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R3600/modules/bibrank/lib/bibrank_tag_based_indexer.py
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bibrank_tag_based_indexer.py
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##Ranking of records using different parameters and methods.
## This file is part of the CERN Document Server Software (CDSware).
## Copyright (C) 2002 CERN.
##
## The CDSware 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.
##
## The CDSware 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 CDSware; if not, write to the Free Software Foundation, Inc.,
## 59 Temple Place, Suite 330, Boston, MA 02111-1307, USA.
## read config variables:
#include "config.wml"
#include "configbis.wml"
#include "cdswmllib.wml"
## start Python:
<protect>#!</protect><PYTHON>
<protect># -*- coding: utf-8 -*-</protect>
<protect>## $Id$</protect>
<protect>## DO NOT EDIT THIS FILE! IT WAS AUTOMATICALLY GENERATED FROM CDSware WML SOURCES.</protect>
__version__ = "<: print generate_pretty_version_string('$Id$'); :>"
## fill config variables:
pylibdir = "<LIBDIR>/python"
try:
from marshal import loads,dumps
from zlib import compress,decompress
from string import split,translate,lower,upper
import getopt
import getpass
import string
import os
import sre
import sys
import time
import MySQLdb
import Numeric
import urllib
import signal
import tempfile
import unicodedata
import traceback
import cStringIO
import re
import copy
import types
import ConfigParser
except ImportError, e:
import sys
try:
sys.path.append('%s' % pylibdir)
from cdsware.config import *
from cdsware.search_engine_config import cfg_max_recID
from cdsware.search_engine import perform_request_search, strip_accents
from cdsware.search_engine import HitSet, get_index_id, create_basic_search_units
from cdsware.dbquery import run_sql
from cdsware.access_control_engine import acc_authorize_action
from bisect import bisect
except ImportError, e:
import sys
options = {}
def single_tag_rank_method_exec(rank_method_code, name, config):
"""Creating the rank method data"""
startCreate = time.time()
rnkset = {}
rnkset_old = fromDB(rank_method_code)
date = time.strftime("%Y-%m-%d %H:%M:%S", time.localtime())
rnkset_new = single_tag_rank(config)
rnkset = union_dicts(rnkset_old, rnkset_new)
intoDB(rnkset, date, rank_method_code)
def single_tag_rank(config):
"""Connect the given tag with the data from the kb file given"""
if options["verbose"] >= 9:
write_message("Loading knowledgebase file")
kb_data = {}
records = []
write_message("Reading knowledgebase file: %s" % config.get(config.get("rank_method", "function"), "kb_src"))
input = open(config.get(config.get("rank_method", "function"), "kb_src"), 'r')
data = input.readlines()
for line in data:
if not line[0:1] == "#":
kb_data[string.strip((string.split(string.strip(line),"---"))[0])] = (string.split(string.strip(line), "---"))[1]
write_message("Number of lines read from knowledgebase file: %s" % len(kb_data))
tag = config.get(config.get("rank_method", "function"),"tag")
tags = split(config.get(config.get("rank_method", "function"), "check_mandatory_tags"),",")
if tags == ['']:
tags = ""
records = []
for (recids,recide) in options["recid_range"]:
write_message("......Processing records #%s-%s" % (recids, recide))
recs = run_sql("SELECT id_bibrec,value FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id and id_bibrec >=%s and id_bibrec<=%s" % (tag[0:2], tag[0:2], tag, recids, recide))
valid = HitSet(Numeric.ones(cfg_max_recID + 1))
for key in tags:
newset = HitSet()
newset.addlist(run_sql("SELECT id_bibrec FROM bib%sx,bibrec_bib%sx WHERE id_bibxxx=id AND tag='%s' AND id_bibxxx=id and id_bibrec >=%s and id_bibrec<=%s" % (tag[0:2], tag[0:2], key, recids, recide)))
valid.intersect(newset)
if tags:
recs = filter(lambda x: valid.contains(x[0]), recs)
records = records + list(recs)
write_message("Number of records found with the necessary tags: %s" % len(records))
records = filter(lambda x: options["validset"].contains(x[0]), records)
rnkset = {}
for key,value in records:
if kb_data.has_key(value):
if not rnkset.has_key(key):
rnkset[key] = float(kb_data[value])
else:
if kb_data.has_key(rnkset[key]) and float(kb_data[value]) > float((rnkset[key])[1]):
rnkset[key] = float(kb_data[value])
else:
rnkset[key] = 0
write_message("Number of records available in rank method: %s" % len(rnkset))
return rnkset
def get_lastupdated(rank_method_code):
"""Get the last time the rank method was updated"""
res = run_sql("SELECT rnkMETHOD.last_updated FROM rnkMETHOD WHERE name='%s'" % rank_method_code)
if res:
return res[0][0]
else:
raise Exception("Is this the first run? Please do a complete update.")
