Code stringlengths 103 85.9k | Summary listlengths 0 94 |
|---|---|
Please provide a description of the function:def _buildTemplates(self):
# INDEX - MAIN PAGE
contents = self._renderTemplate("html-multi/index.html", extraContext={"theme": self.theme, "index_page_flag" : True})
FILE_NAME = "index.html"
main_url = self._save2File(contents, FILE_N... | [
"\n OVERRIDING THIS METHOD from Factory\n "
] |
Please provide a description of the function:def main(argv=None):
print("Ontospy " + ontospy.VERSION)
ontospy.get_or_create_home_repo()
if argv:
print("Argument passing not implemented yet")
if False:
onto = Model(argv[0])
for x in onto.get_classes():
print(x)
onto.buildPythonClasses()
s = Sk... | [
"\n\tSeptember 18, 2014: if an arg is passed, we visualize it\n\tOtherwise a simple shell gets opened.\n\n\t",
"Good morning. Ready to Turtle away. Type docs() for help."
] |
Please provide a description of the function:def add(self, text="", default_continuousAdd=True):
if not text and default_continuousAdd:
self.continuousAdd()
else:
pprefix = ""
for x,y in self.rdflib_graph.namespaces():
pprefix += "@prefix %s: <%s> . \n" % (x, y)
# add final . if missing
if tex... | [
"add some turtle text"
] |
Please provide a description of the function:def rdf_source(self, aformat="turtle"):
if aformat and aformat not in self.SUPPORTED_FORMATS:
return "Sorry. Allowed formats are %s" % str(self.SUPPORTED_FORMATS)
if aformat == "dot":
return self.__serializedDot()
else:
# use stardard rdf serializations
... | [
"\n\t\tSerialize graph using the format required\n\t\t"
] |
Please provide a description of the function:def __serializedDot(self):
temp = ""
for x,y,z in self.rdflib_graph.triples((None, None, None)):
temp += % (self.namespace_manager.normalizeUri(x), self.namespace_manager.normalizeUri(z), self.namespace_manager.normalizeUri(y))
temp = "digraph graphname {\n%s}" ... | [
"\n\t\tDOT format:\n\t\tdigraph graphname {\n\t\t\t a -> b [label=instanceOf];\n\t\t\t b -> d [label=isA];\n\t\t }\n\t\t",
"\"%s\" -> \"%s\" [label=\"%s\"];\\n"
] |
Please provide a description of the function:def omnigraffle(self):
temp = self.rdf_source("dot")
try: # try to put in the user/tmp folder
from os.path import expanduser
home = expanduser("~")
filename = home + "/tmp/turtle_sketch.dot"
f = open(filename, "w")
except:
filename = "turtle_sketch.... | [
" tries to open an export directly in omnigraffle "
] |
Please provide a description of the function:def _get_prompt(onto="", entity=""):
base_text, onto_text, entity_text = "", "", ""
base_color, onto_color, entity_color = Fore.RED + Style.BRIGHT, Fore.BLACK + Style.DIM, Fore.BLACK
if not onto and not entity:
base_text = base_color + '[Ontospy]' +... | [
"\n Global util that changes the prompt contextually\n :return: [Ontospy]>(cidoc_crm_v5.0...)>(class:E1.CRM_Entity)>\n "
] |
Please provide a description of the function:def main():
print("Ontospy " + VERSION)
Shell()._clear_screen()
print(Style.BRIGHT + "** Ontospy Interactive Ontology Browser " + VERSION + " **" + Style.RESET_ALL)
# manager.get_or_create_home_repo()
Shell().cmdloop()
raise SystemExit(1) | [
" standalone line script "
] |
Please provide a description of the function:def print_topics(self, header, cmds, cmdlen, maxcol):
if header:
if cmds:
self.stdout.write("%s\n" % str(header))
if self.ruler:
self.stdout.write("%s\n" % str(self.ruler * len(header)))
... | [
"Override 'print_topics' so that you can exclude EOF and shell.\n 2016-02-12: added to test, copied from\n https://github.com/xlcnd/isbntools/blob/master/isbntools/bin/repl.py\n "
] |
Please provide a description of the function:def _print(self, ms, style="TIP"):
styles1 = {'IMPORTANT': Style.BRIGHT,
'TIP': Style.DIM,
'URI': Style.BRIGHT,
'TEXT': Fore.GREEN,
'MAGENTA': Fore.MAGENTA,
'BLUE'... | [
" abstraction for managing color printing "
] |
Please provide a description of the function:def _printM(self, messages):
if len(messages) == 2:
print(Style.BRIGHT + messages[0] + Style.RESET_ALL +
Fore.BLUE + messages[1] + Style.RESET_ALL)
else:
print("Not implemented") | [
"print a list of strings - for the mom used only by stats printout"
] |
Please provide a description of the function:def _joinedQnames(self, _list):
try:
s = "; ".join([p.qname for p in _list])
except:
s = "; ".join([p for p in _list])
return s | [
"util for returning a string joinin names of entities *used only in info command*"
] |
Please provide a description of the function:def _printTriples(self, entity):
self._print("----------------", "TIP")
self._print(unicode(entity.uri), "IMPORTANT")
for x in entity.triples:
self._print("=> " + unicode(x[1]), "MAGENTA")
