def person_delete(person_id=''):
"""
Delete an existing person
swagger_from_file: api_doc/person_delete.yml
"""
if is_token_valid(request.headers.get('Authorization')):
# TODO decide on base of the api key scopes
# load group
delete_person_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
core='person',
query='id:%s' % person_id)
delete_person_solr.request()
if delete_person_solr.results:
thedata = json.loads(delete_person_solr.results[0].get('wtf_json'))
form = PersonAdminForm.from_json(thedata)
# modify status to 'deleted'
form.editorial_status.data = 'deleted'
form.changed.data = timestamp()
form.note.data = 'Deleted via REST API'
# save group
persistence.person2solr(form, action='delete')
return make_response('person deleted!', 204)
else:
return make_response(
'person resource \'%s\' not found!' % person_id, 404)
else:
return make_response('Unauthorized', 401)
def export_solr_dump():
dow = days_of_week[datetime.datetime.today().weekday()]
filename = '%s/%s/%s_%s.dead_ends.json' % (secrets.BACKUP_DIR, dow,
datetime.datetime.now().strftime("%Y-%m-%d_%H-%M-%S"), 'hb2')
export_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, query='is_part_of:[\'\' TO *]',
export_field='wtf_json', core='hb2')
export_docs = export_solr.export()
# TODO get id of the host and check if it exists
dead_ends = []
for doc in export_docs:
for part in doc.get('is_part_of'):
try:
query = 'id:%s' % part.get('is_part_of')
get_record_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, core='hb2', query=query, facet='false',
fields=['wtf_json'])
get_record_solr.request()
if len(get_record_solr.results) == 0:
print('%s is a dead end' % part.get('is_part_of'))
if part.get('is_part_of') not in dead_ends:
dead_ends.append(part.get('is_part_of'))
except AttributeError as e:
print(e)
fo = open(filename, 'w')
fo.write(json.dumps(dead_ends, indent=4))
fo.close()
def work_delete(work_id=''):
"""
Delete an existing work
swagger_from_file: api_doc/work_delete.yml
"""
if is_token_valid(request.headers.get('Authorization')):
# TODO decide on base of the api key scopes
# load work
delete_work_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
core='hb2',
query='id:%s' % work_id)
delete_work_solr.request()
if delete_work_solr.results:
thedata = json.loads(delete_work_solr.results[0].get('wtf_json'))
form = display_vocabularies.PUBTYPE2FORM.get(
thedata.get('pubtype')).from_json(thedata)
# modify status to 'deleted'
form.editorial_status.data = 'deleted'
form.changed.data = timestamp()
form.note.data = 'Deleted via REST API'
# save work
persistence.record2solr(form, action='delete')
return make_response('work deleted!', 204)
else:
return make_response('work resource \'%s\' not found!' % work_id,
404)
else:
return make_response('Unauthorized', 401)
def sync_hb_to_orcid():
get_user = Solr(host=p_secrets.SOLR_HOST, port=p_secrets.SOLR_PORT,
application=p_secrets.SOLR_APP, core='hb2_users',
query='orcidid:%s' % orcid_id)
get_user.request()
if get_user.results:
if '/activities/update' in get_user.results[0].get('orcidscopes'):
# records = get_new_records(affiliation=affiliation, query='pnd:"1049808495%23Becker, Hans-Georg"')
records = get_updated_records(affiliation=affiliation, query='pnd:"1019952040%23Höhner, Kathrin"')
orcid_update_records(affiliation=affiliation, orcid_id=orcid_id, access_token=orcid_token, works=records)
def get_updated_records(affiliation='', query='*:*'):
get_record_solr = Solr(host=p_secrets.SOLR_HOST, port=p_secrets.SOLR_PORT,
application=p_secrets.SOLR_APP,
query='%s AND orcid_put_code:[\'\' TO *]' % query, rows=100000)
get_record_solr.request()
orcid_records = {}
if len(get_record_solr.results) == 0:
logging.error('No records found for query: %s' % query)
else:
print(len(get_record_solr.results))
# orcid_records.append(orcid_processor.wtf_orcid(affiliation=affiliation, wtf_records=[json.loads(get_record_solr.results[0].get('wtf_json'))])[0])
for record in get_record_solr.results:
wtf = json.loads(record.get('wtf_json'))
orcid_records.setdefault(record.get('orcid_put_code')[0], orcid_processor.wtf_orcid(affiliation=affiliation, wtf_records=[wtf]))
return orcid_records
def wtf_openurl(record=None):
open_url = 'ctx_ver=Z39.88-2004'
if record:
# pubtype
if record.get('pubtype') and OPENURL_KEV_MTX.get(
record.get('pubtype')):
open_url += '&rft_val_fmt=info:ofi/fmt:kev:mtx:%s' % OPENURL_KEV_MTX.get(
record.get('pubtype'))
else:
open_url += '&rft_val_fmt=info:ofi/fmt:kev:mtx:%s' % 'book'
if OPENURL_GENRE.get(record.get('pubtype')):
open_url += '&rft.genre=%s' % OPENURL_GENRE.get(
record.get('pubtype'))
else:
open_url += '&rft.genre=%s' % 'unknown'
# sid
# open_url += '&info:ofi/nam:info:sid:%s' % str(parse.quote(record.get('id'), 'utf-8'))
# doi
if record.get('DOI') and record.get('DOI')[0]:
open_url += '&info:ofi/nam:info:doi:%s' % parse.quote(
record.get('DOI')[0], 'utf-8')
# authors
for person in record.get('person'):
open_url += '&rft.au=%s' % parse.quote(person.get('name'), 'utf8')
if record.get('is_part_of') and record.get('is_part_of')[
0] and record.get('is_part_of')[0].get('is_part_of'):
for host in record.get('is_part_of'):
if host.get('is_part_of'):
try:
ipo_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
query='id:%s' % host.get('is_part_of'),
facet='false',
fields=['wtf_json'])
ipo_solr.request()
if len(ipo_solr.results) > 0:
myjson = json.loads(
ipo_solr.results[0].get('wtf_json'))
if myjson.get('pubtype') == 'journal':
open_url += '&rft.jtitle=%s' % parse.quote(
myjson.get('title'), 'utf-8')
open_url += '&rft.issn=%s' % parse.quote(
myjson.get('ISSN')[0], 'utf-8')
open_url += '&rft.volume=%s' % parse.quote(
host.get('volume'), 'utf-8')
open_url += '&rft.issue=%s' % parse.quote(
host.get('issue'), 'utf-8')
open_url += '&rft.pages=%s' % host.get(
'page_first')
if host.get('page_last'):
open_url += '-%s' % host.get('page_last')
# article title
open_url += '&rft.atitle=%s' % parse.quote(
record.get('title'), 'utf-8')
elif myjson.get('pubtype') == 'Monograph' or \
myjson.get('pubtype') == 'Collection' or \
myjson.get('pubtype') == 'Conference' or \
myjson.get('pubtype') == 'LegalCommentary':
# btitle
open_url += '&rft.btitle=%s' % parse.quote(
myjson.get('title'), 'utf-8')
open_url += '&rft.isbn=%s' % parse.quote(
myjson.get('ISBN')[0], 'utf-8')
open_url += '&rft.pages=%s' % host.get(
'page_first')
if host.get('page_last'):
open_url += '-%s' % host.get('page_last')
except AttributeError as e:
logging.error(e)
break
if 'rft.atitle' not in open_url:
open_url += '&rft.title=%s' % parse.quote(record.get('title'),
'utf-8')
if record.get('ISSN'):
open_url += '&rft.issn=%s' % parse.quote(
record.get('ISSN')[0], 'utf-8')
if record.get('ISBN'):
open_url += '&rft.isbn=%s' % parse.quote(
record.get('ISBN')[0], 'utf-8')
# origin info
if record.get('issued'):
open_url += '&rft.date=%s' % record.get('issued')
if record.get('publisher_place'):
open_url += '&rft.place=%s' % parse.quote(
record.get('publisher_place'), 'utf-8')
if record.get('publisher'):
open_url += '&rft.publisher=%s' % parse.quote(
record.get('publisher'), 'utf-8')
# other
for corporation in record.get('corporation'):
open_url += '&rft.inst=%s' % parse.quote(corporation.get('name'),
'utf-8')
return open_url
from utils.solr_handler import Solr
try:
import local_app_secrets as secrets
except ImportError:
import app_secrets as secrets
# TODO: Deduplizierung nach Nachname, 1. Buchsctabe des Vornamens
# TODO: Vorname und Nachname sind gleich, aber GNDs unterschiedlich => Ist das ueberhaupt ein TODO?
# TODO: Nachname ist gleich und wenn Vorname in den Daten nur ein Buchstabe oder wenn echter Vorname, dann die
# ersten beiden Buchstaben vergleichen
results = []
new_titles = Solr(application=secrets.SOLR_APP, facet='false', rows=2000000,
fields=['pnd', 'id', 'title', 'pubtype', 'catalog'])
new_titles.request()
for doc in new_titles.results:
# logging.info(doc)
if doc.get('pnd'):
catalog = 'tmp'
if doc.get('catalog'):
if 'Ruhr-Universität Bochum' in doc.get('catalog'):
catalog = 'rub'
elif 'Technische Universität Dortmund' in doc.get('catalog'):
catalog = 'tudo'
result = {'id': doc.get('id'), 'catalog': catalog, 'title': doc.get('title'), 'pubtype': doc.get('pubtype')}
creators = []
# TODO sobald es einen gibt mit len(ids) != 3 muss der Datensatz nicht betrachtet werden!
is_relevant = True
def bibliography(agent='', agent_id='', style='harvard1'):
"""
Getting a bibliography
swagger_from_file: bibliography_doc/bibliography.yml
"""
format = request.args.get('format', 'html')
filter_by_year = request.args.get('filter_by_year', '')
filter_by_type = request.args.get('filter_by_type', '')
exclude_by_type = request.args.get('exclude_by_type', '')
filter_by_pr = request.args.get('filter_by_pr', False)
filter_by_ger = request.args.get('filter_by_ger', False)
filter_by_eng = request.args.get('filter_by_eng', False)
filter_by_current_members = request.args.get('filter_by_current_members', False)
filter_by_former_members = request.args.get('filter_by_former_members', False)
group_by_year = request.args.get('group_by_year', False)
# logging.info('group_by_year = %s' % group_by_year)
group_by_type = request.args.get('group_by_type', False)
group_by_type_year = request.args.get('group_by_type_year', False)
pubsort = request.args.get('pubsort', '')
toc = request.args.get('toc', False)
locale = request.args.get('locale', '')
# TODO start-creationdate, end-creationdate >> Szenario Raumplanung
start_creationdate = request.args.get('start_creationdate', '')
end_creationdate = request.args.get('end_creationdate', '')
reasoning = request.args.get('reasoning', False)
refresh = request.args.get('refresh', False)
formats = ['html', 'txt']
agent_types = {
'person': 'person',
'research_group': 'organisation',
'chair': 'organisation',
'organisation': 'organisation',
'working_group': 'group',
'project': 'group',
}
pubsorts = ['stm', 'anh']
STM_SORT = ['ArticleJournal', 'Chapter', 'Monograph', 'Journal', 'Series', 'Conference', 'Collection',
'MultivolumeWork', 'SpecialIssue', 'Patent', 'Standard', 'Thesis', 'InternetDocument', 'Report', 'Lecture', 'Sonstiges',
'ArticleNewspaper', 'PressRelease', 'RadioTVProgram', 'AudioVideoDocument',
'ResearchData', 'Other']
STM_LIST = {
'ArticleJournal': '',
'Chapter': '',
'Monograph': '',
'Journal': '',
'Series': '',
'Conference': '',
'Collection': '',
'MultivolumeWork': '',
'SpecialIssue': '',
'Patent': '',
'Standard': '',
'Thesis': '',
'InternetDocument': '',
'Report': '',
'Lecture': '',
'ArticleNewspaper': '',
'PressRelease': '',
'RadioTVProgram': '',
'AudioVideoDocument': '',
'ResearchData': '',
'Other': '',
}
ANH_SORT = ['Monograph', 'ArticleJournal', 'ChapterInLegalCommentary', 'Chapter', 'LegalCommentary', 'Collection',
'MultivolumeWork', 'Conference', 'Edition', 'SpecialIssue', 'Journal', 'Series', 'Newspaper', 'Thesis',
'ArticleNewspaper',
'Lecture', 'Report', 'InternetDocument', 'RadioTVProgram', 'AudioVideoDocument',
'PressRelease', 'ResearchData', 'Other']
ANH_LIST = {
'Monograph': '',
'ArticleJournal': '',
'ChapterInLegalCommentary': '',
'Chapter': '',
'LegalCommentary': '',
'Collection': '',
'MultivolumeWork': '',
'Conference': '',
'Edition': '',
'SpecialIssue': '',
'Journal': '',
'Series': '',
'Newspaper': '',
'Thesis': '',
'ArticleNewspaper': '',
'Lecture': '',
'Report': '',
'InternetDocument': '',
'RadioTVProgram': '',
'AudioVideoDocument': '',
'PressRelease': '',
'ResearchData': '',
'Other': '',
}
if format not in formats:
return make_response('Bad request: format!', 400)
elif agent not in agent_types.keys():
return make_response('Bad request: agent!', 400)
elif pubsort and pubsort not in pubsorts:
return make_response('Bad request: pubsort!', 400)
key = request.full_path.replace('&refresh=true', '').replace('?refresh=true', '?')