def intoDB(dict, date, rank_method_code):
"""Insert the rank method data into the database"""
id = run_sql("SELECT id from rnkMETHOD where name='%s'" % rank_method_code)
del_rank_method_codeDATA(rank_method_code)
run_sql("INSERT INTO rnkMETHODDATA(id_rnkMETHOD, relevance_data) VALUES ('%s','%s')" % (id[0][0], serialize_via_marshal(dict)))
run_sql("UPDATE rnkMETHOD SET last_updated='%s' WHERE name='%s'" % (date, rank_method_code))
def fromDB(rank_method_code):
"""Get the data for a rank method"""
id = run_sql("SELECT id from rnkMETHOD where name='%s'" % rank_method_code)
res = run_sql("SELECT relevance_data FROM rnkMETHODDATA WHERE id_rnkMETHOD=%s" % id[0][0])
if res:
return deserialize_via_marshal(res[0][0])
else:
return {}
def del_rank_method_codeDATA(rank_method_code):
"""Delete the data for a rank method"""
id = run_sql("SELECT id from rnkMETHOD where name='%s'" % rank_method_code)
res = run_sql("DELETE FROM rnkMETHODDATA WHERE id_rnkMETHOD=%s" % id[0][0])
def del_recids(rank_method_code, range):
"""Delete some records from the rank method"""
id = run_sql("SELECT id from rnkMETHOD where name='%s'" % rank_method_code)
res = run_sql("SELECT relevance_data FROM rnkMETHODDATA WHERE id_rnkMETHOD=%s" % id[0][0])
if res:
rec_dict = deserialize_via_marshal(res[0][0])
write_message("Old size: %s" % len(rec_dict))
for (recids,recide) in range:
for i in range(int(recids), int(recide)):
if rec_dict.has_key(i):
del rec_dict[i]
write_messag("New size: %s" % len(rec_dict))
date = time.strftime("%Y-%m-%d %H:%M:%S", time.localtime())
intoDB(rec_dict, date, rank_method_code)
else:
print "Create before deleting!"
def union_dicts(dict1, dict2):
"Returns union of the two dicts."
union_dict = {}
for (key, value) in dict1.iteritems():
union_dict[key] = value
for (key, value) in dict2.iteritems():
union_dict[key] = value
return union_dict
def rank_method_code_statistics(rank_method_code):
"""Print statistics"""
method = fromDB(rank_method_code)
max = ('',-999999)
maxcount = 0
min = ('',999999)
mincount = 0
for (recID, value) in method.iteritems():
if value < min and value > 0:
min = value
if value > max:
max = value
for (recID, value) in method.iteritems():
if value == min:
mincount += 1
if value == max:
maxcount += 1
write_message("Showing statistic for selected method")
write_message("Method name: %s" % getName(rank_method_code))
write_message("Short name: %s" % rank_method_code)
write_message("Last run: %s" % get_lastupdated(rank_method_code))
write_message("Number of records: %s" % len(method))
write_message("Lowest value: %s - Number of records: %s" % (min, mincount))
write_message("Highest value: %s - Number of records: %s" % (max, maxcount))
write_message("Divided into 10 sets:")
for i in range(1,11):
setcount = 0
distinct_values = {}
lower = -1.0 + ((float(max + 1) / 10)) * (i - 1)
upper = -1.0 + ((float(max + 1) / 10)) * i
for (recID, value) in method.iteritems():
if value >= lower and value <= upper:
setcount += 1
distinct_values[value] = 1
write_message("Set %s (%s-%s) %s Distinct values: %s" % (i, lower, upper, len(distinct_values), setcount))
def check_method(rank_method_code):
write_message("Checking rank method...")