self._print(".... " + unicode... | [
" display triples "
] |
Please provide a description of the function:def _print_entity_intro(self, g=None, entity=None, first_time=True):
if entity:
self._clear_screen()
obj = entity['object']
self._print("Loaded %s: <%s>" % (entity['type'].capitalize(), str(obj.uri)), "TIP")
se... | [
"after a selection, prints on screen basic info about onto or entity, plus change prompt\n 2015-10-18: removed the sound\n 2016-01-18: entity is the shell wrapper around the ontospy entity\n "
] |
Please provide a description of the function:def _printStats(self, graph, hrlinetop=False):
if hrlinetop:
self._print("----------------", "TIP")
self._print("Ontologies......: %d" % len(graph.all_ontologies), "TIP")
self._print("Classes.........: %d" % len(graph.all_classes)... | [
" shotcut to pull out useful info for interactive use\n 2016-05-11: note this is a local version of graph.printStats()\n "
] |
Please provide a description of the function:def _printDescription(self, hrlinetop=True):
if hrlinetop:
self._print("----------------")
NOTFOUND = "[not found]"
if self.currentEntity:
obj = self.currentEntity['object']
label = obj.bestLabel() or NOTFO... | [
"generic method to print out a description"
] |
Please provide a description of the function:def _printTaxonomy(self, hrlinetop=True):
if not self.currentEntity: # ==> ontology level
return
if hrlinetop:
self._print("----------------")
self._print("TAXONOMY:", "IMPORTANT")
x = self.currentEntity['obje... | [
"\n print(a local taxonomy for the object)\n "
] |
Please provide a description of the function:def _printClassDomain(self, hrlinetop=True, print_inferred=False):
if not self.currentEntity: # ==> ontology level
return
x = self.currentEntity['object']
if self.currentEntity['type'] == 'class':
if hrlinetop:
... | [
"\n print(more informative stats about the object)\n 2016-06-14: added inferred option\n "
] |
Please provide a description of the function:def _printClassRange(self, hrlinetop=True, print_inferred=False):
if not self.currentEntity: # ==> ontology level
return
x = self.currentEntity['object']
if self.currentEntity['type'] == 'class':
if hrlinetop:
... | [
"\n print(more informative stats about the object)\n 2016-06-14: added inferred option\n "
] |
Please provide a description of the function:def _printPropertyDomainRange(self, hrlinetop=True):
if not self.currentEntity: # ==> ontology level
return
x = self.currentEntity['object']
if self.currentEntity['type'] == 'property':
if hrlinetop:
s... | [
"\n print(more informative stats about the object)\n "
] |
Please provide a description of the function:def _printInstances(self, hrlinetop=True):
if not self.currentEntity: # ==> ontology level
return
x = self.currentEntity['object']
if self.currentEntity['type'] == 'class':
if hrlinetop:
self._print("-... | [
"\n print(more informative stats about the object)\n "
] |
Please provide a description of the function:def _printSourceCode(self, hrlinetop=True):
if not self.currentEntity: # ==> ontology level
return
x = self.currentEntity['object']
if hrlinetop:
self._print("----------------")
self._print("Source:", "IMPORT... | [
"\n print(more informative stats about the object)\n "
] |
Please provide a description of the function:def _selectFromList(self, _list, using_pattern=True, objtype=None):
if not _list:
self._print("No matching items.", "TIP")
return None
if using_pattern and len(_list) == 1: # removed
pass
# return _lis... | [
"\n Generic method that lets users pick an item from a list via input\n *using_pattern* flag to know if we're showing all choices or not\n Note: the list items need to be Ontospy entities.\n <objtype>: if specified, it allows incremental search by keeping specifying a\n different ... |
Please provide a description of the function:def _next_ontology(self):
currentfile = self.current['file']
try:
idx = self.all_ontologies.index(currentfile)
return self.all_ontologies[idx+1]
except:
return self.all_ontologies[0] | [
"Dynamically retrieves the next ontology in the list"
] |
Please provide a description of the function:def _load_ontology(self, filename, preview_mode=False):
if not preview_mode:
fullpath = self.LOCAL_MODELS + filename
g = manager.get_pickled_ontology(filename)
if not g:
g = manager.do_pickle_ontology(filen... | [
"\n Loads an ontology\n\n Unless preview_mode=True, it is always loaded from the local repository\n note: if the ontology does not have a cached version, it is created\n\n preview_mode: used to pass a URI/path to be inspected without saving it locally\n "
] |
Please provide a description of the function:def _select_ontology(self, line):
