj, oname='', formatter=None, info=None, detail_level=0):
"""Compute a dict with detailed information about an object.
Optional arguments:
- oname: name of the variable pointing to the object.
- formatter: special formatter for docstrings (see pdoc)
- info: a ... |
def psearch(self,pattern,ns_table,ns_search=[],
ignore_case=False,show_all=False):
"""Search namespaces with wildcards for objects.
Arguments:
- pattern: string containing shell-like wildcards to use in namespace
searches and optionally a type specification to narrow th... |
def threaded_reactor():
"""
Start the Twisted reactor in a separate thread, if not already done.
Returns the reactor.
The thread will automatically be destroyed when all the tests are done.
"""
global _twisted_thread
try:
from twisted.internet import reactor
except ImportError:
... |
def stop_reactor():
"""Stop the reactor and join the reactor thread until it stops.
Call this function in teardown at the module or package level to
reset the twisted system after your tests. You *must* do this if
you mix tests using these tools and tests using twisted.trial.
"""
global _twisted... |
def deferred(timeout=None):
"""
By wrapping a test function with this decorator, you can return a
twisted Deferred and the test will wait for the deferred to be triggered.
The whole test function will run inside the Twisted event loop.
The optional timeout parameter specifies the maximum duration o... |
def find_best_string(query,
corpus,
step=4,
flex=3,
case_sensitive=False):
"""Return best matching substring of corpus.
Parameters
----------
query : str
corpus : str
step : int
Step size of first match-... |
def _singleton_method(name):
"""Return a function to the `name` method on a singleton `coverage` object.
The singleton object is created the first time one of these functions is
called.
"""
# Disable pylint msg W0612, because a bunch of variables look unused, but
# they're accessed via locals(... |
def to_string(self, indent=True, declaration=True):
"""Encodes the stored ``data`` to XML and returns a
``string``.
Setting ``indent`` to ``False`` will forego any pretty-printing
and return a condensed value.
Setting ``declaration`` to ``False`` will skip inserting the
... |
def to_xml(self):
"""Encodes the stored ``data`` to XML and returns
an ``lxml.etree`` value.
"""
if self.data:
self.document = self._update_document(self.document, self.data)
return self.document |
def load_all_modules_in_packages(package_or_set_of_packages):
"""
Recursively loads all modules from a package object, or set of package objects
:param package_or_set_of_packages: package object, or iterable of package objects
:return: list of all unique modules discovered by the function
"""
i... |
def __dict_invert(self, data):
"""Helper function for merge.
Takes a dictionary whose values are lists and returns a dict with
the elements of each list as keys and the original keys as values.
"""
outdict = {}
for k,lst in data.items():
if isinstance(lst, st... |
def merge(self, __loc_data__=None, __conflict_solve=None, **kw):
"""Merge two Structs with customizable conflict resolution.
This is similar to :meth:`update`, but much more flexible. First, a
dict is made from data+key=value pairs. When merging this dict with
the Struct S, the optional... |
def fullvars(obj):
'''
like `vars()` but support `__slots__`.
'''
try:
return vars(obj)
except TypeError:
pass
# __slots__
slotsnames = set()
for cls in type(obj).__mro__:
__slots__ = getattr(cls, '__slots__', None)
if __slots__:
if isinstanc... |
def object_to_primitive(obj):
'''
convert object to primitive type so we can serialize it to data format like python.
all primitive types: dict, list, int, float, bool, str, None
'''
if obj is None:
return obj
if isinstance(obj, (int, float, bool, str)):
return obj
if isin... |
def main(argv=None):
"""Run as a command-line script: colorize a python file or stdin using ANSI
color escapes and print to stdout.
Inputs:
- argv(None): a list of strings like sys.argv[1:] giving the command-line
arguments. If None, use sys.argv[1:].
"""
usage_msg = """%prog [optio... |
def format2(self, raw, out = None, scheme = ''):
""" Parse and send the colored source.
If out and scheme are not specified, the defaults (given to
constructor) are used.
out should be a file-type object. Optionally, out can be given as the
string 'str' and the parser will auto... |
def getfigs(*fig_nums):
"""Get a list of matplotlib figures by figure numbers.
If no arguments are given, all available figures are returned. If the
argument list contains references to invalid figures, a warning is printed
but the function continues pasting further figures.