if len(fromDB(rank_method_code)) == 0:
write_message("Rank method not yet executed, please run it to create the necessary data.")
else:
if len(add_date(rank_method_code)) > 0:
write_message("Records modified, update recommended")
else:
write_message("No records modified, update not necessary")
def write_message(msg, stream = sys.stdout):
"""Write message and flush output stream (may be sys.stdout or sys.stderr). Useful for debugging stuff."""
if stream == sys.stdout or stream == sys.stderr:
stream.write(time.strftime("%Y-%m-%d %H:%M:%S --> ", time.localtime()))
stream.write("%s\n" % msg)
stream.flush()
else:
sys.stderr.write("Unknown stream %s. [must be sys.stdout or sys.stderr]\n" % stream)
return
def get_datetime(var, format_string="%Y-%m-%d %H:%M:%S"):
"""Returns a date string according to the format string.
It can handle normal date strings and shifts with respect
to now."""
date = time.time()
shift_re = sre.compile("([-\+]{0,1})([\d]+)([dhms])")
factors = {"d":24*3600, "h":3600, "m":60, "s":1}
m = shift_re.match(var)
if m:
sign = m.groups()[0] == "-" and -1 or 1
factor = factors[m.groups()[2]]
value = float(m.groups()[1])
date = time.localtime(date + sign * factor * value)
date = time.strftime(format_string, date)
else:
date = time.strptime(var, format_string)
date = time.strftime(format_string, date)
return date
def task_sig_sleep(sig, frame):
"""Signal handler for the 'sleep' signal sent by BibSched."""
if options["verbose"]>= 9:
write_message("got signal %d" % sig)
write_message("sleeping...")
task_update_status("SLEEPING")
signal.pause() # wait for wake-up signal
def task_sig_wakeup(sig, frame):
"""Signal handler for the 'wakeup' signal sent by BibSched."""
if options["verbose"]>= 9:
write_message("got signal %d" % sig)
write_message("continuing...")
task_update_status("CONTINUING")
def task_sig_stop(sig, frame):
"""Signal handler for the 'stop' signal sent by BibSched."""
if options["verbose"]>= 9:
write_message("got signal %d" % sig)
write_message("stopping...")
task_update_status("STOPPING")
errcode = 0
try:
task_sig_stop_commands()
write_message("stopped")
task_update_status("STOPPED")
except StandardError, err:
write_message("Error during stopping! %e" % err)
task_update_status("STOPPINGFAILED")
errcode = 1
sys.exit(errcode)
def task_sig_stop_commands():
"""Do all the commands necessary to stop the task before quitting.
Useful for task_sig_stop() handler.
"""
write_message("stopping commands started")
write_message("stopping commands ended")
def task_sig_suicide(sig, frame):
"""Signal handler for the 'suicide' signal sent by BibSched."""
if options["verbose"]>= 9:
write_message("got signal %d" % sig)
write_message("suiciding myself now...")
task_update_status("SUICIDING")
write_message("suicided")
task_update_status("SUICIDED")
sys.exit(0)
def task_sig_unknown(sig, frame):
"""Signal handler for the other unknown signals sent by shell or user."""
if options["verbose"]>= 9:
write_message("got signal %d" % sig)
write_message("unknown signal %d ignored" % sig) # do nothing for other signals
def task_update_progress(msg):
"""Updates progress information in the BibSched task table."""
query = "UPDATE schTASK SET progress='%s' where id=%d" % (MySQLdb.escape_string(msg), task_id)
if options["verbose"]>= 9:
write_message(query)
run_sql(query)
return
def task_update_status(val):
"""Updates state information in the BibSched task table."""
query = "UPDATE schTASK SET status='%s' where id=%d" % (MySQLdb.escape_string(val), task_id)
if options["verbose"]>= 9:
write_message(query)
run_sql(query)
return
def split_ranges(parse_string):
recIDs = []
ranges = string.split(parse_string, ",")
for range in ranges:
tmp_recIDs = string.split(range, "-")
if len(tmp_recIDs)==1:
recIDs.append([int(tmp_recIDs[0]), int(tmp_recIDs[0])])
else:
if int(tmp_recIDs[0]) > int(tmp_recIDs[1]): # sanity check
tmp = tmp_recIDs[0]
tmp_recIDs[0] = tmp_recIDs[1]
tmp_recIDs[1] = tmp
recIDs.append([int(tmp_recIDs[0]), int(tmp_recIDs[1])])
return recIDs
def bibrank_engine(row, run):
"""Run the indexing task. The row argument is the BibSched task
queue row, containing if, arguments, etc.