try:
var = int(line) # it's a string
if var in range(1, len(self.all_ontologies)+1):
self._load_ontology(self.all_ontologies[var-1])
except ValueError:
out = []
... | [
"try to select an ontology NP: the actual load from FS is in <_load_ontology> "
] |
Please provide a description of the function:def _select_class(self, line):
g = self.current['graph']
if not line:
out = g.all_classes
using_pattern = False
else:
using_pattern = True
if line.isdigit():
line = int(line)
... | [
"\n try to match a class and load it from the graph\n NOTE: the g.get_class(pattern) method does the heavy lifting\n "
] |
Please provide a description of the function:def _select_property(self, line):
g = self.current['graph']
if not line:
out = g.all_properties
using_pattern = False
else:
using_pattern = True
if line.isdigit():
line = int(lin... | [
"try to match a property and load it"
] |
Please provide a description of the function:def _select_concept(self, line):
g = self.current['graph']
if not line:
out = g.all_skos_concepts
using_pattern = False
else:
using_pattern = True
if line.isdigit():
line = int(l... | [
"try to match a class and load it"
] |
Please provide a description of the function:def _delete_file(self, line=""):
if not self.all_ontologies:
self._help_nofiles()
else:
out = []
for each in self.all_ontologies:
if line in each:
out += [each]
cho... | [
"\tDelete an ontology\n 2016-04-11: not a direct command anymore "
] |
Please provide a description of the function:def _rename_file(self, line=""):
if not self.all_ontologies:
self._help_nofiles()
else:
out = []
for each in self.all_ontologies:
if line in each:
out += [each]
choi... | [
"Rename an ontology\n 2016-04-11: not a direct command anymore "
] |
Please provide a description of the function:def do_ls(self, line):
opts = self.LS_OPTS
line = line.split()
_pattern = ""
if len(line) == 0:
# default contextual behaviour [2016-03-01]
if not self.current:
line = ["ontologies"]
... | [
"Shows entities of a given kind."
] |
Please provide a description of the function:def do_tree(self, line):
opts = self.TREE_OPTS
line = line.split()
_pattern = ""
if not self.current:
self._help_noontology()
return
if len(line) == 0:
# default contextual behaviour [2016... | [
"Shows entities of a given kind."
] |
Please provide a description of the function:def do_get(self, line):
line = line.split()
_pattern = ""
if len(line) > 1:
_pattern = line[1]
opts = self.GET_OPTS
if (not line) or (line[0] not in opts) or (not _pattern):
self.help_get()
... | [
"Finds entities matching a given string pattern. \\nOptions: [ ontologies | classes | properties | concepts ]"
] |
Please provide a description of the function:def do_info(self, line):
# opts = [ 'namespaces', 'description', 'overview', 'toplayer', 'parents', 'children', 'stats', 'triples' ]
opts = self.INFO_OPTS
if not self.current:
self._help_noontology()
return
l... | [
"Inspect the current entity and display a nice summary of key properties"
] |
Please provide a description of the function:def do_visualize(self, line):
if not self.current:
self._help_noontology()
return
line = line.split()
try:
# from ..viz.builder import action_visualize
from ..ontodocs.builder import action_v... | [
"Visualize an ontology - ie wrapper for export command"
] |
Please provide a description of the function:def do_import(self, line):
line = line.split()
if line and line[0] == "starter-pack":
actions.action_bootstrap()
elif line and line[0] == "uri":
self._print(
"------------------\nEnter a valid graph ... | [
"Import an ontology"
] |
Please provide a description of the function:def do_file(self, line):
opts = self.FILE_OPTS
if not self.all_ontologies:
self._help_nofiles()
return
line = line.split()
if not line or line[0] not in opts:
self.help_file()
return
... | [
"PErform some file operation"
] |
Please provide a description of the function:def do_serialize(self, line):
opts = self.SERIALIZE_OPTS
if not self.current:
self._help_noontology()
return
line = line.split()
g = self.current['graph']
if not line:
line = ['turtle']
... | [
"Serialize an entity into an RDF flavour"
] |
Please provide a description of the function:def do_next(self, line):
if not self.current:
print("Please select an ontology first. E.g. use the 'ls ontologies' or 'get ontology <name>' commands.")
elif self.currentEntity:
g = self.current['graph']
if self.cur... | [
"Jump to the next entities (ontology, class or property) depending on context"
] |
Please provide a description of the function:def do_back(self, line):
"Go back one step. From entity => ontology; from ontology => ontospy top level."