# logging.debug('KEY: %s' % key)
response = ''
if not refresh:
# request in cache?
try:
storage_publists_cache = app.extensions['redis']['REDIS_PUBLIST_CACHE']
if storage_publists_cache.exists(key):
response = storage_publists_cache.get(key)
except Exception as e:
logging.info('REDIS ERROR: %s' % e)
if response == '':
group = False
group_field = ''
group_limit = 100000
if str2bool(group_by_year):
group = True
group_field = 'fdate'
elif str2bool(group_by_type):
group = True
group_field = 'pubtype'
filterquery = []
if str2bool(filter_by_eng):
filterquery.append('language:eng')
elif str2bool(filter_by_ger):
filterquery.append('language:ger')
elif str2bool(filter_by_pr):
filterquery.append('peer_reviewed:true')
if filter_by_type != '':
entries = filter_by_type.split('|')
filter_string = ''
for entry in entries:
filter_string += 'pubtype:%s' % PUBTYPE_KEYS.get(entry.lower()) + '+OR+'
filterquery.append(filter_string[:-4])
if filter_by_year != '':
entries = filter_by_year.split('|')
filter_string = ''
for entry in entries:
filter_string += 'fdate:%s' % entry + '+OR+'
filterquery.append(filter_string[:-4])
if exclude_by_type:
entries = exclude_by_type.split('|')
for entry in entries:
filterquery.append('-pubtype:"%s"' % PUBTYPE_KEYS.get(entry.lower()))
fquery = ''
if start_creationdate and not end_creationdate:
fquery = 'recordCreationDate:[%s TO *]' % (start_creationdate + 'T00:00:00Z')
elif not start_creationdate and end_creationdate:
fquery = 'recordCreationDate:[*+TO+%s]' % (end_creationdate + 'T00:00:00Z')
elif start_creationdate and end_creationdate:
fquery = 'recordCreationDate:[%s+TO+%s]' % (start_creationdate + 'T00:00:00Z', end_creationdate + 'T00:00:00Z')
if fquery:
filterquery.append(fquery)
query = ''
results = []
if agent_types.get(agent) == 'person':
# get facet value
actor_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, query='gnd:%s' % agent_id, export_field='wtf_json',
core=agent_types.get(agent))
actor_solr.request()
if len(actor_solr.results) == 0:
return make_response('Not Found: Unknown Agent!', 404)
else:
name = actor_solr.results[0].get('name')
query = 'pndid:%s' % agent_id
# query = 'pnd:"%s%s%s"' % (agent_id, '%23', name)
# logging.info('query=%s' % query)
else:
# get orga/group doc
actor_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, query='id:%s' % agent_id,
export_field='wtf_json',
core=agent_types.get(agent))
actor_solr.request()
if actor_solr.results:
name = actor_solr.results[0].get('pref_label')
# logging.debug('name = %s' % name)
if reasoning:
# logging.debug('reasoning: %s' % reasoning)
orgas = {}
orgas.setdefault(agent_id, name)
# get all children
if actor_solr.results[0].get('children'):
children = actor_solr.results[0].get('children')
for child_json in children:
child = json.loads(child_json)
orgas.setdefault(child.get('id'), child.get('label'))
query = ''
idx_o = 0
id_type = agent_types.get(agent)
if id_type == 'organisation':
id_type = 'affiliation'
for orga_id in orgas.keys():
fquery = ['gnd:[\'\' TO *]']
if not agent_types.get(agent) == 'person':
if filter_by_former_members:
fquery.append('personal_status:emeritus+OR+personal_status:alumnus')
elif filter_by_current_members:
fquery.append('-personal_status:emeritus')
fquery.append('-personal_status:alumnus')
member_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, query='%s_id:"%s"' % (id_type, orga_id),
fquery=fquery, fields=['gnd', 'name'], rows=100000,
core='person')
member_solr.request()
query_part = ''
if member_solr.results and len(member_solr.results) > 0:
idx_p = 0
for member in member_solr.results:
query_part += 'pnd:"%s%s%s"' % (member.get('gnd'), '%23', member.get('name'))
idx_p += 1
if idx_p < len(member_solr.results) and query_part != '':
query_part += ' OR '
if query_part != '':
query += query_part
idx_o += 1
if idx_o < len(orgas) and query != '':
query += ' OR '
while query.endswith(' OR '):
query = query[:-4]
# logging.info('query=%s' % query)
else:
logging.debug('reasoning: %s' % reasoning)
id_type = agent_types.get(agent)
if id_type == 'organisation':
id_type = 'affiliation'
query = '%s_id:%s' % (id_type, agent_id)
else:
return make_response('Not Found: Unknown Agent!', 404)
biblist_id = str(uuid.uuid4())
biblist = ''
biblist_toc = ''
biblist_coins = ''
STM_TOC = {
'ArticleJournal': '',
'Chapter': '',
'Monograph': '',
'Journal': '',
'Series': '',
'Conference': '',
'Collection': '',
'MultivolumeWork': '',
'SpecialIssue': '',
'Patent': '',
'Standard': '',
'Thesis': '',
'InternetDocument': '',
'Report': '',
'Lecture': '',
'ArticleNewspaper': '',
'PressRelease': '',
'RadioTVProgram': '',
'AudioVideoDocument': '',
'ResearchData': '',
}
ANH_TOC = {
'Monograph': '',
'ArticleJournal': '',
'ChapterInLegalCommentary': '',
'Chapter': '',
'LegalCommentary': '',
'Collection': '',
'MultivolumeWork': '',
'Conference': '',
'Edition': '',
'SpecialIssue': '',
'Journal': '',
'Series': '',
'Newspaper': '',
'Thesis': '',
'ArticleNewspaper': '',
'Lecture': '',
'Report': '',
'InternetDocument': '',
'RadioTVProgram': '',
'AudioVideoDocument': '',
'PressRelease': '',
'ResearchData': '',
}
STM_COINS = {
'ArticleJournal': '',
'Chapter': '',
'Monograph': '',
'Journal': '',
'Series': '',
'Conference': '',
'Collection': '',
'MultivolumeWork': '',
'SpecialIssue': '',
'Patent': '',
'Standard': '',
'Thesis': '',
'InternetDocument': '',
'Report': '',
'Lecture': '',
'ArticleNewspaper': '',
'PressRelease': '',
'RadioTVProgram': '',
'AudioVideoDocument': '',
'ResearchData': '',
}
ANH_COINS = {
'Monograph': '',
'ArticleJournal': '',
'ChapterInLegalCommentary': '',
'Chapter': '',
'LegalCommentary': '',
'Collection': '',
'MultivolumeWork': '',
'Conference': '',
'Edition': '',
'SpecialIssue': '',
'Journal': '',
'Series': '',
'Newspaper': '',
'Thesis': '',
'ArticleNewspaper': '',
'Lecture': '',
'Report': '',
'InternetDocument': '',
'RadioTVProgram': '',
'AudioVideoDocument': '',
'PressRelease': '',
'ResearchData': '',
}
if group_by_type_year:
facet_tree = ('pubtype', 'fdate')
publist_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, handler='query',
query=query, fquery=filterquery,
fields=['wtf_json'], rows=0,
facet='true', facet_tree=facet_tree, facet_sort=False, facet_limit=-1,
sort='fdate asc', core='hb2')
publist_solr.request()