Return 1 in case of success and 0 in case of failure.
"""
try:
import psyco
psyco.bind(single_tag_rank)
psyco.bind(single_tag_rank_method_exec)
psyco.bind(serialize_via_numeric_array)
psyco.bind(deserialize_via_numeric_array)
#psyco.bind(authorimpact_exec)
#psyco.bind(merge_exec)
#psyco.bind(citationimpact_exec)
psyco.bind(accessimpact_exec)
except StandardError, e:
print "Psyco ERROR",e
startCreate = time.time()
global options, task_id
task_id = row[0]
task_proc = row[1]
options = loads(row[6])
task_starting_time = time.strftime("%Y-%m-%d %H:%M:%S", time.localtime())
signal.signal(signal.SIGUSR1, task_sig_sleep)
signal.signal(signal.SIGTERM, task_sig_stop)
signal.signal(signal.SIGABRT, task_sig_suicide)
signal.signal(signal.SIGCONT, task_sig_wakeup)
signal.signal(signal.SIGINT, task_sig_unknown)
sets = {}
try:
options["run"] = []
options["run"].append(run)
for rank_method_code in options["run"]:
cfg_name = getName(rank_method_code)
if options["verbose"] >= 0:
write_message("Running rank method: %s." % cfg_name)
file = etcdir + "/bibrank/" + rank_method_code + ".cfg"
config = ConfigParser.ConfigParser()
try:
config.readfp(open(file))
except StandardError, e:
write_message("Cannot find configurationfile: %s" % file, sys.stderr)
raise StandardError
cfg_short = rank_method_code
cfg_function = config.get("rank_method", "function") + "_exec"
cfg_name = getName(cfg_short)
options["validset"] = get_valid_range(rank_method_code)
if options["collection"]:
l_of_colls = string.split(options["collection"], ",")
recIDs = perform_request_search(c=l_of_colls)
recIDs_range = []
for recID in recIDs:
recIDs_range.append([recID,recID])
options["recid_range"] = recIDs_range
elif options["id"]:
options["recid_range"] = options["id"]
elif options["modified"]:
options["recid_range"] = add_date(rank_method_code, options["modified"])
elif options["last_updated"]:
options["recid_range"] = add_date(rank_method_code)
else:
if options["verbose"] > 1:
write_message("No records specified, updating all")
min_id = run_sql("SELECT min(id) from bibrec")[0][0]
max_id = run_sql("SELECT max(id) from bibrec")[0][0]
options["recid_range"] = [[min_id, max_id]]
if options["quick"] == "no" and options["verbose"] >= 9:
write_message("Rebalance not yet enabled, parameter ignored.")
if options["cmd"] == "del":
del_recids(cfg_short, options["recid_range"])
elif options["cmd"] == "add":
func_object = globals().get(cfg_function)
func_object(rank_method_code, cfg_name, config)
elif options["cmd"] == "stat":
rank_method_code_statistics(rank_method_code)
elif options["cmd"] == "check":
check_method(rank_method_code)
else:
write_message("Invalid command found processing %s" % rank_method_code, sys.stderr)
raise StandardError
except StandardError, e:
write_message("\nException caught: %s" % e, sys.stderr)
if options["verbose"] >= 9:
traceback.print_tb(sys.exc_info()[2])
raise StandardError
if options["verbose"]:
showtime((time.time() - startCreate))
return 1
def get_valid_range(rank_method_code):
"""Return a range of records"""
if options["verbose"] >=9:
write_message("Getting records from collections enabled for rank method.")
res = run_sql("SELECT collection.name FROM collection,collection_rnkMETHOD,rnkMETHOD WHERE collection.id=id_collection and id_rnkMETHOD=rnkMETHOD.id and rnkMETHOD.name='%s'" % rank_method_code)
l_of_colls = []
for coll in res:
l_of_colls.append(coll[0])
if len(l_of_colls) > 0:
recIDs = perform_request_search(c=l_of_colls)
else:
recIDs = []
valid = HitSet()
valid.addlist(recIDs)
return valid
def add_date(rank_method_code, date=""):
"""If date is not set, then retrieve it from the database.