if self.currentEntity:
self.currentEntity = None
self.prompt = _get_prompt(self.current['file'])
else:
self.c... | [] |
Please provide a description of the function:def do_zen(self, line):
_quote = random.choice(QUOTES)
# print(_quote['source'])
print(Style.DIM + unicode(_quote['text']))
print(Style.BRIGHT + unicode(_quote['source']) + Style.RESET_ALL) | [
"Inspiring quotes for the working ontologist"
] |
Please provide a description of the function:def _do_shell(self, line):
if not line:
return
sp = Popen(line,
shell=True,
stdin=PIPE,
stdout=PIPE,
stderr=PIPE,
close_fds=not WINDOWS)
... | [
"Send a command to the Unix shell.\\n==> Usage: shell ls ~"
] |
Please provide a description of the function:def complete_ls(self, text, line, begidx, endidx):
options = self.LS_OPTS
if not text:
completions = options
else:
completions = [f
for f in options
if f.startswi... | [
"completion for ls command"
] |
Please provide a description of the function:def complete_tree(self, text, line, begidx, endidx):
options = self.TREE_OPTS
if not text:
completions = options
else:
completions = [f
for f in options
if f.star... | [
"completion for ls command"
] |
Please provide a description of the function:def complete_get(self, text, line, begidx, endidx):
options = self.GET_OPTS
if not text:
completions = options
else:
completions = [f
for f in options
if f.starts... | [
"completion for find command"
] |
Please provide a description of the function:def complete_info(self, text, line, begidx, endidx):
opts = self.INFO_OPTS
if not text:
completions = opts
else:
completions = [f
for f in opts
if f.startswith(te... | [
"completion for info command"
] |
Please provide a description of the function:def complete_import(self, text, line, begidx, endidx):
opts = self.IMPORT_OPTS
if not text:
completions = opts
else:
completions = [f
for f in opts
if f.startswit... | [
"completion for serialize command"
] |
Please provide a description of the function:def complete_serialize(self, text, line, begidx, endidx):
opts = self.SERIALIZE_OPTS
if not text:
completions = opts
else:
completions = [f
for f in opts
if f.sta... | [
"completion for serialize command"
] |
Please provide a description of the function:def complete_visualize(self, text, line, begidx, endidx):
opts = self.VISUALIZE_OPTS
if not text:
completions = opts
else:
completions = [f
for f in opts
if f.sta... | [
"completion for file command"
] |
Please provide a description of the function:def complete_file(self, text, line, begidx, endidx):
opts = self.FILE_OPTS
if not text:
completions = opts
else:
completions = [f
for f in opts
if f.startswith(te... | [
"completion for file command"
] |
Please provide a description of the function:def build_D3treeStandard(old, MAX_DEPTH, level=1, toplayer=None):
out = []
if not old:
old = toplayer
for x in old:
d = {}
# print "*" * level, x.label
d['qname'] = x.qname
d['name'] = x.bestLabel(quotes=False).replace... | [
"\n\t For d3s examples all we need is a json with name, children and size .. eg\n\n\t {\n\t \"name\": \"flare\",\n\t \"children\": [\n\t {\n\t \"name\": \"analytics\",\n\t \"children\": [\n\t\t{\n\t\t \"name\": \"cluster\",\n\t\t \"children\": [\n\t\t {\"name\": \"AgglomerativeCluster\", \"size\": 3938},\n\... |
Please provide a description of the function:def build_D3bubbleChart(old, MAX_DEPTH, level=1, toplayer=None):
out = []
if not old:
old = toplayer
for x in old:
d = {}
# print "*" * level, x.label
d['qname'] = x.qname
d['name'] = x.bestLabel(quotes=False).replace(... | [
"\n\t Similar to standar d3, but nodes with children need to be duplicated otherwise they are\n\t not depicted explicitly but just color coded\n\n\t\"name\": \"all\",\n\t\"children\": [\n\t\t{\"name\": \"Biological Science\", \"size\": 9000},\n\t\t {\"name\": \"Biological Science\", \"children\": [\n\t\t\t {\"na... |
Please provide a description of the function:def build_D3treepie(old, MAX_DEPTH, level=1, toplayer=None):
d = {}
if not old:
old = toplayer
for x in old:
label = x.bestLabel(quotes=False).replace("_", " ")
if x.children() and level < MAX_DEPTH:
size = len(x.children(... | [
"\n\tCreate the JSON needed by the treePie viz\n\thttp://bl.ocks.org/adewes/4710330/94a7c0aeb6f09d681dbfdd0e5150578e4935c6ae\n\n\tEg\n\n\t['origin' , [n1, n2],\n\t\t\t{ 'name1' :\n\t\t\t\t['name1', [n1, n2],\n\t\t\t\t\t{'name1-1' : ...}\n\t\t\t\t] ,\n\t\t\t} ,\n\t]\n\n\t"
] |
Please provide a description of the function:def formatHTML_EntityTreeTable(treedict, element=0):
# ontoFile = onto.ontologyMaskedLocation or onto.ontologyPhysicalLocation
# if not treedict:
# treedict = onto.ontologyClassTree()
stringa =
for x in treedict[element]:
if x.qname == "owl... | [
" outputs an html tree representation based on the dictionary we get from the Inspector\n\tobject....\n\n\tEG:\n\t<table class=h>\n\n\t\t<tr>\n\t\t <td class=\"tc\" colspan=4><a href=\"../DataType\">DataType</a>\n\t\t </td>\n\t\t</tr>\n\t\t<tr>\n\t\t <td class=\"tc\" colspan=4><a href=\"../DataType\">DataType</a... |
Please provide a description of the function:def compare(referenceOnto, somegraph):
spy1 = Ontology(referenceOnto)
spy2 = Ontology(somegraph)
class_comparison = {}
for x in spy2.allclasses:
if x not in spy1.allclasses:
class_comparison[x] = False
else:
class_comparison[x] = True
prop_comparison = {}... | [
"\n\tDesc\n\t"
] |
Please provide a description of the function:def printComparison(results, class_or_prop):
data = []
Row = namedtuple('Row',[class_or_prop,'VALIDATED'])
for k,v in sorted(results.items(), key=lambda x: x[1]):
data += [Row(k, str(v))]
pprinttable(data) | [
"\n\tprint(out the results of the comparison using a nice table)\n\t"
] |
Please provide a description of the function:def parse_options():
parser = optparse.OptionParser(usage=USAGE, version=VERSION)
parser.add_option("-o", "--ontology",
action="store", type="string", default="", dest="ontology",
help="Specifies which ontology to compare to.")