# logging.info('publist_solr.tree: %s' % json.dumps(publist_solr.tree, indent=4))
list_cnt = 0
for pubtype in publist_solr.tree.get('pubtype,fdate'):
# logging.debug('pubtype = %s' % pubtype.get('value'))
# logging.debug('pubtype = %s' % pubtype)
year_list = ''
year_coins = ''
if pubtype.get('pivot'):
for year in pubtype.get('pivot')[::-1]:
# logging.debug('\t%s: %s' % (year.get('value'), year.get('count')))
filterquery = []
filterquery.append('fdate:%s' % year.get('value'))
filterquery.append('pubtype:%s' % pubtype.get('value'))
pivot_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, handler='query',
query=query, fields=['wtf_json'], rows=100000,
fquery=filterquery, core='hb2')
pivot_solr.request()
results = pivot_solr.results
# logging.debug('PIVOT_PUB_LIST: %s' % results)
publist_docs = []
for result in results:
publist_docs.append(json.loads(result.get('wtf_json')))
if format == 'html':
year_coins += '<div class="coins"><span class="Z3988" title="%s"></span></div>' % openurl_processor.wtf_openurl(json.loads(result.get('wtf_json'))).replace('&', '&')
if not group_by_type:
if format == 'html':
year_list += '<h5>%s</h5>' % year.get('value')
else:
year_list += '%s\n' % year.get('value')
year_list += citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style)
else:
filterquery = []
filterquery.append('pubtype:%s' % pubtype.get('value'))
pivot_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, handler='query',
query=query, fields=['wtf_json'], rows=100000,
fquery=filterquery, core='hb2')
pivot_solr.request()
results = pivot_solr.results
# logging.debug('PIVOT_PUB_LIST: %s' % results)
publist_docs = []
for result in results:
publist_docs.append(json.loads(result.get('wtf_json')))
if format == 'html':
year_coins += '<div class="coins"><span class="Z3988" title="%s"></span></div>' % openurl_processor.wtf_openurl(
json.loads(result.get('wtf_json'))).replace('&', '&')
year_list += citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style)
if locale.startswith('de'):
group_value = display_vocabularies.PUBTYPE_GER.get(pubtype.get('value'))
else:
group_value = display_vocabularies.PUBTYPE_ENG.get(pubtype.get('value'))
list_cnt += 1
if format == 'html':
header = '<h4 id="%s_%s">%s</h4>' % (biblist_id, list_cnt, group_value)
elif format == 'txt':
header = '%s\n' % group_value
else:
header = ''
footer = ''
if toc and format == 'html':
back_string = 'Back to table of contents'
if locale.startswith('de'):
back_string = 'Zurück zum Inhaltsverzeichnis'
footer = '<div class="toc_return"><a href="#%s_citetoc">%s</a></div>' % (biblist_id, back_string)
if pubsort == 'stm':
STM_LIST[pubtype.get('value')] = header + year_list + footer
if format == 'html':
STM_TOC[pubtype.get('value')] = '<li><a href="#%s_%s">%s</a></li>' % (biblist_id, list_cnt, group_value)
STM_COINS[pubtype.get('value')] = year_coins
elif pubsort == 'anh':
ANH_LIST[pubtype.get('value')] = header + year_list + footer
if format == 'html':
ANH_TOC[pubtype.get('value')] = '<li><a href="#%s_%s">%s</a></li>' % (biblist_id, list_cnt, group_value)
ANH_COINS[pubtype.get('value')] = year_coins
else:
biblist += header + year_list
if format == 'html':
biblist_toc += '<li><a href="#%s_%s">%s</a></li>' % (biblist_id, list_cnt, group_value)
biblist_coins += year_coins
if pubsort == 'anh':
# logging.debug(ANH_LIST)
biblist = ''
biblist_toc = ''
for pubtype in ANH_SORT:
if ANH_LIST.get(pubtype):
biblist += ANH_LIST.get(pubtype)
if format == 'html':
biblist_toc += ANH_TOC.get(pubtype)
biblist_coins += ANH_COINS.get(pubtype)
elif pubsort == 'stm':
# logging.debug(STM_LIST)
biblist = ''
biblist_toc = ''
for pubtype in STM_SORT:
if STM_LIST.get(pubtype):
biblist += STM_LIST.get(pubtype)
if format == 'html':
biblist_toc += STM_TOC.get(pubtype)
biblist_coins += STM_COINS.get(pubtype)
else:
publist_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, handler='query',
query=query, fields=['wtf_json'],
rows=100000, fquery=filterquery,
group=group, group_field=group_field, group_limit=group_limit,
sort='fdate desc',
core='hb2')
publist_solr.request()
results.extend(publist_solr.results)
# print('publist_solr.results: %s' % results)
publist_docs = []
if group:
biblist = ''
list_cnt = 0
for result in results:
# logging.debug('groupValue: %s' % result.get('groupValue'))
# logging.debug('numFound: %s' % result.get('doclist').get('numFound'))
# logging.debug('docs: %s' % result.get('doclist').get('docs'))
coins = ''
for doc in result.get('doclist').get('docs'):
publist_docs.append(json.loads(doc.get('wtf_json')))
if format == 'html':
coins += '<div class="coins"><span class="Z3988" title="%s"></span></div>' % openurl_processor.wtf_openurl(json.loads(doc.get('wtf_json'))).replace('&', '&')
group_value = result.get('groupValue')
if str2bool(group_by_type):
if locale.startswith('de'):
group_value = display_vocabularies.PUBTYPE_GER.get(result.get('groupValue'))
else:
group_value = display_vocabularies.PUBTYPE_ENG.get(result.get('groupValue'))
list_cnt += 1
if format == 'html':
header = '<h4 id="%s_%s">%s</h4>' % (biblist_id, list_cnt, group_value)
elif format == 'txt':
header = '%s' % group_value
else:
header = ''
footer = ''
if toc and format == 'html':
back_string = 'Back to table of contents'
if locale.startswith('de'):
back_string = 'Zurück zum Inhaltsverzeichnis'
footer = '<div class="toc_return"><a href="#%s_citetoc">%s</a></div>' % (biblist_id, back_string)
if str2bool(group_by_type):
if pubsort == 'stm':
STM_LIST[result.get('groupValue')] = header + citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style) + footer
if format == 'html':
STM_TOC[result.get('groupValue')] = '<li><a href="#%s_%s">%s</a></li>' % (biblist_id, list_cnt, group_value)
STM_COINS[result.get('groupValue')] = coins
elif pubsort == 'anh':
ANH_LIST[result.get('groupValue')] = header + citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style) + footer
if format == 'html':
ANH_TOC[result.get('groupValue')] = '<li><a href="#%s_%s">%s</a></li>' % (biblist_id, list_cnt, group_value)
ANH_COINS[result.get('groupValue')] = coins
else:
biblist += header + citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style) + footer
if format == 'html':
biblist_toc += '<li><a href="#%s_%s">%s</a></li>' % (biblist_id, list_cnt, group_value)
