def test_validateDocumentWithSchema(self):
"""
Test that xml sequence listing files are correctly validated
against the schema.
"""
print 'Running %s ...' % getName()
# valid seql contains the first 2 seqs from f2 - goes via if branch
f3 = os.path.join(util.TEST_DATA_DIR_PATH, 'test3.xml')
self.assertTrue(util.validateDocumentWithSchema(f3, util.XML_SCHEMA_PATH))
# ApplicantNamex instead of ApplicantName - goes to except branch
f4 = os.path.join(util.TEST_DATA_DIR_PATH, 'test4.xml')
self.assertFalse(util.validateDocumentWithSchema(f4, util.XML_SCHEMA_PATH))
# SOURCxE instead of SOURCE - goes to else branch
f5 = os.path.join(util.TEST_DATA_DIR_PATH, 'test5.xml')
self.assertFalse(util.validateDocumentWithSchema(f5, util.XML_SCHEMA_PATH))
# supplementary test with seql with more sequences
# valid seql 20 sequences
f2 = os.path.join(util.TEST_DATA_DIR_PATH, 'test2.xml')
self.assertTrue(util.validateDocumentWithSchema(f2, util.XML_SCHEMA_PATH))
# SequenceTotalQuantity element is missing
# TODO: the error msg says that EarliestPriorityApplicationIdentification is expected: /Users/ad/pyton/projects/st26proto/authoringtool/sequencelistings/testData/test8.xml:42:0:ERROR:SCHEMASV:SCHEMAV_ELEMENT_CONTENT: Element 'SequenceData': This element is not expected. Expected is ( EarliestPriorityApplicationIdentification ).
f8 = os.path.join(util.TEST_DATA_DIR_PATH, 'test8.xml')
self.assertFalse(util.validateDocumentWithSchema(f8, util.XML_SCHEMA_PATH))
def test_helper_generateXml(self):
print 'Running %s ...' % getName()
sequenceListing = self.sequenceListingFixture.create_sequencelisting_instance()
self.sequenceListingFixture.create_sequence_instance(sequenceListing)
# TODO: generate some fancy sequences to check xml validation?
util.helper_generateXml(sequenceListing)
f = os.path.join(util.OUTPUT_DIR, '%s.xml' % sequenceListing.fileName)
self.assertTrue(util.validateDocumentWithSchema(f, util.XML_SCHEMA_PATH))
self.assertTrue(util.validateDocumentWithDtd(f, util.XML_DTD_PATH))
sequenceListing.delete()
def test_helper_generateXml(self):
print 'Running %s ...' % getName()
sequenceListing = self.sequenceListingFixture.create_sequencelisting_instance(
)
self.sequenceListingFixture.create_sequence_instance(sequenceListing)
# TODO: generate some fancy sequences to check xml validation?
util.helper_generateXml(sequenceListing)
f = os.path.join(util.OUTPUT_DIR, '%s.xml' % sequenceListing.fileName)
res = util.validateDocumentWithSchema(f, util.XML_SCHEMA_PATH)
self.assertIsNone(res['parserError'])
self.assertIsNone(res['schemaError'])
self.assertTrue(util.validateDocumentWithDtd(f, util.XML_DTD_PATH))
sequenceListing.delete() # TODO: shouldn't be in teardown?