Reindex all formats newer than the modification date"""
if not date:
try:
date = (get_lastupdated(rank_method_code),'')
except Exception, e:
date = "0000-00-00 00:00:00"
query = """SELECT b.id FROM bibrec AS b WHERE b.modification_date >=
'%s'""" % date[0]
if date[1]:
query += "and b.modification_date <= '%s'" % date[1]
query += "ORDER BY b.id ASC"""
res = run_sql(query)
list = create_range_list(res)
if not list:
if options["verbose"]:
write_message("No new records added since last time method was run")
return list
def getName(rank_method_code, ln=cdslang, type='ln'):
"""Returns the name of the method if it exists"""
try:
rnkid = run_sql("SELECT id FROM rnkMETHOD where name='%s'" % rank_method_code)
if rnkid:
rnkid = str(rnkid[0][0])
res = run_sql("SELECT value FROM rnkMETHODNAME where type='%s' and ln='%s' and id_rnkMETHOD=%s" % (type, ln, rnkid))
if not res:
res = run_sql("SELECT value FROM rnkMETHODNAME WHERE ln='%s' and id_rnkMETHOD=%s and type='%s'" % (cdslang, rnkid, type))
if not res:
return rank_method_code
return res[0][0]
else:
raise Exception
except Exception, e:
write_message("Cannot run rank method, either given code for method is wrong, or it has not been added using the webinterface.")
raise Exception
def create_range_list(res):
"""Creates a range list from a recID select query result contained
in res. The result is expected to have ascending numerical order."""
if not res:
return []
row = res[0]
if not row:
return []
else:
range_list = [[row[0],row[0]]]
for row in res[1:]:
id = row[0]
if id == range_list[-1][1] + 1:
range_list[-1][1] = id
else:
range_list.append([id,id])
return range_list
def single_tag_rank_method(row, run):
return bibrank_engine(row, run)
def serialize_via_numeric_array_dumps(arr):
return Numeric.dumps(arr)
def serialize_via_numeric_array_compr(str):
return compress(str)
def serialize_via_numeric_array_escape(str):
return MySQLdb.escape_string(str)
def serialize_via_numeric_array(arr):
"""Serialize Numeric array into a compressed string."""
return serialize_via_numeric_array_escape(serialize_via_numeric_array_compr(serialize_via_numeric_array_dumps(arr)))
def deserialize_via_numeric_array(string):
"""Decompress and deserialize string into a Numeric array."""
return Numeric.loads(decompress(string))
def serialize_via_marshal(obj):
"""Serialize Python object via marshal into a compressed string."""
return MySQLdb.escape_string(compress(dumps(obj)))
def deserialize_via_marshal(string):
"""Decompress and deserialize string into a Python object via marshal."""
