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import sys
import json
import itertools
import fatcat_client
from fatcat_client.rest import ApiException
# from: https://docs.python.org/3/library/itertools.html
def grouper(iterable, n, fillvalue=None):
"Collect data into fixed-length chunks or blocks"
args = [iter(iterable)] * n
return itertools.zip_longest(*args, fillvalue=fillvalue)
class FatcatImporter:
def __init__(self, host_url, issn_map_file=None):
conf = fatcat_client.Configuration()
conf.host = host_url
self.api = fatcat_client.DefaultApi(fatcat_client.ApiClient(conf))
self._issnl_id_map = dict()
self._orcid_id_map = dict()
self._issn_issnl_map = None
if issn_map_file:
self.read_issn_map_file(issn_map_file)
def process_source(self, source, group_size=100):
"""Creates and auto-accepts editgropu every group_size rows"""
eg = self.api.create_editgroup(fatcat_client.Editgroup(editor_id=1))
for i, row in enumerate(source):
self.create_row(row, editgroup_id=eg.id)
if i > 0 and (i % group_size) == 0:
self.api.accept_editgroup(eg)
eg = self.api.create_editgroup(fatcat_client.Editgroup(editor_id=1))
if i == 0 or (i % group_size) != 0:
self.api.accept_editgroup(eg.id)
def process_batch(self, source, size=50):
"""Reads and processes in batches (not API-call-per-)"""
for rows in grouper(source, size):
eg = self.api.create_editgroup(fatcat_client.Editgroup(editor_id=1))
self.create_batch(rows, eg.id)
self.api.accept_editgroup(eg.id)
def lookup_issnl(self, issnl):
"""Caches calls to the ISSN-L lookup API endpoint in a local dict"""
assert len(issnl) == 9 and issnl[4] == '-'
if issnl in self._issnl_id_map:
return self._issnl_id_map[issn]
container_id = None
try:
rv = self.api.lookup_container(issnl=issnl)
container_id = rv.ident
except ApiException as ae:
# If anything other than a 404 (not found), something is wrong
assert ae.status == 404
self._issnl_id_map[issnl] = container_id # might be None
return container_id
def lookup_orcid(self, orcid):
"""Caches calls to the Orcid lookup API endpoint in a local dict"""
assert len(orcid) == 19 and orcid[4] == '-'
if orcid in self._orcid_id_map:
return self._orcid_id_map[orcid]
creator_id = None
try:
rv = self.api.lookup_creator(orcid=orcid)
creator_id = rv.ident
except ApiException as ae:
# If anything other than a 404 (not found), something is wrong
assert ae.status == 404
self._orcid_id_map[orcid] = creator_id # might be None
return creator_id
def read_issn_map_file(self, issn_map_file):
self._issn_issnl_map = dict()
for line in issn_map_file:
if line.startswith("ISSN") or len(line) == 0:
continue
(issn, issnl) = line.split()[0:2]
self._issn_issnl_map[issn] = issnl
# double mapping makes lookups easy
self._issn_issnl_map[issnl] = issnl
def issn2issnl(self, issn):
if issn is None:
return None
return self._issn_issnl_map.get(issn)
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