biblist_coins += coins
elif str2bool(group_by_year):
biblist += header + citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style) + footer
if format == 'html':
biblist_toc += '<li><a href="#%s_%s">%s</a></li>' % (biblist_id, list_cnt, group_value)
biblist_coins += coins
else:
biblist += header + citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style) + footer
if str2bool(group_by_type) and pubsort == 'anh':
# logging.debug(ANH_LIST)
biblist = ''
biblist_toc = ''
for pubtype in ANH_SORT:
if ANH_LIST.get(pubtype):
biblist += ANH_LIST.get(pubtype)
if format == 'html':
biblist_toc += ANH_TOC.get(pubtype)
biblist_coins += ANH_COINS.get(pubtype)
elif str2bool(group_by_type) and pubsort == 'stm':
# logging.debug(STM_LIST)
biblist = ''
biblist_toc = ''
for pubtype in STM_SORT:
if STM_LIST.get(pubtype):
biblist += STM_LIST.get(pubtype)
if format == 'html':
biblist_toc += STM_TOC.get(pubtype)
biblist_coins += STM_COINS.get(pubtype)
publist_docs = []
else:
for result in results:
publist_docs.append(json.loads(result.get('wtf_json')))
biblist = citeproc_node(wtf_csl.wtf_csl(publist_docs), format, locale, style)
response = ''
if toc and format == 'html':
response += '<ul id="%s_citetoc">' % biblist_id + biblist_toc + '</ul>'
response += biblist + biblist_coins
if response:
try:
storage_publists_cache = app.extensions['redis']['REDIS_PUBLIST_CACHE']
storage_publists_cache.set(key, response)
storage_publists_cache.hset(agent_id, key, timestamp())
except Exception as e:
logging.error('REDIS: %s' % e)
resp = make_response(response)
if format == 'txt':
resp.headers["Content-Type"] = "text/plain; charset=utf-8"
else:
resp.headers["Content-Type"] = "text/html; charset=utf-8"
return resp
def wtf_bibtex(wtf_records=None):
# logging.info('wtf_records: %s' % wtf_records)
if wtf_records is None:
wtf_records = []
if len(wtf_records) > 0:
db = BibDatabase()
db.entries = []
for record in wtf_records:
bibtex_entry = {}
bibtex_type = BIBTEX_PUBTYPES.get(record.get('pubtype'))
if bibtex_type is None:
bibtex_type.setdefault('pubtype', 'misc')
bibtex_entry.setdefault('ENTRYTYPE', bibtex_type)
bibtex_entry.setdefault('ID', record.get('id'))
title = record.get('title')
if record.get('subtitle'):
title += ': %s' % record.get('subtitle')
bibtex_entry.setdefault('title', title)
if record.get('issued'):
date_parts = []
for date_part in str(record.get('issued')).replace(
'[', '').replace(']', '').split('-'):
date_parts.append(date_part)
bibtex_entry.setdefault('year', date_parts[0])
if len(date_parts) > 1:
bibtex_entry.setdefault('month', date_parts[1])
if len(date_parts) > 2:
bibtex_entry.setdefault('day', date_parts[2])
if record.get('DOI'):
bibtex_entry.setdefault('crossref', record.get('DOI')[0])
author_str = ''
for author in record.get('person'):
if 'aut' in author.get('role'):
if author_str != '':
author_str += ' and '
author_str += author.get('name')
bibtex_entry.setdefault('author', author_str)
# is_part_of
hosts = []
if record.get('is_part_of'):
hosts = record.get('is_part_of')
for host in hosts:
if host.get('is_part_of') != '':
try:
ipo_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
query='id:%s' % host.get('is_part_of'),
facet='false',
fields=['wtf_json'])
ipo_solr.request()
if len(ipo_solr.results) > 0:
myjson = json.loads(
ipo_solr.results[0].get('wtf_json'))
title = myjson.get('title')
if myjson.get('subtitle'):
title += ': %s' % myjson.get('subtitle')
if bibtex_entry.get('ENTRYTYPE') == 'article':
bibtex_entry.setdefault('journal', title)
elif bibtex_entry.get('ENTRYTYPE') == 'inbook':
bibtex_entry.setdefault('booktitle', title)
elif bibtex_entry.get(
'ENTRYTYPE') == 'inproceedings':
bibtex_entry.setdefault('booktitle', title)
elif bibtex_entry.get(
'ENTRYTYPE') == 'incollection':
bibtex_entry.setdefault('booktitle', title)
else:
bibtex_entry.setdefault('series', title)
except AttributeError as e:
logging.error(e)
if host.get('volume') != '':
bibtex_entry.setdefault('volume', host.get('volume'))
if bibtex_entry:
db.entries.append(bibtex_entry)
return bibtexparser.dumps(db)
else:
return ''
def sync_orcid_to_hb():
get_user = Solr(host=p_secrets.SOLR_HOST, port=p_secrets.SOLR_PORT,
application=p_secrets.SOLR_APP, core='hb2_users',
query='orcidid:%s' % orcid_id)
get_user.request()
if get_user.results:
if '/read-limited' in get_user.results[0].get('orcidscopes'):
works = orcid_read_works(affiliation=affiliation, orcid_id=orcid_id, access_token=orcid_token)
logger.info('results from ORCID: %s\n' % len(works))
if works:
for work in works:
do_break = False
hb2_record_id = None
orcid_record = None
for work_sum in work.get('work-summary'):
# - putcode is not in hb2
try:
response = requests.get('http://*****:*****@tu-dortmund.de']
# print(json.dumps(thedata, indent=4))
else:
# logger.info(json.dumps(orcid_record, indent=4))
thedata = orcid_processor.orcid_wtf(orcid_id, orcid_record)
print(thedata)
# add author via orcid_user_info
public_info = orcid_user_info(affiliation=affiliation, orcid_id=orcid_id, access_token=orcid_token)
person = {
'name': '%s, %s' % (public_info.get('name').get('family-name').get('value'), public_info.get('name').get('given-names').get('value')),
'orcid': orcid_id,
'role': ['aut']
}
if affiliation == 'tudo':
person['tudo'] = True
person['rubi'] = False
thedata['catalog'] = ['Technische Universität Dortmund']
elif affiliation == 'rub':
person['tudo'] = False
person['rubi'] = True
thedata['catalog'] = ['Ruhr-Universität Bochum']
else:
person['tudo'] = False
person['rubi'] = False
thedata['catalog'] = ['Temporäre Daten']
thedata['person'] = [person]
if thedata:
logger.info('POST /work')
# POST request
logger.info(json.dumps(thedata, indent=4))
try:
# post data
response = requests.post(
'%s/%s' % (orcid_secrets.API, 'work'),
headers={'Content-Type': 'application/json', 'Authorization': 'Bearer %s' % orcid_secrets.TOKEN},
data=json.dumps(thedata)
)
status = response.status_code
logger.info('STATUS: %s' % status)
if status == 201:
response_json = json.loads(response.content.decode("utf-8"))
logger.info(response_json.get('work'))
if response_json.get('message'):
logger.info(response_json.get('message'))
else:
logger.error('ERROR: %s: %s' % (status, response.content.decode("utf-8")))