return loads(decompress(string))
def accessimpact_exec(rank_method_code, name, config):
"""Generating rankset based on number of downloads per document"""
startCreate = time.time()
options["dbhost"] = config.get("accessimpact", "dbhost")
options["dbname"] = config.get("accessimpact", "dbname")
options["dbuser"] = config.get("accessimpact", "dbuser")
options["dbpass"] = config.get("accessimpact", "dbpass")
date = time.strftime("%Y-%m-%d %H:%M:%S", time.localtime())
sysno_tag = config.get("accessimpact", "sysnr_tag")
curr_repnr_tag = config.get("accessimpact", "curr_tag")
old_repnr_tag = config.get("accessimpact", "old_tag")
impacc = {}
if 1: #not options["modified"]:
imprec = run_sql2("SELECT imprecno,base,bsysno,bref FROM imprec")
impacc = dict(run_sql2("SELECT imprecno,SUM(nbaccess) FROM impacc group BY imprecno"))
cdssysno = run_sql("SELECT value,id_bibrec FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id" % (sysno_tag[0:2], sysno_tag[0:2], sysno_tag))
else:
fromDB(starset)
impacc = {}
if options["verbose"] >= 9:
write_message("Updating records modified after: %s" % options["modified"])
pre_impacc = dict(run_sql2("SELECT distinct imprecno,'' FROM impacc WHERE sdate >=%s", (options["modified"],)))
imprec = []
cdssysno = []
for key in pre_impacc.keys():
test_impacc = run_sql2("SELECT imprecno,SUM(nbaccess) FROM impacc WHERE imprecno=%s GROUP BY imprecno", (key,))
impacc[test_impacc[0][0]] = test_impacc[0][1]
data = run_sql2("SELECT imprecno,base,bsysno,bref FROM imprec WHERE imprecno=%s", (key,))
if data:
data2 = run_sql2("SELECT imprecno FROM imprec WHERE bsysn=%s", (data[0][2],))
for key2 in data2:
imprec.append((key2, data[0][1], data[0][2], data[0][3]))
sysno = '0' * (9 - len(str(data[0][2]))) + str(data[0][2]) + data[0][1][0:3]
data = run_sql("SELECT value,id_bibrec FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id AND value='%s'" % sysno_tag[0:2], sysno_tag
[0:2], sysno_tag, sysno)
for key2,value in data:
cdssysno.append((key2, value))
tempdict = {}
for value,key in cdssysno:
if not tempdict.has_key(value):
tempdict[value] = [key]
else:
tempdict[value] = tempdict[value] + [key]
tempdoc = {}
count = 0
notcount = 0
for key, base, bsysno, value in imprec:
if impacc.has_key(key):
sysno = '0' * (9 - len(str(bsysno))) + str(bsysno) + base[0:3]
data = ()
if tempdict.has_key(sysno):
data = tempdict[sysno]
else:
data = run_sql("SELECT id_bibrec FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id AND value='%s'" % (curr_repnr_tag[0:2], curr_repnr_tag[0:2], curr_repnr_tag, value))
if len(data) == 0:
data = run_sql("SELECT id_bibrec FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id AND value='%s'" % (old_repnr_tag[0:2], old_repnr_tag[0:2], old_repnr_tag, value))
if len(data) != 0:
count = count + int(impacc[key])
for key2 in range(0, len(data)):
if type(data[key2]) is tuple:
key3 = data[key2][0]
else:
key3 = data[key2]
if tempdoc.has_key(key3):
tempdoc[key3] = int(tempdoc[key3] + float(impacc[key]))
else:
tempdoc[key3] = int(impacc[key])
else:
notcount = notcount + int(impacc[key])
if options["verbose"] >= 9:
try:
write_message("Percentage of accesses matched with a record: %s%%,(%s/%s)" % (round((float(count) / float(count+notcount)) * 100, 3), notcount, count))
write_message("Number of records available in rank method: %s" % len(tempdoc))
except:
print count, notcount
intoDB(tempdoc, date, rank_method_code)
#------------------------------------------------------------
#---------------BELOW IS OLD CODE, NOT WORKING ATM-----------
#------------------------------------------------------------
def citationimpact_exec(rank_method_code, name, config):
"""Calculates rankset based on number of citations each document has"""
startCreate = time.time()
tempdoc = {}
if options["verbose"] >= 1:
write_message("Running: %s." % name)
citation_tag = config.get("citationimpact", "citation_tag")
curr_repnr_tag = config.get("citationimpact", "curr_tag")
old_repnr_tag = config.get("citationimpact", "old_tag")
if not options["modified"]:
if options["verbose"] >= 9:
write_message("Rebalancing")