opts, args = parser.parse_args()
... | [
"\n\tparse_options() -> opts, args\n\n\tParse any command-line options given returning both\n\tthe parsed options and arguments.\n\t"
] |
Please provide a description of the function:def infer_best_title(self):
if self.ontospy_graph.all_ontologies:
return self.ontospy_graph.all_ontologies[0].uri
elif self.ontospy_graph.sources:
return self.ontospy_graph.sources[0]
else:
return "Untitled... | [
"Selects something usable as a title for an ontospy graph"
] |
Please provide a description of the function:def build(self, output_path=""):
self.output_path = self.checkOutputPath(output_path)
self._buildStaticFiles()
self.final_url = self._buildTemplates()
printDebug("Done.", "comment")
printDebug("=> %s" % (self.final_url), "com... | [
"method that should be inherited by all vis classes"
] |
Please provide a description of the function:def _buildTemplates(self):
# in this case we only have one
contents = self._renderTemplate(self.template_name, extraContext=None)
# the main url used for opening viz
f = self.main_file_name
main_url = self._save2File(contents... | [
"\n do all the things necessary to build the viz\n should be adapted to work for single-file viz, or multi-files etc.\n\n :param output_path:\n :return:\n "
] |
Please provide a description of the function:def _buildStaticFiles(self):
if not self.output_path_static:
self.output_path_static = os.path.join(self.output_path, "static")
# printDebug(self.output_path_static, "red")
if not os.path.exists(self.output_path_static):
... | [
" move over static files so that relative imports work\n Note: if a dir is passed, it is copied with all of its contents\n If the file is a zip, it is copied and extracted too\n # By default folder name is 'static', unless *output_path_static* is passed (now allowed only in special applications... |
Please provide a description of the function:def _build_basic_context(self):
# printDebug(str(self.ontospy_graph.toplayer_classes))
topclasses = self.ontospy_graph.toplayer_classes[:]
if len(topclasses) < 3: # massage the toplayer!
for topclass in self.ontospy_graph.toplaye... | [
"\n Return a standard dict used in django as a template context\n "
] |
Please provide a description of the function:def checkOutputPath(self, output_path):
if not output_path:
# output_path = self.output_path_DEFAULT
output_path = os.path.join(self.output_path_DEFAULT,
slugify(unicode(self.title)))
if ... | [
"\n Create or clean up output path\n "
] |
Please provide a description of the function:def highlight_code(self, ontospy_entity):
try:
pygments_code = highlight(ontospy_entity.rdf_source(),
TurtleLexer(), HtmlFormatter())
pygments_code_css = HtmlFormatter().get_style_defs('.highlight... | [
"\n produce an html version of Turtle code with syntax highlighted\n using Pygments CSS\n "
] |
Please provide a description of the function:def query(self, q, format="", convert=True):
lines = ["PREFIX %s: <%s>" % (k, r) for k, r in self.prefixes.iteritems()]
lines.extend(q.split("\n"))
query = "\n".join(lines)
if self.verbose:
print(query, "\n\n")
return self.__doQuery(query, format, convert) | [
"\n\t\tGeneric SELECT query structure. 'q' is the main body of the query.\n\n\t\tThe results passed out are not converted yet: see the 'format' method\n\t\tResults could be iterated using the idiom: for l in obj : do_something_with_line(l)\n\n\t\tIf convert is False, we return the collection of rdflib instances\n\n... |
Please provide a description of the function:def describe(self, uri, format="", convert=True):
lines = ["PREFIX %s: <%s>" % (k, r) for k, r in self.prefixes.iteritems()]
if uri.startswith("http://"):
lines.extend(["DESCRIBE <%s>" % uri])
else: # it's a shortened uri
lines.extend(["DESCRIBE %s" % uri])
... | [
"\n\t\tA simple DESCRIBE query with no 'where' arguments. 'uri' is the resource you want to describe.\n\n\t\tTODO: there are some errors with describe queries, due to the results being sent back\n\t\tFor the moment we're not using them much.. needs to be tested more.\n\n\t\t"