except requests.exceptions.ConnectionError as e:
logging.error(e)
logger.info('')
def wtf_csl(wtf_records=None):
csl_records = []
# logging.info('wtf_records: %s' % wtf_records)
if wtf_records is None:
wtf_records = []
if len(wtf_records) > 0:
for record in wtf_records:
# logging.info('record: %s' % record)
hosts = []
if record.get('is_part_of'):
hosts = record.get('is_part_of')
else:
hosts.append({'is_part_of': ''})
for host in hosts:
csl_record = {}
# id
csl_record.setdefault('id', record.get('id'))
# type
csl_type = CSL_PUBTYPES.get(record.get('pubtype'))
if csl_type is None:
csl_record.setdefault('pubtype', record.get('pubtype'))
csl_record.setdefault('type', csl_type)
# title
title = record.get('title')
if record.get('subtitle'):
title += ': %s' % record.get('subtitle')
# TODO title supplements
csl_record.setdefault('title', title)
# doi
if record.get('DOI') and record.get('DOI')[0] != '':
csl_record.setdefault('DOI', record.get('DOI')[0].strip())
csl_record.setdefault('URL', 'http://dx.doi.org/%s' % record.get('DOI')[0].strip())
csl_record.setdefault('uri', 'http://dx.doi.org/%s' % record.get('DOI')[0].strip())
# uri
if record.get('uri') and record.get('uri')[0] != '':
for uri in record.get('uri'):
csl_record.setdefault('URL', uri.strip())
csl_record.setdefault('uri', uri.strip())
# contributors
if record.get('person'):
author = []
editor = []
contributor = []
for person in record.get('person'):
# logging.info(person.get('name'))
family = person.get('name').split(', ')[0]
given = ''
if len(person.get('name').split(', ')) > 1:
given = person.get('name').split(', ')[1]
# logging.info('%s, %s' % (family, given))
if person.get('role'):
if 'aut' in person.get('role'):
author.append({'family': family, 'given': given})
elif 'edt' in person.get('role'):
editor.append({'family': family, 'given': given})
else:
contributor.append({'family': family, 'given': given})
if len(author) > 0:
csl_record.setdefault('author', author)
if len(editor) > 0:
csl_record.setdefault('editor', editor)
if len(contributor) > 0 and record.get('pubtype') == 'Lecture':
csl_record.setdefault('author', contributor)
# container
if host.get('is_part_of') != '':
try:
ipo_solr = Solr(host=secrets.SOLR_HOST, port=secrets.SOLR_PORT,
application=secrets.SOLR_APP, query='id:%s' % host.get('is_part_of'),
facet='false', fields=['wtf_json'])
ipo_solr.request()
if len(ipo_solr.results) > 0:
myjson = json.loads(ipo_solr.results[0].get('wtf_json'))
if myjson.get('pubtype') != 'Series':
title = myjson.get('title')
if myjson.get('subtitle'):
title += ': %s' % myjson.get('subtitle')
csl_record.setdefault('container-title', title)
author = []
editor = []
for person in myjson.get('person'):
# logging.info(person.get('name'))
family = person.get('name').split(', ')[0]
given = ''
if len(person.get('name').split(', ')) > 1:
given = person.get('name').split(', ')[1]
# logging.info('%s, %s' % (family, given))
if person.get('role'):
if 'aut' in person.get('role'):
author.append({'family': family, 'given': given})
elif 'edt' in person.get('role'):
editor.append({'family': family, 'given': given})
if len(author) > 0:
csl_record.setdefault('author', author)
if len(editor) > 0:
csl_record.setdefault('editor', editor)
else:
if myjson.get('fsubseries'):
title = myjson.get('fsubseries')
else:
title = myjson.get('title')
csl_record.setdefault('edition', title)
else:
csl_record.setdefault('container-title', host.get('is_part_of'))
except AttributeError as e:
logging.error(e)
# volume
if host.get('volume') and host.get('volume') != '':
csl_record.setdefault('volume', host.get('volume'))
# issue
if host.get('issue') and host.get('issue') != '':
csl_record.setdefault('issue', host.get('issue'))
# page_first
if host.get('page_first') and host.get('page_first') != '':
csl_record.setdefault('page_first', host.get('page_first').replace('-', '_'))
# page_last
if host.get('page_last') and host.get('page_last') != '':
csl_record.setdefault('page_last', host.get('page_last').replace('-', '_'))
# page
if host.get('page_first') and host.get('page_first') != '' and host.get('page_last') and host.get('page_last') != '':
csl_record.setdefault('page', '%s-%s' % (host.get('page_first').replace('-', '_'), host.get('page_last').replace('-', '_')))
else:
if host.get('page_first') and host.get('page_first') != '':
csl_record.setdefault('page', host.get('page_first').replace('-', '_'))
# page_last
if host.get('page_last') and host.get('page_last') != '':
csl_record.setdefault('page', host.get('page_last').replace('-', '_'))
# collection-number
# collection-author
# collection-editor
# number_of_volumes
if host.get('number_of_volumes') and host.get('number_of_volumes') != '':
csl_record.setdefault('number_of_volumes', host.get('number_of_volumes'))
# language
if record.get('language') and record.get('language')[0] != '' and record.get('language')[0] != 'None':
csl_record.setdefault('language', record.get('language')[0])
# issued
if record.get('issued'):
issued = {}
date_parts = []
for date_part in str(record.get('issued')).replace('[', '').replace(']', '').split('-'):
date_parts.append(date_part)
issued.setdefault('date-parts', []).append(date_parts)
csl_record.setdefault('issued', issued)
# edition
if record.get('edition'):
csl_record.setdefault('edition', record.get('edition'))
# isbn
if record.get('isbn'):
csl_record.setdefault('isbn', record.get('ISBN')[0])
# issn
if record.get('issn'):
csl_record.setdefault('issn', record.get('ISSN')[0])
# ismn
if record.get('ismn'):
csl_record.setdefault('ismn', record.get('ISMN')[0])
# publisher
if record.get('publisher'):
csl_record.setdefault('publisher', record.get('publisher'))
csl_record.setdefault('original-publisher', record.get('publisher'))
# publisher_place
if record.get('publisher_place'):
csl_record.setdefault('publisher-place', record.get('publisher_place'))
csl_record.setdefault('original-publisher-place', record.get('publisher_place'))
# number_of_pages
if record.get('number_of_pages'):
csl_record.setdefault('number_of_pages', record.get('number_of_pages'))
# uri
# WOSID
if record.get('WOSID'):
csl_record.setdefault('WOSID', record.get('WOSID'))
# PMID
if record.get('PMID'):
csl_record.setdefault('PMID', record.get('PMID'))