starset.setLastUpdated(time.strftime("%Y-%m-%d %H:%M:%S", time.localtime()))
citations = run_sql("SELECT id_bibrec,value FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id" % (citation_tag[0:2], citation_tag[0:2], citation_tag))
else:
fromDB(starset)
if options["modified"] == "last_updated":
options["modified"] = starset.getLastUpdated()
if options["verbose"] >= 9:
write_message("Updating records modified after: %s" % options["modified"])
starset.setLastUpdated(time.strftime("%Y-%m-%d %H:%M:%S", time.localtime()))
mod_data = run_sql("SELECT id FROM bibrec WHERE modification_date >=%s", (options["modified"]),)
for id in mod_data:
citation = run_sql("SELECT id_bibrec,value FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id and id_bibrec=%s" % (citation_tag[0:2], citation_tag[0:2], citation_tag, id))
for id,value in citation:
citations.append((id,value))
for key,value in citations:
data = run_sql("SELECT id_bibrec FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id AND value='%s'" % (curr_repnr_tag[0:2], curr_repnr_tag[0:2], curr_repnr_tag, value))
data = run_sql("SELECT id_bibrec FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id AND value='%s'" % (old_repnr_tag[0:2], old_repnr_tag[0:2], old_repnr_tag, value))
if not options["modified"]:
starset.setUnsorted(tempdoc)
sort(starset)
else:
merge_two_sets(tempdoc, starset)
#intoDB(starset)
showtime((time.time() - startCreate))
def authorimpact_exec(rank_method_code, starsets, config):
"""Calculating the rankvalue a document has based on its authors"""
startCreate = time.time()
starset = starsets[rank_method_code]
if options["verbose"] >= 1:
write_message("Running: %s" % starset.getName())
tempdoc = single_tag_rank(starset, config)
Auth1 = {}
documents2 = {}
authors = {}
upd_authors = []
sql_src = []
p_author_tag = config.get("authorimpact", "primary_tag")
s_author_tag = config.get("authorimpact", "secondary_tag")
sql_src.append("SELECT id_bibrec,value FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id" % (p_author_tag[0:2], p_author_tag[0:2], p_author_tag))
sql_src.append("SELECT id_bibrec,value FROM bib%sx,bibrec_bib%sx WHERE tag='%s' AND id_bibxxx=id" % (s_author_tag[0:2], s_author_tag[0:2], s_author_tag))
if not options["modified"]:
increment = 50000
if options["verbose"] >= 9:
write_message("Rebalancing")
starset.setLastUpdated(time.strftime("%Y-%m-%d %H:%M:%S", time.localtime()))
for key in sql_src:
ij = -increment
while ij <= (cfg_max_recID):
ij = ij + increment
data = run_sql(key + " AND id_bibrec>%i AND id_bibrec<=%i" % (ij, (ij + increment)))
authorimpact_modified(data, Auth1)
else:
fromDB(starset)
mod_data = run_sql("select id from bibrec where modification_date >= %s", (options["modified"],))
if options["modified"] == "last_updated":
options["modified"] = starset.getLastUpdated()
if options["verbose"] >= 9:
write_message("Updating records modified after: %s" % options["modified"])
starset.setLastUpdated(time.strftime("%Y-%m-%d %H:%M:%S", time.localtime()))
for key in sql_src:
for id in mod_data:
data = run_sql(key + " AND id_bibrec=%s" % id[0])
authorimpact_modified(data, Auth1)
for key2,value in data:
upd_authors.append((key2,value))
for key in Auth1.keys():
for key2 in sql_src:
data = run_sql(key2 + " AND value=%s", (key,))
authorimpact_modified(data, Auth1)
del data
Auth = []
for key in Auth1.keys():
for key1 in range(0, len(Auth1[key])):
Auth.append((Auth1[key][key1], key))
del Auth1
factor = 0.0
for key, value in Auth:
if tempdoc.has_key(key) and tempdoc[key][1] > 0.0:
factor = tempdoc[key][1]
else:
factor = 0.0
if not authors.has_key(value):
authors[value] = (factor, 1)
else:
authors[value] = (authors[value][0] + factor, authors[value][1] + 1)
if options["modified"]:
Auth = upd_authors
tempdoc = {}
for key,value in Auth:
if documents2.has_key(key) and authors[value][0] > 0.0:
documents2[key] = (documents2[key][0] + authors[value][0], documents2[key][1] + authors[value][1])
elif authors[value][0] > 0.0:
documents2[key] = authors[value]
del Auth
for key in documents2.keys():
tempdoc[key] = ("", float(documents2[key][0]) / float(documents2[key][1]))
if options["verbose"] >= 9:
