def contributor_orcid_id(self, value):
# FIXME use schema
v = value.replace(' ', '')
if not v:
return
if v.startswith('http:'):
v = v.replace('http:', 'https:', 1)
if not (v.startswith('ORCID:') or v.startswith('https:')):
v = v.strip()
if not len(v):
return
elif v == '0': # FIXME ? someone using strange conventions ...
return
elif len(v) != 19:
msg = f'orcid wrong length {value!r} {self.t.path.as_posix()!r}'
self.addError(OrcidId.OrcidLengthError(msg))
logd.error(msg)
return
v = 'ORCID:' + v
else:
if v.startswith('https:'):
_, numeric = v.rsplit('/', 1)
elif v.startswith('ORCID:'):
_, numeric = v.rsplit(':', 1)
if not len(numeric):
return
elif len(numeric) != 19:
msg = f'orcid wrong length {value!r} {self.t.path.as_posix()!r}'
self.addError(OrcidId.OrcidLengthError(msg))
logd.error(msg)
return
try:
#log.debug(f"{v} '{self.t.path}'")
orcid = OrcidId(v)
if not orcid.checksumValid:
# FIXME json schema can't do this ...
msg = f'orcid failed checksum {value!r} {self.t.path.as_posix()!r}'
self.addError(OrcidId.OrcidChecksumError(msg))
logd.error(msg)
return
yield orcid
except (OntId.BadCurieError, OrcidId.OrcidMalformedError) as e:
msg = f'orcid malformed {value!r} {self.t.path.as_posix()!r}'
self.addError(OrcidId.OrcidMalformedError(msg))
logd.error(msg)
yield value
def test_validate(self):
orcids = ('https://orcid.org/0000-0002-1825-0097',
'https://orcid.org/0000-0001-5109-3700',
'https://orcid.org/0000-0002-1694-233X')
ids = [OrcidId(orcid) for orcid in orcids]
bads = [orcid for orcid in ids if not orcid.checksumValid]
assert not bads, str(bads)
def _process(self, contributor):
# get member if we can find them
he = dat.HasErrors(pipeline_stage=self.__class__.__name__ + '.data')
if 'name' in contributor and 'first_name' in contributor:
name = contributor['name']
if ';' in name:
msg = f'Bad symbol in name {name!r}'
he.addError(msg)
logd.error(msg)
fn = contributor['first_name']
ln = contributor['last_name']
if ' ' in fn:
fn, mn = fn.split(' ', 1)
contributor['middle_name'] = mn
contributor['first_name'] = fn
if ' ' in ln:
msg = f'Malformed last_name {ln!r}'
he.addError(msg)
logd.error(msg)
ln = ln.replace(' ', '-')
failover = f'{fn}-{ln}'
member = self.member(fn, ln)
if member is not None:
userid = OntId('https://api.blackfynn.io/users/' + member.id)
contributor['blackfynn_user_id'] = userid
else:
member = None
failover = 'no-orcid-no-name'
log.warning(f'No name!' + lj(contributor))
orcid = None
if 'contributor_orcid_id' in contributor:
orcid = contributor['contributor_orcid_id']
if type(orcid) == str and 'orcid.org' in orcid:
orcid = OrcidId(orcid) # FIXME reloading from json
if isinstance(orcid, OrcidId):
s = orcid
else: # it's not an orcid or its a bad orcid
orcid = None
if orcid is None:
if member is not None:
s = userid
else:
log.debug(lj(contributor))
s = OntId(self.dsid + '/contributors/' + failover)
contributor['id'] = s
he.embedErrors(contributor)