loader.py @ 1cdbcd8

ESS_GUIESS_GUI_DocsESS_GUI_batch_fittingESS_GUI_bumps_abstractionESS_GUI_iss1116ESS_GUI_iss879ESS_GUI_iss959ESS_GUI_openclESS_GUI_orderingESS_GUI_sync_sascalcmagnetic_scattrelease-4.2.2ticket-1009ticket-1094-headlessticket-1242-2d-resolutionticket-1243ticket-1249ticket885unittest-saveload

Last change on this file since 1cdbcd8 was dc8d1c2, checked in by Paul Kienzle <pkienzle@…>, 7 years ago
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1	"""
2	File handler to support different file extensions.
3	Uses reflectometer registry utility.
4
5	The default readers are found in the 'readers' sub-module
6	and registered by default at initialization time.
7
8	To add a new default reader, one must register it in
9	the register_readers method found in readers/__init__.py.
10
11	A utility method (find_plugins) is available to inspect
12	a directory (for instance, a user plug-in directory) and
13	look for new readers/writers.
14	"""
15	#####################################################################
16	# This software was developed by the University of Tennessee as part of the
17	# Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
18	# project funded by the US National Science Foundation.
19	# See the license text in license.txt
20	# copyright 2008, University of Tennessee
21	######################################################################
22
23	import os
24	import sys
25	import logging
26	import time
27	from zipfile import ZipFile
28
29	from sas.sascalc.data_util.registry import ExtensionRegistry
30
31	# Default readers are defined in the readers sub-module
32	from . import readers
33	from .loader_exceptions import NoKnownLoaderException, FileContentsException,\
34	DefaultReaderException
35	from .readers import ascii_reader
36	from .readers import cansas_reader
37	from .readers import cansas_reader_HDF5
38
39	logger = logging.getLogger(__name__)
40
41
42	class Registry(ExtensionRegistry):
43	"""
44	Registry class for file format extensions.
45	Readers and writers are supported.
46	"""
47	def __init__(self):
48	super(Registry, self).__init__()
49
50	# Writers
51	self.writers = {}
52
53	# List of wildcards
54	self.wildcards = ['All (.)\|.']
55
56	# Creation time, for testing
57	self._created = time.time()
58
59	# Register default readers
60	readers.read_associations(self)
61
62	def load(self, path, format=None):
63	"""
64	Call the loader for the file type of path.
65
66	:param path: file path
67	:param format: explicit extension, to force the use
68	of a particular reader
69
70	Defaults to the ascii (multi-column), cansas XML, and cansas NeXuS
71	readers if no reader was registered for the file's extension.
72	"""
73	# Gets set to a string if the file has an associated reader that fails
74	msg_from_reader = None
75	try:
76	return super(Registry, self).load(path, format=format)
77	#except Exception: raise # for debugging, don't use fallback loader
78	except NoKnownLoaderException as nkl_e:
79	pass # Try the ASCII reader
80	except FileContentsException as fc_exc:
81	# File has an associated reader but it failed.
82	# Save the error message to display later, but try the 3 default loaders
83	msg_from_reader = fc_exc.message
84	except Exception:
85	pass
86
87	# File has no associated reader, or the associated reader failed.
88	# Try the ASCII reader
89	try:
90	ascii_loader = ascii_reader.Reader()
91	return ascii_loader.read(path)
92	except DefaultReaderException:
93	pass # Loader specific error to try the cansas XML reader
94	except FileContentsException as e:
95	if msg_from_reader is None:
96	raise RuntimeError(e.message)
97
98	# ASCII reader failed - try CanSAS xML reader
99	try:
100	cansas_loader = cansas_reader.Reader()
101	return cansas_loader.read(path)
102	except DefaultReaderException:
103	pass # Loader specific error to try the NXcanSAS reader
104	except FileContentsException as e:
105	if msg_from_reader is None:
106	raise RuntimeError(e.message)
107	except Exception:
108	pass
109
110	# CanSAS XML reader failed - try NXcanSAS reader
111	try:
112	cansas_nexus_loader = cansas_reader_HDF5.Reader()
113	return cansas_nexus_loader.read(path)
114	except DefaultReaderException as e:
115	logging.error("No default loader can load the data")
116	# No known reader available. Give up and throw an error
117	if msg_from_reader is None:
118	msg = "\nUnknown data format: {}.\nThe file is not a ".format(path)
119	msg += "known format that can be loaded by SasView.\n"
120	raise NoKnownLoaderException(msg)
121	else:
122	# Associated reader and default readers all failed.
