def test_v2_tnrs_no_fuzzy():
cfg = get_test_config()
taxo = APIWrapper(config=cfg).taxomachine
resp = taxo.TNRS(names, context_name="All life", fuzzy_matching=False)
print resp
assert len(resp['matched_name_ids']) == 3
assert 'H**o sapphire' in resp['unmatched_name_ids']
assert 'Pan trodlogytes' in resp['unmatched_name_ids']
def test_v1_tnrs():
cfg = get_test_config({'apis': {'api_version': '1'}})
taxo = APIWrapper(config=cfg).taxomachine
names = [
'Pan trodlogytes',
'H**o sapphire',
'Plantago',
'Morpho peleides',
'Eleocharis',
]
resp = taxo.TNRS(names, context_name="All life")
assert len(resp['matched_name_ids']) == 4
assert resp['unmatched_name_ids'] == [u'H**o sapphire']
def test_v2_tnrs_fuzzy():
cfg = get_test_config()
taxo = APIWrapper(config=cfg).taxomachine
names = [
'Pan trodlogytes',
'H**o sapphire',
'Plantago',
'Morpho peleides',
'Eleocharis',
]
resp = taxo.TNRS(names, context_name="All life", fuzzy_matching=True)
print resp
assert len(resp['matched_name_ids']) == 4
assert resp['unmatched_name_ids'] == [u'H**o sapphire']
#!/usr/bin/env python from peyotl.api import APIWrapper taxo = APIWrapper().taxomachine print(taxo.valid_contexts) print(taxo.TNRS(['sorex montereyensis'], context_name='Mammals')) print(taxo.TNRS(['sorex montereyensis']))
# Get the OpenTreeeOfLife identifier from a named clade
from peyotl.api import APIWrapper
import sys
input = sys.argv[1]
tx = APIWrapper().taxomachine
context = None
nms = tx.TNRS([input])
for i in nms['results']:
for j in i['matches']:
print j[u'taxon'][u'name']
print j[u'taxon'][u'ott_id']