# abstract
if record.get('abstract')[0] and record.get('abstract')[0].get('content') != '':
csl_record.setdefault('abstract', record.get('abstract')[0].get('content'))
csl_records.append(csl_record)
return csl_records
# persons('../../person.json')
# works('../../works.json')
# issued_data('/data/backup/Samstag/2016-10-01_15-28-31_hb2.not_issued.json', '/data/issued/issuedData.json')
# delete_issued('/data/backup/Montag/2016-10-03_09-39-18_hb2.pubtype_Journal.json')
organisations = []
logging.debug('TEST')
try:
record_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
core='organisation',
rows=100000)
record_solr.request()
for result in record_solr.results:
organisations.append(result.get('id'))
# print('results: %s' % organisations)
# print('result_list: %s' % record_solr.results)
except Exception as e:
logging.error(e)
# organisations = ['TUDO9144040']
newdata = []
for orga in organisations:
def export_openapc(year=''):
'''
Getting a bibliography
swagger_from_file: api_doc/export_openapc.yml
'''
if theme(request.access_route) == 'dortmund':
affiliation = 'tudo'
affiliation_str = 'TU Dortmund'
elif theme(request.access_route) == 'bochum':
affiliation = 'rubi'
affiliation_str = 'Ruhr-Universität Bochum'
else:
affiliation = ''
affiliation_str = ''
if affiliation:
csv = '"institution";"period";"euro";"doi";"is_hybrid";"publisher";"journal_full_title";"issn";"url";"local_id"\n'
oa_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
core='hb2',
handler='query',
query='oa_funds:true',
facet='false',
rows=100000,
fquery=['%s:true' % affiliation,
'fdate:%s' % year])
oa_solr.request()
results = oa_solr.results
if len(results) > 0:
for record in results:
thedata = json.loads(record.get('wtf_json'))
doi = record.get('doi')[0]
is_hybrid = False
if record.get('is_hybrid'):
is_hybrid = record.get('is_hybrid')
publisher = ''
journal_title = ''
issn = ''
url = ''
if not doi:
journal_title = ''
if record.get('is_part_of_id'):
if record.get('is_part_of_id')[0]:
host = persistence.get_work(
record.get('is_part_of_id')[0])
if host:
record = json.loads(host.get('wtf_json'))
# print(json.dumps(record, indent=4))
journal_title = record.get('title')
if record.get('fsubseries'):
journal_title = record.get('fsubseries')
publisher = ''
if record.get('publisher'):
publisher = record.get('publisher')
issn = ''
if record.get('ISSN'):
for entry in record.get('ISSN'):
if entry:
issn = entry
break
url = ''
if thedata.get('uri'):
for uri in thedata.get('uri'):
url = uri
break
csv += '"%s";%s;%s;"%s";"%s";"%s";"%s";"%s";"%s";"%s"\n' % (
affiliation_str, year, 0.00, doi, is_hybrid, publisher,
journal_title, issn, url, record.get('id'))
resp = make_response(csv, 200)
resp.headers['Content-Type'] = 'text/csv; charset=utf-8'
return resp
else:
return make_response('No results', 404)
else:
return make_response(
'No affiliation parameter set. Please contact the administrator!',
400)
def export_oa_report(year=''):
'''
Getting a bibliography
swagger_from_file: api_doc/export_oa_report.yml
'''
pubtype = request.args.get('pubtype', 'ArticleJournal')
if theme(request.access_route) == 'dortmund':
affiliation = 'tudo'
affiliation_str = 'TU Dortmund'
elif theme(request.access_route) == 'bochum':
affiliation = 'rubi'
affiliation_str = 'Ruhr-Universität Bochum'
else:
affiliation = ''
affiliation_str = ''
if affiliation:
csv = '"AU";"TI";"SO";"DT";"RP";"EM";"OI";"PU";"ISSN";"E-ISSN";"DOI";"OA";"RP TUDO";"Fak"\n'
# TODO search for all publications of the given year
oa_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
core='hb2',
handler='query',
query='*:*',
facet='false',
rows=100000,
fquery=[
'%s:true' % affiliation,
'fdate:%s' % year,
'pubtype:%s' % pubtype
])
oa_solr.request()
results = oa_solr.results
if results:
for record in results:
thedata = json.loads(record.get('wtf_json'))
author = ''
corresponding_author = ''
corresponding_affiliation = ''
faks = ''
for person in thedata.get('person'):
if 'aut' in person.get('role'):
author += person.get('name') + ';'
if person.get('corresponding_author'):
corresponding_author = person.get('name')
if person.get('tudo'):
corresponding_affiliation = True
if person.get('gnd'):
tudo = persistence.get_person(
person.get('gnd'))
# print(person.get('gnd'))
if tudo:
if tudo.get('affiliation_id'):
faks = ''
for entry in tudo.get(
'affiliation_id'):
affil = persistence.get_orga(
entry)
fak = ''
if affil:
has_parent = False
fak = affil.get(
'pref_label')
if affil.get('parent_id'):
has_parent = True
fak = '%s / %s' % (
affil.get(
'parent_label'
),
affil.get(
'pref_label'))
while has_parent:
affil = persistence.get_orga(
affil.get(
'parent_id'))
if affil.get(
'parent_id'):
has_parent = True
fak = '%s / %s' % (
affil.get(
'parent_label'
),
affil.get(
'pref_label'
))
else:
has_parent = False
else:
fak = 'LinkError: Person %s' % person.get(
'gnd')
faks += fak + ';'
faks = faks[:-1]
author = author[:-1]
publisher = ''
journal_title = ''
issn = ''
journal_title = ''
if record.get('is_part_of_id'):
if record.get('is_part_of_id')[0]:
host = persistence.get_work(
record.get('is_part_of_id')[0])
if host:
record = json.loads(host.get('wtf_json'))
# print(json.dumps(record, indent=4))
journal_title = record.get('title')
if record.get('fsubseries'):
journal_title = record.get('fsubseries')
publisher = ''
if record.get('publisher'):
publisher = record.get('publisher')
issn = ''
if record.get('ISSN'):
for entry in record.get('ISSN'):
if entry:
issn = entry
break
csv += '"%s";"%s";"%s";"%s";"%s";"%s";"%s";"%s";"%s";"%s";"%s";"%s";"%s";"%s"\n' % (
author,
thedata.get('title'),
journal_title,
'article',
corresponding_author,
'',
'',
publisher,
issn,
'',
thedata.get('DOI')[0],
thedata.get('oa_funded'),
corresponding_affiliation,
faks,
)
resp = make_response(csv, 200)
resp.headers['Content-Type'] = 'text/csv; charset=utf-8'
return resp
else:
return make_response(
'No affiliation parameter set. Please contact the administrator!',
400)
def wtf_orcid(affiliation='', wtf_records=None):
orcid_records = []
# logging.info('wtf_records: %s' % wtf_records)
if wtf_records is None:
wtf_records = []
if len(wtf_records) > 0:
for record in wtf_records:
orcid_record = {}
db = BibDatabase()
db.entries = []
bibtex_entry = {}
# work type
orcid_type = ORCID_PUBTYPES.get(record.get('pubtype'))
