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R3600/modules/bibcheck/lib/plugins/crossref_checker.py
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crossref_checker.py
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# -*- coding: utf-8 -*-
##
## This file is part of Invenio.
## Copyright (C) 2013 CERN.
##
## Invenio is free software; you can redistribute it and/or
## modify it under the terms of the GNU General Public License as
## published by the Free Software Foundation; either version 2 of the
## License, or (at your option) any later version.
##
## Invenio is distributed in the hope that it will be useful, but
## WITHOUT ANY WARRANTY; without even the implied warranty of
## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
## General Public License for more details.
##
## You should have received a copy of the GNU General Public License
## along with Invenio; if not, write to the Free Software Foundation, Inc.,
## 59 Temple Place, Suite 330, Boston, MA 02111-1307, USA.
"""
Check the metadata of the records that contain a DOI by comparing it to the
metadata returned by crossref.
"""
from invenio.crossrefutils import get_metadata_for_dois
from invenio.bibknowledge import get_kbr_values
import difflib
import re
def compare_str(str1, str2):
""" Return similarity (0.0 to 1.0) between the two strings """
return difflib.SequenceMatcher(None, str1, str2).ratio()
def xpath_text(doc, query):
""" Get the text inside the element result of the xpath query """
nodes = doc.xpath(query)
if len(nodes) == 0:
return None
return nodes[0].text
def get_value(record, tag):
""" Get the value of a (unique) field or null """
record_values = list(record.iterfield(tag))
if len(record_values) == 0:
return None
return record_values[0][1]
def compare_metadata(metadata, rec):
"""
Compare a record with the metadata returned by crossref
@param rec Record
@param doc xml.etree.ElementTree representation of the xml returned by crossref
"""
confidence_different = 0
msgs = []
# Check title
title_crossref = metadata["title"]
title_record = get_value(rec, "773__p")
title_similarity = None
volume_extra = ""
if title_crossref != "" and title_record is not None:
# Remove Volume number from the title
title_crossref = re.sub(":.*$", "", title_crossref)
if re.search(" [A-Z]$", title_crossref):
volume_extra = title_crossref[-1]
title_crossref = title_crossref[:-2]
title_crossref = re.sub(" (Section|Volume)$", "", title_crossref)
abbr_title = get_kbr_values("JOURNALS", title_crossref, searchtype='e')
title_similarity = compare_str(abbr_title, title_record)
confidence_different += (1 - title_similarity)*2
if title_similarity < 0.6:
msgs.append("Incorrect journal name (773__p) or wrongly assigned DOI")
# Check issn
issn_crossref = metadata["issn"]
issn_record = get_value(rec, "022__a")
if issn_crossref != "" and issn_record is not None and issn_crossref != issn_record:
confidence_different += 3
msgs.append("Invalid ISSN (022__a) or wrongly assigned DOI")
# Check page number
page_crossref = metadata["page"]
page_record = get_value(rec, "773__c")
if page_record is not None and page_crossref != "":
page_record = page_record.split("-")[0]
page_crossref = page_crossref.split("-")[0]
if page_record != page_crossref:
confidence_different += 3
msgs.append("Invalid page number (773__c) or wrongly assigned DOI")
# Check author
author_crossref = metadata["author"]
author_record = get_value(rec, "100__a")
if author_crossref != "" and author_record is not None:
author_similarity = compare_str(author_crossref, author_record)
confidence_different += (1 - author_similarity)*1.5
if author_similarity < 0.7:
msgs.append("Invalid author (100__a) or wrongly assigned DOI")
# Check issue
issue_crossref = metadata["issue"]
issue_record = get_value(rec, "773__n")
if issue_crossref != "" and issue_record is not None and issue_crossref != issue_record:
confidence_different += 2
msgs.append("Invalid issue (773__n) or wrongly assigned DOI")
# Check year
year_crossref = metadata["year"]
year_record = get_value(rec, "773__y")
if year_crossref != "" and year_record is not None and year_crossref != year_record:
confidence_different += 2
msgs.append("Invalid year (773__y) or wrongly assigned DOI")
# Check volume
volume_crossref = metadata["volume"]
volume_record = get_value(rec, "773__v")
if volume_crossref != "" and volume_record is not None:
volume_crossref = volume_extra + volume_crossref
if volume_crossref != volume_record:
confidence_different += 2
msgs.append("Invalid volume (773__v) or wrongly assigned DOI")
if confidence_different > 4:
for msg in msgs:
rec.set_invalid(msg)
def check_records(records, doi_field="0247_a"):
"""
Check the metadata of the records that contain a DOI by comparing it to the
metadata returned by crossref.
"""
records_to_check = {}
for record in records:
# FIXME: check the type of the identifier
for _, doi in record.iterfield(doi_field):
records_to_check[doi] = record
metadatas = get_metadata_for_dois(records_to_check.keys())
for doi, metadata in metadatas.iteritems():
# Can't compare books yet
if not metadata["is_book"]:
compare_metadata(metadata, records_to_check[doi])
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