] |
Please provide a description of the function:def __getFormat(self, format):
if format == "XML":
self.sparql.setReturnFormat(XML)
self.format = "XML"
elif format == "RDF":
self.sparql.setReturnFormat(RDF)
self.format = "RDF"
else:
self.sparql.setReturnFormat(JSON)
self.format = "JSON" | [
"\n\t\tDefaults to JSON [ps: 'RDF' is the native rdflib representation]\n\t\t"
] |
Please provide a description of the function:def __doQuery(self, query, format, convert):
self.__getFormat(format)
self.sparql.setQuery(query)
if convert:
results = self.sparql.query().convert()
else:
results = self.sparql.query()
return results | [
"\n\t\tInner method that does the actual query\n\t\t"
] |
Please provide a description of the function:def get_home_location():
config = SafeConfigParser()
config_filename = ONTOSPY_LOCAL + '/config.ini'
if not os.path.exists(config_filename):
config_filename = 'config.ini'
config.read(config_filename)
try:
_location = config.get('mo... | [
"Gets the path of the local library folder\n :return - a string e.g. \"/users/mac/ontospy\"\n "
] |
Please provide a description of the function:def get_localontologies(pattern=""):
"returns a list of file names in the ontologies folder (not the full path)"
res = []
ONTOSPY_LOCAL_MODELS = get_home_location()
if not os.path.exists(ONTOSPY_LOCAL_MODELS):
get_or_create_home_repo()
for f in os... | [] |
Please provide a description of the function:def get_random_ontology(TOP_RANGE=10, pattern=""):
choices = get_localontologies(pattern=pattern)
try:
ontouri = choices[random.randint(0, TOP_RANGE)] # [0]
except:
ontouri = choices[0]
print("Testing with URI: %s" % ontouri)
g = get... | [
"for testing purposes. Returns a random ontology/graph"
] |
Please provide a description of the function:def get_pickled_ontology(filename):
pickledfile = os.path.join(ONTOSPY_LOCAL_CACHE, filename + ".pickle")
# pickledfile = ONTOSPY_LOCAL_CACHE + "/" + filename + ".pickle"
if GLOBAL_DISABLE_CACHE:
printDebug(
"WARNING: DEMO MODE cache has ... | [
" try to retrieve a cached ontology "
] |
Please provide a description of the function:def do_pickle_ontology(filename, g=None):
ONTOSPY_LOCAL_MODELS = get_home_location()
get_or_create_home_repo() # ensure all the right folders are there
pickledpath = os.path.join(ONTOSPY_LOCAL_CACHE, filename + ".pickle")
# pickledpath = ONTOSPY_LOCAL_C... | [
"\n from a valid filename, generate the graph instance and pickle it too\n note: option to pass a pre-generated graph instance too\n 2015-09-17: added code to increase recursion limit if cPickle fails\n see http://stackoverflow.com/questions/2134706/hitting-maximum-recursion-depth-using-pythons-pick... |
Please provide a description of the function:def clear_screen():
import os, platform
if platform.system() == "Windows":
tmp = os.system('cls') #for window
else:
tmp = os.system('clear') #for Linux
return True | [
" http://stackoverflow.com/questions/18937058/python-clear-screen-in-shell "
] |
Please provide a description of the function:def get_default_preds():
g = ontospy.Ontospy(rdfsschema, text=True, verbose=False, hide_base_schemas=False)
classes = [(x.qname, x.bestDescription()) for x in g.all_classes]
properties = [(x.qname, x.bestDescription()) for x in g.all_properties]
commands... | [
"dynamically build autocomplete options based on an external file"
] |
Please provide a description of the function:def _buildTemplates(self):
# Ontology - MAIN PAGE
contents = self._renderTemplate(
"markdown/markdown_ontoinfo.md", extraContext=None)
FILE_NAME = "index.md"
main_url = self._save2File(contents, FILE_NAME, self.output_pat... | [
"\n OVERRIDING THIS METHOD from Factory\n "
] |
Please provide a description of the function:def matcher(graph1, graph2, confidence=0.5, output_file="matching_results.csv", class_or_prop="classes", verbose=False):
printDebug("----------\nNow matching...")