if orcid_type is None:
orcid_type.setdefault('pubtype', 'OTHER')
orcid_record.setdefault('type', orcid_type)
bibtex_type = BIBTEX_PUBTYPES.get(record.get('pubtype'))
if bibtex_type is None:
bibtex_type.setdefault('pubtype', 'misc')
bibtex_entry.setdefault('ENTRYTYPE', bibtex_type)
external_ids = {}
external_id = []
# ids - record id (source-work-id)
ext_id = {}
ext_id.setdefault('external-id-type', 'source-work-id')
ext_id.setdefault('external-id-value', record.get('id'))
ext_id.setdefault('external-id-relationship', 'SELF')
if affiliation and affiliation in affiliation_url:
ext_id.setdefault(
'external-id-url',
'%s%s/%s' % (affiliation_url.get(affiliation),
record.get('pubtype'), record.get('id')))
external_id.append(ext_id)
bibtex_entry.setdefault('ID', record.get('id'))
# ids - ISBN (isbn)
if record.get('ISBN'):
for isbn in record.get('ISBN'):
if isbn:
ext_id = {}
ext_id.setdefault('external-id-type', 'isbn')
ext_id.setdefault('external-id-value', isbn)
ext_id.setdefault('external-id-relationship', 'SELF')
external_id.append(ext_id)
# ids - ISSN (issn)
if record.get('ISSN'):
for issn in record.get('ISSN'):
if issn:
ext_id = {}
ext_id.setdefault('external-id-type', 'issn')
ext_id.setdefault('external-id-value', issn)
ext_id.setdefault('external-id-relationship', 'SELF')
external_id.append(ext_id)
# ids - ZDB (other-id)
if record.get('ZDBID'):
for zdbid in record.get('ZDBID'):
if zdbid:
ext_id = {}
ext_id.setdefault('external-id-type', 'other-id')
ext_id.setdefault('external-id-value', zdbid)
ext_id.setdefault(
'external-id-url',
'http://ld.zdb-services.de/resource/%s' % zdbid)
ext_id.setdefault('external-id-relationship', 'SELF')
external_id.append(ext_id)
# ids - PMID (pmc)
if record.get('PMID'):
ext_id = {}
ext_id.setdefault('external-id-type', 'pmid')
ext_id.setdefault('external-id-value', record.get('PMID'))
ext_id.setdefault(
'external-id-url',
'http://www.ncbi.nlm.nih.gov/pubmed/%s' %
record.get('PMID'))
ext_id.setdefault('external-id-relationship', 'SELF')
external_id.append(ext_id)
# ids - WOS-ID (wosuid)
if record.get('WOSID'):
ext_id = {}
ext_id.setdefault('external-id-type', 'doi')
ext_id.setdefault('external-id-value', record.get('WOSID'))
ext_id.setdefault(
'external-id-url',
'http://ws.isiknowledge.com/cps/openurl/service?url_ver=Z39.88-2004&rft_id=info:ut/%s'
% record.get('WOSID'))
ext_id.setdefault('external-id-relationship', 'SELF')
external_id.append(ext_id)
# ids - doi
if record.get('DOI'):
for doi in record.get('DOI'):
if doi:
ext_id = {}
ext_id.setdefault('external-id-type', 'doi')
ext_id.setdefault('external-id-value', doi)
ext_id.setdefault('external-id-url',
'http://dx.doi.org/%s' % doi)
ext_id.setdefault('external-id-relationship', 'SELF')
external_id.append(ext_id)
if external_id:
external_ids.setdefault('external-id', external_id)
bibtex_entry.setdefault('doi', record.get('DOI')[0])
orcid_record.setdefault('external-ids', external_ids)
# titles
title = {}
title.setdefault('title', record.get('title'))
if record.get('subtitle'):
title.setdefault('subtitle', record.get('subtitle'))
orcid_record.setdefault('title', title)
title = record.get('title')
if record.get('subtitle'):
title += ': %s' % record.get('subtitle')
bibtex_entry.setdefault('title', title)
# issued
if record.get('issued'):
publication_date = {}
date_parts = []
for date_part in str(record.get('issued')).replace(
'[', '').replace(']', '').split('-'):
date_parts.append(date_part)
publication_date.setdefault('year', int(date_parts[0]))
bibtex_entry.setdefault('year', date_parts[0])
if len(date_parts) > 1:
publication_date.setdefault('month', int(date_parts[1]))
bibtex_entry.setdefault('month', date_parts[1])
if len(date_parts) > 2:
publication_date.setdefault('day', int(date_parts[2]))
bibtex_entry.setdefault('day', date_parts[2])
orcid_record.setdefault('publication-date', publication_date)
# contributors
contributors = {}
contributor = []
author_str = ''
for author in record.get('person'):
if 'aut' in author.get('role'):
con = {}
con.setdefault('credit-name', author.get('name'))
if author.get('orcid'):
con.setdefault('contributor-orcid', {
'uri':
'http://orcid.org/%s' % author.get('orcid')
})
contributor_attributes = {}
contributor_attributes.setdefault('contributor-role',
'AUTHOR')
con.setdefault('contributor-attributes',
contributor_attributes)
contributor.append(con)
if author_str != '':
author_str += ' and '
author_str += author.get('name')
contributors.setdefault('contributor', contributor)
orcid_record.setdefault('contributors', contributors)
bibtex_entry.setdefault('author', author_str)
# language
if record.get(
'language')[0] and record.get('language')[0] != 'None':
orcid_record.setdefault(
'language-code',
str(
babelfish.Language.fromalpha3b(
record.get('language')[0])))
# is_part_of
hosts = []
if record.get('is_part_of'):
hosts = record.get('is_part_of')
for host in hosts:
if host.get('is_part_of') != '':
try:
ipo_solr = Solr(host=secrets.SOLR_HOST,
port=secrets.SOLR_PORT,
application=secrets.SOLR_APP,
query='id:%s' % host.get('is_part_of'),
facet='false',
fields=['wtf_json'])
ipo_solr.request()
if len(ipo_solr.results) > 0:
myjson = json.loads(
ipo_solr.results[0].get('wtf_json'))
title = myjson.get('title')
if myjson.get('subtitle'):
title += ': %s' % myjson.get('subtitle')
orcid_record.setdefault('journal-title', title)
if bibtex_entry.get('ENTRYTYPE') == 'article':
bibtex_entry.setdefault('journal', title)
elif bibtex_entry.get('ENTRYTYPE') == 'inbook':
bibtex_entry.setdefault('booktitle', title)
elif bibtex_entry.get(
'ENTRYTYPE') == 'inproceedings':
bibtex_entry.setdefault('booktitle', title)
elif bibtex_entry.get(
'ENTRYTYPE') == 'incollection':
bibtex_entry.setdefault('booktitle', title)
else:
bibtex_entry.setdefault('series', title)
else:
orcid_record.setdefault('journal-title',
host.get('is_part_of'))
except AttributeError as e:
logging.error(e)
if host.get('volume') != '':
bibtex_entry.setdefault('volume', host.get('volume'))
if bibtex_entry:
db.entries.append(bibtex_entry)
citation = {}
citation.setdefault('citation-type', 'BIBTEX')
citation.setdefault('citation', bibtexparser.dumps(db))
orcid_record.setdefault('citation', citation)
orcid_records.append(orcid_record)
return orcid_records