123	# Show error message from associated reader
124	raise RuntimeError(msg_from_reader)
125	except FileContentsException as e:
126	err_msg = msg_from_reader if msg_from_reader is not None else e.message
127	raise RuntimeError(err_msg)
128
129	def find_plugins(self, dir):
130	"""
131	Find readers in a given directory. This method
132	can be used to inspect user plug-in directories to
133	find new readers/writers.
134
135	:param dir: directory to search into
136	:return: number of readers found
137	"""
138	readers_found = 0
139	temp_path = os.path.abspath(dir)
140	if not os.path.isdir(temp_path):
141	temp_path = os.path.join(os.getcwd(), dir)
142	if not os.path.isdir(temp_path):
143	temp_path = os.path.join(os.path.dirname(__file__), dir)
144	if not os.path.isdir(temp_path):
145	temp_path = os.path.join(os.path.dirname(sys.path[0]), dir)
146
147	dir = temp_path
148	# Check whether the directory exists
149	if not os.path.isdir(dir):
150	msg = "DataLoader couldn't locate DataLoader plugin folder."
151	msg += """ "%s" does not exist""" % dir
152	logger.warning(msg)
153	return readers_found
154
155	for item in os.listdir(dir):
156	full_path = os.path.join(dir, item)
157	if os.path.isfile(full_path):
158
159	# Process python files
160	if item.endswith('.py'):
161	toks = os.path.splitext(os.path.basename(item))
162	try:
163	sys.path.insert(0, os.path.abspath(dir))
164	module = __import__(toks[0], globals(), locals())
165	if self._identify_plugin(module):
166	readers_found += 1
167	except:
168	msg = "Loader: Error importing "
169	msg += "%s\n %s" % (item, sys.exc_value)
170	logger.error(msg)
171
172	# Process zip files
173	elif item.endswith('.zip'):
174	try:
175	# Find the modules in the zip file
176	zfile = ZipFile(item)
177	nlist = zfile.namelist()
178
179	sys.path.insert(0, item)
180	for mfile in nlist:
181	try:
182	# Change OS path to python path
183	fullname = mfile.replace('/', '.')
184	fullname = os.path.splitext(fullname)[0]
185	module = __import__(fullname, globals(),
186	locals(), [""])
187	if self._identify_plugin(module):
188	readers_found += 1
189	except:
190	msg = "Loader: Error importing"
191	msg += " %s\n %s" % (mfile, sys.exc_value)
192	logger.error(msg)
193
194	except:
195	msg = "Loader: Error importing "
196	msg += " %s\n %s" % (item, sys.exc_value)
197	logger.error(msg)
198
199	return readers_found
200
201	def associate_file_type(self, ext, module):
202	"""
203	Look into a module to find whether it contains a
204	Reader class. If so, APPEND it to readers and (potentially)
205	to the list of writers for the given extension
206
207	:param ext: file extension [string]
208	:param module: module object
209	"""
210	reader_found = False
211
212	if hasattr(module, "Reader"):
213	try:
214	# Find supported extensions
215	loader = module.Reader()
216	if ext not in self.loaders:
217	self.loaders[ext] = []
218	# Append the new reader to the list
219	self.loaders[ext].append(loader.read)
220
221	reader_found = True
222
223	# Keep track of wildcards
224	type_name = module.__name__
225	if hasattr(loader, 'type_name'):
226	type_name = loader.type_name
227
228	wcard = "%s files (%s)\|%s" % (type_name, ext.lower(),
229	ext.lower())
230	if wcard not in self.wildcards:
231	self.wildcards.append(wcard)
232
233	# Check whether writing is supported
234	if hasattr(loader, 'write'):
235	if ext not in self.writers:
236	self.writers[ext] = []
237	# Append the new writer to the list
238	self.writers[ext].append(loader.write)
239
240	except:
241	msg = "Loader: Error accessing"
242	msg += " Reader in %s\n %s" % (module.__name__, sys.exc_value)
243	logger.error(msg)
244	return reader_found
245
246	def associate_file_reader(self, ext, loader):
247	"""
248	Append a reader object to readers
249
250	:param ext: file extension [string]
251	:param module: reader object
252	"""
253	reader_found = False
254
255	try:
256	# Find supported extensions
257	if ext not in self.loaders:
258	self.loaders[ext] = []
259	# Append the new reader to the list
260	self.loaders[ext].append(loader.read)
261
262	reader_found = True
263
264	# Keep track of wildcards
265	if hasattr(loader, 'type_name'):
266	type_name = loader.type_name
267
268	wcard = "%s files (%s)\|%s" % (type_name, ext.lower(),
269	ext.lower())
270	if wcard not in self.wildcards:
271	self.wildcards.append(wcard)
272
273	except:
274	msg = "Loader: Error accessing Reader "
275	msg += "in %s\n %s" % (loader.__name__, sys.exc_value)
276	logger.error(msg)
277	return reader_found
278
279	def _identify_plugin(self, module):
280	"""
281	Look into a module to find whether it contains a
282	Reader class. If so, add it to readers and (potentially)
283	to the list of writers.
