def testConvertHBF1_0toHBF1_2(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.0.json', 'v1.2.json')
if obj is None:
continue
b = convert_nexson_format(obj, BY_ID_HONEY_BADGERFISH)
equal_blob_check(self, '', b, b_expect)
def testConvertBFtoHBF1_0(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v0.0.json', 'v1.0.json')
if obj is None:
continue
h = convert_nexson_format(obj, DIRECT_HONEY_BADGERFISH)
equal_blob_check(self, '', h, b_expect)
def testConvertHBF1_0toHBF1_2(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.0.json', 'v1.2.json')
if obj is None:
continue
b = convert_nexson_format(obj, BY_ID_HONEY_BADGERFISH)
equal_blob_check(self, '', b, b_expect)
def testConvertBFtoHBF1_0(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v0.0.json', 'v1.0.json')
if obj is None:
continue
h = convert_nexson_format(obj, DIRECT_HONEY_BADGERFISH)
equal_blob_check(self, '', h, b_expect)
def testCanConvert(self):
inp = pathmap.nexson_obj('merge/merge-input.v1.2.json')
expected = pathmap.nexson_obj('merge/merge-expected.v1.2.json')
expected = sort_arbitrarily_ordered_nexson(expected)
inp = sort_arbitrarily_ordered_nexson(inp)
self.assertNotEqual(inp, expected)
merge_otus_and_trees(inp)
equal_blob_check(self, '', inp, expected)
def testCanConvert(self):
inp = pathmap.nexson_obj('merge/merge-input.v1.2.json')
expected = pathmap.nexson_obj('merge/merge-expected.v1.2.json')
expected = sort_arbitrarily_ordered_nexson(expected)
inp = sort_arbitrarily_ordered_nexson(inp)
self.assertNotEqual(inp, expected)
merge_otus_and_trees(inp)
equal_blob_check(self, '', inp, expected)
def testTreeBaseImport(self):
fp = pathmap.nexml_source_path('S15515.xml')
n = get_ot_study_info_from_treebase_nexml(src=fp,
merge_blocks=True,
sort_arbitrary=True)
expected = pathmap.nexson_obj('S15515.json')
equal_blob_check(self, 'S15515', n, expected)
self.assertTrue(expected == n)
def testTreeBaseImport(self):
fp = pathmap.nexml_source_path('S15515.xml')
n = get_ot_study_info_from_treebase_nexml(src=fp,
merge_blocks=True,
sort_arbitrary=True)
expected = pathmap.nexson_obj('S15515.json')
equal_blob_check(self, 'S15515', n, expected)
self.assertTrue(expected == n)
def testConvertHBF1_2toHBF1_0(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.2.json', 'v1.0.json')
if obj is None:
continue
b = convert_nexson_format(obj, DIRECT_HONEY_BADGERFISH)
sort_arbitrarily_ordered_nexson(b_expect)
sort_arbitrarily_ordered_nexson(b)
equal_blob_check(self, '', b, b_expect)
def testConvertHBF1_2toBF(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.2.json', 'v0.0.json')
if obj is None:
continue
b = convert_nexson_format(obj, BADGER_FISH_NEXSON_VERSION)
sort_arbitrarily_ordered_nexson(b_expect)
sort_arbitrarily_ordered_nexson(b)
equal_blob_check(self, '', b, b_expect)
def testConvertHBF1_0toBF(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.0.json', 'v0.0.json')
if obj is None:
continue
b = convert_nexson_format(obj, BADGER_FISH_NEXSON_VERSION)
sort_meta_elements(b_expect)
sort_meta_elements(b)
equal_blob_check(self, '', b, b_expect)
def testConvertHBF1_2toHBF1_0(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.2.json', 'v1.0.json')
if obj is None:
continue
b = convert_nexson_format(obj, DIRECT_HONEY_BADGERFISH)
sort_arbitrarily_ordered_nexson(b_expect)
sort_arbitrarily_ordered_nexson(b)
equal_blob_check(self, '', b, b_expect)
def testConvertHBF1_2toBF(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.2.json', 'v0.0.json')
if obj is None:
continue
b = convert_nexson_format(obj, BADGER_FISH_NEXSON_VERSION)
sort_arbitrarily_ordered_nexson(b_expect)
sort_arbitrarily_ordered_nexson(b)
equal_blob_check(self, '', b, b_expect)
def testConvertHBF1_0toBF(self):
for t in RT_DIRS:
obj, b_expect = _get_pair(t, 'v1.0.json', 'v0.0.json')
if obj is None:
continue
b = convert_nexson_format(obj, BADGER_FISH_NEXSON_VERSION)
sort_meta_elements(b_expect)
sort_meta_elements(b)
equal_blob_check(self, '', b, b_expect)
def testTreeBaseImport(self):
fp = pathmap.nexml_source_path('S15515.xml')
n = get_ot_study_info_from_treebase_nexml(src=fp,
merge_blocks=True,
sort_arbitrary=True)
# did we successfully coerce its DOI to the required URL form?
self.assertTrue('@href' in n['nexml']['^ot:studyPublication'])
test_doi = n['nexml']['^ot:studyPublication']['@href']
self.assertTrue(test_doi == doi2url(test_doi))
# furthermore, the output should exactly match our test file
expected = pathmap.nexson_obj('S15515.json')
equal_blob_check(self, 'S15515', n, expected)
self.assertTrue(expected == n)
def testTreeBaseImport(self):
fp = pathmap.nexml_source_path('S15515.xml')
n = get_ot_study_info_from_treebase_nexml(src=fp,
merge_blocks=True,
sort_arbitrary=True)
# did we successfully coerce its DOI to the required URL form?
self.assertTrue('@href' in n['nexml']['^ot:studyPublication'])
test_doi = n['nexml']['^ot:studyPublication']['@href']
self.assertTrue(test_doi == doi2url(test_doi))
# furthermore, the output should exactly match our test file
expected = pathmap.nexson_obj('S15515.json')
equal_blob_check(self, 'S15515', n, expected)
self.assertTrue(expected == n)
