def _run_update_authornames_tables_from_paper(record_ids=None, all_records=False):
'''
Runs the update on the papers which have been modified since the last run
@note: This should be run as often as possible to keep authornames and
authornames_bibrefs cache tables up to date.
'''
if not all_records and not record_ids:
last_log = get_user_log(userinfo='daemon', action='UATFP', only_most_recent=True)
if len(last_log) >= 1:
#select only the most recent papers
recently_modified, min_date = get_papers_recently_modified(date=last_log[0][2])
insert_user_log('daemon', '-1', 'UATFP', 'bibsched', 'status',
comment='bibauthorid_daemon, update_authornames_tables_from_paper',
timestamp=min_date[0][0])
if not recently_modified:
bibtask.write_message("update_authornames_tables_from_paper: "
"All names up to date.",
stream=sys.stdout, verbose=0)
else:
bibtask.write_message(
"update_authornames_tables_from_paper: Running on %s papers " % str(
len(recently_modified)), stream=sys.stdout, verbose=0)
update_authornames_tables_from_paper(recently_modified)
else:
#this is the first time the utility is run, run on all the papers?
#Probably better to write the log on the first authornames population
#@todo: authornames population writes the log
recently_modified, min_date = get_papers_recently_modified()
insert_user_log('daemon', '-1', 'UATFP', 'bibsched', 'status',
comment='bibauthorid_daemon, update_authornames_tables_from_paper',
timestamp=min_date[0][0])
bibtask.write_message(
"update_authornames_tables_from_paper: Running on %s papers " % str(
len(recently_modified)), stream=sys.stdout, verbose=0)
update_authornames_tables_from_paper(recently_modified)
else:
bibtask.write_message("update_authornames_tables_from_paper: Running "
"on all papers ",
stream=sys.stdout, verbose=0)
update_authornames_tables_from_paper(record_ids)
def _get_personids_to_update_extids(papers=None):
'''
It returns the set of personids of which we should recalculate
their external ids.
@param papers: papers
@type papers: set or None
@return: personids
@rtype: set
'''
last_log = get_user_log(userinfo='daemon', action='PID_UPDATE', only_most_recent=True)
if last_log:
daemon_last_time_run = last_log[0][2]
modified_bibrecs = get_recently_modified_record_ids(daemon_last_time_run)
else:
modified_bibrecs = get_all_valid_bibrecs()
if papers:
modified_bibrecs &= set(papers)
if not modified_bibrecs:
return None
if bconfig.LIMIT_EXTERNAL_IDS_COLLECTION_TO_CLAIMED_PAPERS:
modified_bibrecs = [rec[0] for rec in get_claimed_papers_from_papers(modified_bibrecs)]
personids_to_update_extids = set()
for bibrec in modified_bibrecs:
personids_to_update_extids |= set(get_personids_from_bibrec(bibrec))
return personids_to_update_extids
def run_rabbit(paperslist, all_records=False):
if not paperslist and all_records:
rabbit_with_log(None, True, "bibauthorid_daemon, update_personid on all papers")
elif not paperslist:
last_log = get_user_log(userinfo="daemon", action="PID_UPDATE", only_most_recent=True)
if len(last_log) >= 1:
# select only the most recent papers
recently_modified = get_recently_modified_record_ids(date=last_log[0][2])
if not recently_modified:
bibtask.write_message(
"update_personID_table_from_paper: " "All person entities up to date.", stream=sys.stdout, verbose=0
)
else:
bibtask.write_message(
"update_personID_table_from_paper: Running on: " + str(recently_modified),
stream=sys.stdout,
verbose=0,
)
rabbit_with_log(
recently_modified,
True,
"bibauthorid_daemon, run_personid_fast_assign_papers on "
+ str([paperslist, all_records, recently_modified]),
)
else:
rabbit_with_log(None, True, "bibauthorid_daemon, update_personid on all papers")
else:
rabbit_with_log(
paperslist, True, "bibauthorid_daemon, personid_fast_assign_papers on " + str(paperslist), partial=True
)
def run_tortoise(from_scratch):
from bibauthorid_tortoise import tortoise, tortoise_from_scratch
if from_scratch:
tortoise_from_scratch()
else:
start_time = get_sql_time()
tortoise_db_name = 'tortoise'
last_run = get_user_log(userinfo=tortoise_db_name, only_most_recent=True)
if last_run:
modified = get_recently_modified_record_ids(last_run[0][2])
else:
modified = []
tortoise(modified)
insert_user_log(tortoise_db_name, '-1', '', '', '', timestamp=start_time)
def run_tortoise(from_scratch):
from bibauthorid_tortoise import tortoise, tortoise_from_scratch
if from_scratch:
tortoise_from_scratch()
else:
start_time = get_sql_time()
tortoise_db_name = 'tortoise'
last_run = get_user_log(userinfo=tortoise_db_name, only_most_recent=True)
if last_run:
modified = get_recently_modified_record_ids(last_run[0][2])
else:
modified = []
tortoise(modified)
insert_user_log(tortoise_db_name, '-1', '', '', '', timestamp=start_time)
def run_rabbit(paperslist, all_records=False):
if not paperslist and all_records:
rabbit_with_log(None, True, 'bibauthorid_daemon, update_personid on all papers')
elif not paperslist:
last_log = get_user_log(userinfo='daemon', action='PID_UPDATE', only_most_recent=True)
if len(last_log) >= 1:
#select only the most recent papers
recently_modified = get_recently_modified_record_ids(date=last_log[0][2])
if not recently_modified:
bibtask.write_message("update_personID_table_from_paper: "
"All person entities up to date.",
stream=sys.stdout, verbose=0)
else:
bibtask.write_message("update_personID_table_from_paper: Running on: " +
str(recently_modified), stream=sys.stdout, verbose=0)
rabbit_with_log(recently_modified, True, 'bibauthorid_daemon, run_personid_fast_assign_papers on '
+ str([paperslist, all_records, recently_modified]))
else:
rabbit_with_log(None, True, 'bibauthorid_daemon, update_personid on all papers')
else:
rabbit_with_log(paperslist, True, 'bibauthorid_daemon, personid_fast_assign_papers on ' + str(paperslist), partial=True)
def _run_personid_gc(paperslist, all_records=False):
# insert_user_log('daemon', '-1', 'PGC', 'bibsched', 'status',
# comment='bibauthorid_daemon, personid_gc (update_personid_from_papers) on '
# + str(paperslist))
if not paperslist and all_records:
#update_authornames_tables_from_paper()
insert_user_log('daemon', '-1', 'PGC', 'bibsched', 'status',
comment='bibauthorid_daemon, personid_gc (update_personid_from_papers) on all papers')
update_personID_table_from_paper()
elif not paperslist:
last_log = get_user_log(userinfo='daemon', action='PGC', only_most_recent=True)
if len(last_log) >= 1:
#select only the most recent papers
recently_modified, min_date = get_papers_recently_modified(date=last_log[0][2])
insert_user_log('daemon', '-1', 'PGC', 'bibsched', 'status',
comment='bibauthorid_daemon, update_personid_from_papers on '
+ str([paperslist, all_records, recently_modified]),
timestamp=min_date[0][0])
if not recently_modified:
bibtask.write_message("update_personID_table_from_paper: "
"All person entities up to date.",
stream=sys.stdout, verbose=0)
else:
bibtask.write_message("update_personID_table_from_paper: Running on: " +
str(recently_modified), stream=sys.stdout, verbose=0)
personid_fast_assign_papers(recently_modified)
else:
insert_user_log('daemon', '-1', 'PGC', 'bibsched', 'status',
comment='bibauthorid_daemon, personid_gc (update_personid_from_papers) on all papers')
update_personID_table_from_paper()
else:
insert_user_log('daemon', '-1', 'PGC', 'bibsched', 'status',
comment='bibauthorid_daemon, personid_gc (update_personid_from_papers) on '
+ str(paperslist))
update_authornames_tables_from_paper(paperslist)
update_personID_table_from_paper(paperslist)
def _run_update_personID_table_from_paper(record_ids=None, all_records=False):
'''
Runs the update on the papers which have been modified since the last run
This is removing no-longer existing papers from the personid table.
@note: Update recommended monthly.
@warning: quite resource intensive.
'''
if not record_ids and not all_records:
last_log = get_user_log(userinfo='daemon', action='UPITFP', only_most_recent=True)
if len(last_log) >= 1:
#select only the most recent papers
recently_modified, min_date = get_papers_recently_modified(date=last_log[0][2])
insert_user_log('daemon', '-1', 'UPITFP', 'bibsched', 'status',
comment='bibauthorid_daemon, update_personID_table_from_paper',
timestamp=min_date[0][0])
if not recently_modified:
bibtask.write_message("update_personID_table_from_paper: "
"All person entities up to date.",
stream=sys.stdout, verbose=0)
else:
bibtask.write_message("update_personID_table_from_paper: Running on: " +
str(recently_modified), stream=sys.stdout, verbose=0)
update_personID_table_from_paper(recently_modified)
else:
# Should not process all papers, hence authornames population writes
# the appropriate log. In case the log is missing, process everything.
recently_modified, min_date = get_papers_recently_modified()
insert_user_log('daemon', '-1', 'UPITFP', 'bibsched', 'status',
comment='bibauthorid_daemon, update_personID_table_from_paper',
timestamp=min_date[0][0])
bibtask.write_message("update_personID_table_from_paper: Running on: "
+ str(recently_modified), stream=sys.stdout, verbose=0)
update_personID_table_from_paper(recently_modified)
else:
update_personID_table_from_paper(record_ids)