Parameters
------... |
def print_figure(fig, fmt='png'):
"""Convert a figure to svg or png for inline display."""
# When there's an empty figure, we shouldn't return anything, otherwise we
# get big blank areas in the qt console.
if not fig.axes and not fig.lines:
return
fc = fig.get_facecolor()
ec = fig.get_... |
def mpl_runner(safe_execfile):
"""Factory to return a matplotlib-enabled runner for %run.
Parameters
----------
safe_execfile : function
This must be a function with the same interface as the
:meth:`safe_execfile` method of IPython.
Returns
-------
A function suitable for use a... |
def select_figure_format(shell, fmt):
"""Select figure format for inline backend, either 'png' or 'svg'.
Using this method ensures only one figure format is active at a time.
"""
from matplotlib.figure import Figure
from IPython.zmq.pylab import backend_inline
svg_formatter = shell.display_for... |
def find_gui_and_backend(gui=None):
"""Given a gui string return the gui and mpl backend.
Parameters
----------
gui : str
Can be one of ('tk','gtk','wx','qt','qt4','inline').
Returns
-------
A tuple of (gui, backend) where backend is one of ('TkAgg','GTKAgg',
'WXAgg','Qt4Agg','... |
def activate_matplotlib(backend):
"""Activate the given backend and set interactive to True."""
import matplotlib
if backend.startswith('module://'):
# Work around bug in matplotlib: matplotlib.use converts the
# backend_id to lowercase even if a module name is specified!
matplotlib... |
def import_pylab(user_ns, import_all=True):
"""Import the standard pylab symbols into user_ns."""
# Import numpy as np/pyplot as plt are conventions we're trying to
# somewhat standardize on. Making them available to users by default
# will greatly help this.
s = ("import numpy\n"
"impor... |
def configure_inline_support(shell, backend, user_ns=None):
"""Configure an IPython shell object for matplotlib use.
Parameters
----------
shell : InteractiveShell instance
backend : matplotlib backend
user_ns : dict
A namespace where all configured variables will be placed. If not giv... |
def pylab_activate(user_ns, gui=None, import_all=True, shell=None):
"""Activate pylab mode in the user's namespace.
Loads and initializes numpy, matplotlib and friends for interactive use.
Parameters
----------
user_ns : dict
Namespace where the imports will occur.
gui : optional, strin... |
def _trace(self, frame, event, arg_unused):
"""The trace function passed to sys.settrace."""
if self.stopped:
return
if 0:
sys.stderr.write("trace event: %s %r @%d\n" % (
event, frame.f_code.co_filename, frame.f_lineno
))
if self.las... |
def start(self):
"""Start this Tracer.
Return a Python function suitable for use with sys.settrace().
"""
self.thread = threading.currentThread()
sys.settrace(self._trace)
return self._trace |
def stop(self):
"""Stop this Tracer."""
self.stopped = True
if self.thread != threading.currentThread():
# Called on a different thread than started us: we can't unhook
# ourseves, but we've set the flag that we should stop, so we won't
# do any more tracing.
... |
def _start_tracer(self):
"""Start a new Tracer object, and store it in self.tracers."""
tracer = self._trace_class()
tracer.data = self.data
tracer.arcs = self.branch
tracer.should_trace = self.should_trace
tracer.should_trace_cache = self.should_trace_cache
trace... |
def _installation_trace(self, frame_unused, event_unused, arg_unused):
"""Called on new threads, installs the real tracer."""
# Remove ourselves as the trace function
sys.settrace(None)
# Install the real tracer.
fn = self._start_tracer()
# Invoke the real trace function ... |
def start(self):
"""Start collecting trace information."""
if self._collectors:
self._collectors[-1].pause()
self._collectors.append(self)
#print("Started: %r" % self._collectors, file=sys.stderr)
# Check to see whether we had a fullcoverage tracer installed.
... |
def stop(self):
"""Stop collecting trace information."""