f = open(output_file, 'wt')
counter = 0
try:
writer = csv.writer(f, quoting=csv.QUOTE_NONNUMERIC)
w... | [
"\n\ttakes two graphs and matches its classes based on qname, label etc..\n\t@todo extend to properties and skos etc..\n\t"
] |
Please provide a description of the function:def main():
print("Ontospy " + ontospy.VERSION)
ontospy.get_or_create_home_repo()
opts, args = parse_options()
if len(args) < 2:
printDebug("Please provide two arguments, or use -h for more options.")
sys.exit(0)
var = input("Match classes or properties? [c|p,... | [
" command line script "
] |
Please provide a description of the function:def _buildTemplates(self):
c_mylist = build_D3treeStandard(0, 99, 1,
self.ontospy_graph.toplayer_classes)
p_mylist = build_D3treeStandard(0, 99, 1,
self.ontospy_graph.to... | [
"\n OVERRIDING THIS METHOD from Factory\n "
] |
Please provide a description of the function:def hello():
click.clear()
click.secho('Hello World!', fg='green')
click.secho('Some more text', bg='blue', fg='white')
click.secho('ATTENTION', blink=True, bold=True)
click.echo('Continue? [yn] ', nl=False)
c = click.getchar()
click.echo()
... | [
"\"http://click.pocoo.org/5/\n http://click.pocoo.org/5/api/\n "
] |
Please provide a description of the function:def safe_str(u, errors="replace"):
s = u.encode(sys.stdout.encoding or "utf-8", errors)
return s | [
"Safely print the given string.\n\n If you want to see the code points for unprintable characters then you\n can use `errors=\"xmlcharrefreplace\"`.\n http://code.activestate.com/recipes/576602-safe-print/\n "
] |
Please provide a description of the function:def list_chunks(l, n):
for i in xrange(0, len(l), n):
yield l[i:i + n] | [
"Yield successive n-sized chunks from l.\n\n import pprint\n pprint.pprint(list(chunks(range(10, 75), 10)))\n [[10, 11, 12, 13, 14, 15, 16, 17, 18, 19],\n [20, 21, 22, 23, 24, 25, 26, 27, 28, 29],\n [30, 31, 32, 33, 34, 35, 36, 37, 38, 39],\n [40, 41, 42, 43, 44, 45, 46, 47, 48, 49],\n [50,... |
Please provide a description of the function:def split_list(alist, wanted_parts=1):
length = len(alist)
return [
alist[i * length // wanted_parts:(i + 1) * length // wanted_parts]
for i in range(wanted_parts)
] | [
"\n A = [0,1,2,3,4,5,6,7,8,9]\n\n print split_list(A, wanted_parts=1)\n print split_list(A, wanted_parts=2)\n print split_list(A, wanted_parts=8)\n "
] |
Please provide a description of the function:def remove_duplicates(seq, idfun=None):
# order preserving
if idfun is None:
def idfun(x):
return x
seen = {}
result = []
for item in seq:
marker = idfun(item)
# in old Python versions:
# if seen.has_key(... | [
" removes duplicates from a list, order preserving, as found in\n http://www.peterbe.com/plog/uniqifiers-benchmark\n "
] |
Please provide a description of the function:def printDebug(text, mystyle="", **kwargs):
if mystyle == "comment":
click.secho(text, dim=True, err=True)
elif mystyle == "important":
click.secho(text, bold=True, err=True)
elif mystyle == "normal":
click.secho(text, reset=True, er... | [
"\n util for printing in colors using click.secho()\n\n :kwargs = you can do printDebug(\"s\", bold=True)\n\n 2018-12-06: by default print to standard error (err=True)\n\n Styling output:\n <http://click.pocoo.org/5/api/#click.style>\n Styles a text with ANSI styles and returns the new string. By ... |
Please provide a description of the function:def OLD_printDebug(s, style=None):
if style == "comment":
s = Style.DIM + s + Style.RESET_ALL
elif style == "important":
s = Style.BRIGHT + s + Style.RESET_ALL
elif style == "normal":
s = Style.RESET_ALL + s + Style.RESET_ALL
elif... | [
"\n util for printing in colors to sys.stderr stream\n "
] |
Please provide a description of the function:def pprint2columns(llist, max_length=60):
if len(llist) == 0:
return None
col_width = max(len(word) for word in llist) + 2 # padding
# llist length must be even, otherwise splitting fails
if not len(llist) % 2 == 0:
llist += [' '] # a... | [
"\n llist = a list of strings\n max_length = if a word is longer than that, for single col display\n\n > prints a list in two columns, taking care of alignment too\n "
] |
Please provide a description of the function:def save_anonymous_gist(title, files):
try:
from github3 import create_gist
except:
print("github3 library not found (pip install github3)")
raise SystemExit(1)
gist = create_gist(title, files)
urls = {
'gist':
... | [
"\n October 21, 2015\n title = the gist title\n files = {\n 'spam.txt' : {\n 'content': 'What... is the air-speed velocity of an unladen swallow?'\n }\n # ..etc...\n }\n\n works also in blocks eg from\n https://gist.github.com/anonymous/b839e3a4d596b2152... |