284	:param module: module object
285
286	"""
287	reader_found = False
288
289	if hasattr(module, "Reader"):
290	try:
291	# Find supported extensions
292	loader = module.Reader()
293	for ext in loader.ext:
294	if ext not in self.loaders:
295	self.loaders[ext] = []
296	# When finding a reader at run time,
297	# treat this reader as the new default
298	self.loaders[ext].insert(0, loader.read)
299
300	reader_found = True
301
302	# Keep track of wildcards
303	type_name = module.__name__
304	if hasattr(loader, 'type_name'):
305	type_name = loader.type_name
306	wcard = "%s files (%s)\|%s" % (type_name, ext.lower(),
307	ext.lower())
308	if wcard not in self.wildcards:
309	self.wildcards.append(wcard)
310
311	# Check whether writing is supported
312	if hasattr(loader, 'write'):
313	for ext in loader.ext:
314	if ext not in self.writers:
315	self.writers[ext] = []
316	self.writers[ext].insert(0, loader.write)
317
318	except:
319	msg = "Loader: Error accessing Reader"
320	msg += " in %s\n %s" % (module.__name__, sys.exc_value)
321	logger.error(msg)
322	return reader_found
323
324	def lookup_writers(self, path):
325	"""
326	:return: the loader associated with the file type of path.
327	:Raises ValueError: if file type is not known.
328	"""
329	# Find matching extensions
330	extlist = [ext for ext in self.extensions() if path.endswith(ext)]
331	# Sort matching extensions by decreasing order of length
332	extlist.sort(key=len)
333	# Combine loaders for matching extensions into one big list
334	writers = []
335	for L in [self.writers[ext] for ext in extlist]:
336	writers.extend(L)
337	# Remove duplicates if they exist
338	if len(writers) != len(set(writers)):
339	result = []
340	for L in writers:
341	if L not in result:
342	result.append(L)
343	writers = L
344	# Raise an error if there are no matching extensions
345	if len(writers) == 0:
346	raise ValueError("Unknown file type for " + path)
347	# All done
348	return writers
349
350	def save(self, path, data, format=None):
351	"""
352	Call the writer for the file type of path.
353
354	Raises ValueError if no writer is available.
355	Raises KeyError if format is not available.
356	May raise a writer-defined exception if writer fails.
357	"""
358	if format is None:
359	writers = self.lookup_writers(path)
360	else:
361	writers = self.writers[format]
362	for fn in writers:
363	try:
364	return fn(path, data)
365	except Exception:
366	pass # give other loaders a chance to succeed
367	# If we get here it is because all loaders failed
368	raise # reraises last exception
369
370
371	class Loader(object):
372	"""
373	Utility class to use the Registry as a singleton.
374	"""
375	## Registry instance
376	__registry = Registry()
377
378	def associate_file_type(self, ext, module):
379	"""
380	Look into a module to find whether it contains a
381	Reader class. If so, append it to readers and (potentially)
382	to the list of writers for the given extension
383
384	:param ext: file extension [string]
385	:param module: module object
386	"""
387	return self.__registry.associate_file_type(ext, module)
388
389	def associate_file_reader(self, ext, loader):
390	"""
391	Append a reader object to readers
392
393	:param ext: file extension [string]
394	:param module: reader object
395	"""
396	return self.__registry.associate_file_reader(ext, loader)
397
398	def load(self, file, format=None):
399	"""
400	Load a file
401
402	:param file: file name (path)
403	:param format: specified format to use (optional)
404	:return: DataInfo object
405	"""
406	return self.__registry.load(file, format)
407
408	def save(self, file, data, format):
409	"""
410	Save a DataInfo object to file
411	:param file: file name (path)
412	:param data: DataInfo object
413	:param format: format to write the data in
414	"""
415	return self.__registry.save(file, data, format)
416
417	def _get_registry_creation_time(self):
418	"""
419	Internal method used to test the uniqueness
420	of the registry object
421	"""
422	return self.__registry._created
423
424	def find_plugins(self, directory):
425	"""
426	Find plugins in a given directory
427
428	:param dir: directory to look into to find new readers/writers
429	"""
430	return self.__registry.find_plugins(directory)
431
432	def get_wildcards(self):
433	"""
434	Return the list of wildcards
435	"""
436	return self.__registry.wildcards

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source: sasview/src/sas/sascalc/dataloader/loader.py @ 1cdbcd8

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