#print >>sys.stderr, "Stopping: %r" % self._collectors
assert self._collectors
assert self._collectors[-1] is self
self.pause()
self.tracers = []
# Remove this Collector from the stack, and resume the one ... |
def pause(self):
"""Pause tracing, but be prepared to `resume`."""
for tracer in self.tracers:
tracer.stop()
stats = tracer.get_stats()
if stats:
print("\nCoverage.py tracer stats:")
for k in sorted(stats.keys()):
pr... |
def resume(self):
"""Resume tracing after a `pause`."""
for tracer in self.tracers:
tracer.start()
threading.settrace(self._installation_trace) |
def get_line_data(self):
"""Return the line data collected.
Data is { filename: { lineno: None, ...}, ...}
"""
if self.branch:
# If we were measuring branches, then we have to re-build the dict
# to show line data.
line_data = {}
for f, a... |
def new_code_cell(code=None, prompt_number=None):
"""Create a new code cell with input and output"""
cell = NotebookNode()
cell.cell_type = u'code'
if code is not None:
cell.code = unicode(code)
if prompt_number is not None:
cell.prompt_number = int(prompt_number)
return cell |
def new_text_cell(text=None):
"""Create a new text cell."""
cell = NotebookNode()
if text is not None:
cell.text = unicode(text)
cell.cell_type = u'text'
return cell |
def new_notebook(cells=None):
"""Create a notebook by name, id and a list of worksheets."""
nb = NotebookNode()
if cells is not None:
nb.cells = cells
else:
nb.cells = []
return nb |
def eq_(a, b, msg=None):
"""Shorthand for 'assert a == b, "%r != %r" % (a, b)
"""
if not a == b:
raise AssertionError(msg or "%r != %r" % (a, b)) |
def collect_exceptions(rdict_or_list, method='unspecified'):
"""check a result dict for errors, and raise CompositeError if any exist.
Passthrough otherwise."""
elist = []
if isinstance(rdict_or_list, dict):
rlist = rdict_or_list.values()
else:
rlist = rdict_or_list
for r in rlis... |
def render_traceback(self, excid=None):
"""render one or all of my tracebacks to a list of lines"""
lines = []
if excid is None:
for (en,ev,etb,ei) in self.elist:
lines.append(self._get_engine_str(ei))
lines.extend((etb or 'No traceback available').spl... |
def process_startup():
"""Call this at Python startup to perhaps measure coverage.
If the environment variable COVERAGE_PROCESS_START is defined, coverage
measurement is started. The value of the variable is the config file
to use.
There are two ways to configure your Python installation to invok... |
def _canonical_dir(self, morf):
"""Return the canonical directory of the module or file `morf`."""
return os.path.split(CodeUnit(morf, self.file_locator).filename)[0] |
def _source_for_file(self, filename):
"""Return the source file for `filename`."""
if not filename.endswith(".py"):
if filename[-4:-1] == ".py":
filename = filename[:-1]
elif filename.endswith("$py.class"): # jython
filename = filename[:-9] + ".py"... |
def _should_trace_with_reason(self, filename, frame):
"""Decide whether to trace execution in `filename`, with a reason.
This function is called from the trace function. As each new file name
is encountered, this function determines whether it is traced or not.
Returns a pair of value... |
def _should_trace(self, filename, frame):
"""Decide whether to trace execution in `filename`.
Calls `_should_trace_with_reason`, and returns just the decision.
"""
canonical, reason = self._should_trace_with_reason(filename, frame)
if self.debug.should('trace'):
if ... |
def _warn(self, msg):
"""Use `msg` as a warning."""
self._warnings.append(msg)
sys.stderr.write("Coverage.py warning: %s\n" % msg) |
def _check_for_packages(self):
"""Update the source_match matcher with latest imported packages."""
# Our self.source_pkgs attribute is a list of package names we want to
# measure. Each time through here, we see if we've imported any of
# them yet. If so, we add its file to source_mat... |
def start(self):
"""Start measuring code coverage.
Coverage measurement actually occurs in functions called after `start`
is invoked. Statements in the same scope as `start` won't be measured.
Once you invoke `start`, you must also call `stop` eventually, or your
process might... |
def _atexit(self):
"""Clean up on process shutdown."""
if self._started:
self.stop()
if self.auto_data:
self.save() |
def exclude(self, regex, which='exclude'):
"""Exclude source lines from execution consideration.
A number of lists of regular expressions are maintained. Each list
selects lines that are treated differently during reporting.
`which` determines which list is modified. The "exclude" li... |
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