Please provide a description of the function:def _clear_screen():
if platform.system() == "Windows":
tmp = os.system('cls') #for window
else:
tmp = os.system('clear') #for Linux
return True | [
" http://stackoverflow.com/questions/18937058/python-clear-screen-in-shell "
] |
Please provide a description of the function:def playSound(folder, name=""):
try:
if not name:
onlyfiles = [
f for f in os.listdir(folder)
if os.path.isfile(os.path.join(folder, f))
]
name = random.choice(onlyfiles)
subprocess.... | [
" as easy as that "
] |
Please provide a description of the function:def truncate(data, l=20):
"truncate a string"
info = (data[:l] + '..') if len(data) > l else data
return info | [] |
Please provide a description of the function:def inferMainPropertyType(uriref):
if uriref:
if uriref == rdflib.OWL.DatatypeProperty:
return uriref
elif uriref == rdflib.OWL.AnnotationProperty:
return uriref
elif uriref == rdflib.RDF.Property:
return u... | [
"\n Attempt to reduce the property types to 4 main types\n (without the OWL ontology - which would be the propert way)\n\n In [3]: for x in g.all_properties:\n ...:\t\tprint x.rdftype\n ...:\n http://www.w3.org/2002/07/owl#FunctionalProperty\n http://www.w3.org/2002/07/owl#FunctionalPrope... |
Please provide a description of the function:def printGenericTree(element,
level=0,
showids=True,
labels=False,
showtype=True,
TYPE_MARGIN=18):
ID_MARGIN = 5
SHORT_TYPES = {
"rdf:Property": "r... | [
"\n Print nicely into stdout the taxonomical tree of an ontology.\n\n Works irrespectively of whether it's a class or property.\n\n Note: indentation is made so that ids up to 3 digits fit in, plus a space.\n [123]1--\n [1]123--\n [12]12--\n\n <TYPE_MARGIN> is parametrized so that classes and p... |
Please provide a description of the function:def firstStringInList(literalEntities, prefLanguage="en"):
match = ""
if len(literalEntities) == 1:
match = literalEntities[0]
elif len(literalEntities) > 1:
for x in literalEntities:
if getattr(x, 'language') and getattr(x,
... | [
"\n from a list of literals, returns the one in prefLanguage\n if no language specification is available, return first element\n "
] |
Please provide a description of the function:def joinStringsInList(literalEntities, prefLanguage="en"):
match = []
if len(literalEntities) == 1:
return literalEntities[0]
elif len(literalEntities) > 1:
for x in literalEntities:
if getattr(x, 'language') and getattr(x,
... | [
"\n from a list of literals, returns the ones in prefLanguage joined up.\n if the desired language specification is not available, join all up\n "
] |
Please provide a description of the function:def sortByNamespacePrefix(urisList, nsList):
exit = []
urisList = sort_uri_list_by_name(urisList)
for ns in nsList:
innerexit = []
for uri in urisList:
if str(uri).startswith(str(ns)):
innerexit += [uri]
ex... | [
"\n Given an ordered list of namespaces prefixes, order a list of uris based on that.\n Eg\n\n In [7]: ll\n Out[7]:\n [rdflib.term.URIRef(u'http://www.w3.org/1999/02/22-rdf-syntax-ns#type'),\n rdflib.term.URIRef(u'printGenericTreeorg/2000/01/rdf-schema#comment'),\n ... |
Please provide a description of the function:def sort_uri_list_by_name(uri_list, bypassNamespace=False):
def get_last_bit(uri_string):
try:
x = uri_string.split("#")[1]
except:
x = uri_string.split("/")[-1]
return x
try:
if bypassNamespace:
... | [
"\n Sorts a list of uris\n\n bypassNamespace:\n based on the last bit (usually the name after the namespace) of a uri\n It checks whether the last bit is specified using a # or just a /, eg:\n rdflib.URIRef('http://purl.org/ontology/mo/Vinyl'),\n rdflib.URIRef('http://p... |
Please provide a description of the function:def guess_fileformat(aUri):
if aUri.endswith(".xml"):
return "xml"
elif aUri.endswith(".nt"):
return "nt"
elif aUri.endswith(".n3") or aUri.endswith(".ttl"):
return "n3"
elif aUri.endswith(".trix"):
return "trix"
elif ... | [
"\n Simple file format guessing (using rdflib format types) based on the suffix\n\n see rdflib.parse [https://rdflib.readthedocs.org/en/latest/using_graphs.html]\n\n "
] |
Please provide a description of the function:def inferNamespacePrefix(aUri):
stringa = aUri.__str__()
try:
prefix = stringa.replace("#", "").split("/")[-1]
except:
prefix = ""
return prefix | [
"\n From a URI returns the last bit and simulates a namespace prefix when rendering the ontology.\n\n eg from <'http://www.w3.org/2008/05/skos#'>\n it returns the 'skos' string\n "
] |
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