write_message("Number of distinct authors: %s" % len(authors))
if not options["modified"]:
for key in tempdoc.keys():
if len(tempdoc[key][0]) != 0:
tempdoc[key] = ("", -1.0)
starset.setUnsorted(tempdoc)
sort(starset)
else:
merge_two_sets(tempdoc,starset)
intoDB(starset)
showtime((time.time() - startCreate))
def authorimpact_modified(data, Auth):
"""Adding data to the dictionary"""
for key,value in data:
if not Auth.has_key(value):
Auth[value] = []
Auth[value].append(key)
else:
found=0
for key2 in range(0, len(Auth[value])):
if Auth[value][key2] == key:
found = 1
break
if not found == 1:
Auth[value].append(key)
def merge_exec(rank_method_code, starsets, config):
"""Merge several methods into one starset"""
startCreate = time.time()
if options["verbose"] >= 1:
write_message("Running: %s" % starsets[rank_method_code].getName())
starsets[rank_method_code].setLastUpdated(time.strftime("%Y-%m-%d %H:%M:%S", time.localtime()))
threshold = {}
finalset = {}
permut = ''
for nr in range(0, starsets[rank_method_code].getSize() + 1):
finalset[nr] = HitSet()
permut = permut + "%s" % nr
starsets[rank_method_code].setWeigth(1.0)
sum = 0.0
nr = 0
convert = {}
size=-1
for key in starsets:
if key != rank_method_code:
sum = sum + starsets[key].getWeigth()
convert[nr] = key
nr=nr + 1
if size > -1 and size != len(starsets[key].getStars()) -1:
write_message("The sets have different sizes, process cancelled")
sys.exit()
else:
size = len(starsets[key].getStars()) -1
sum = 1.0 / sum
for key in starsets:
if key != rank_method_code:
starsets[key].setWeigth(starsets[key].getWeigth() * sum)
p = Permutation(permut, len(starsets)-1)
for perm in p:
tempset = copy.copy(starsets[convert[0]].getStar(int(perm[0])))
place = float(perm[0]) * float(starsets[convert[0]].getWeigth())
for i in range(1, len(perm)):
tempset.intersect(starsets[convert[i]].getStar(int(perm[i])))
tempset.calculate_nbhits()
place = place+float(perm[i]) * float(starsets[convert[i]].getWeigth())
finalset[int(round(place))].union(tempset)
for i in range(0, starsets[rank_method_code].getSize() + 1):
finalset[i].calculate_nbhits()
threshold[i] = 0
starsets[rank_method_code].setStars(finalset)
starsets[rank_method_code].setThreshold(threshold)
intoDB(starsets[rank_method_code])
showtime((time.time() - startCreate))
def showtime(timeused):
"""Show time used for method"""
if options["verbose"] >= 9:
write_message("Time used: %d second(s)." % timeused)
def stats2(starset):
"""Print statistics"""
try:
total = 0
write_message("Statistics: %s , Top Star size: %s%% , Overall Importance: %s%%" % (starset.getName(), round(float(starset.getTopStar()) * 100,2), round(float(starset.getWeigth())*100, 2)))
for nr in range(0, starset.getSize() + 1):
write_message("%s star(s): Range >= \t%s\t%s" % (nr, round(starset.getThreshold()[nr],3), (starset.getStar(nr))._nbhits))
total = total + (starset.getStar(nr))._nbhits
write_message("Total: %s" % total)
except StandardError, e:
write_message("Error showing statistics: %s" % starset.getName(), sys.stderr())
raise StandardError
def check(starset):
"""Check if rebalancing is necessary"""
try:
size = cfg_max_recID + 1 - starset.getStar(0)._nbhits
if options["verbose"] >= 9:
for nr in range(1, starset.getSize() + 1):
write_message("%s---%f" % (nr, float(starset.getStar(nr)._nbhits) / float(size)))
if (float(starset.getStar(starset.getSize())._nbhits) / float(size)) >= float(options["check"]):
write_message("Rebalance: %s" % starset.getName())
except StandardError, e:
write_message("Error checking: %s" % starset.getName(), sys.stderr)
raise StandardError
def compare_on_val(first, second):
return cmp(second[1], first[1])
class Permutation:
"""Creates permutations"""
def __init__(self, values, length):
self.values = values
self.length = length
return
def __len__(self):
return len(self.values) ** self.length
def __getitem__(self, n):
"""permutation number n"""
if n >= len(self): raise IndexError
res = []
lv = len(self.values)
vals = self.values
for ndx in range(self.length):
res.append( vals[ n % lv ])
n = n / lv
return res
def _db_login(relogin = 0):
"""Login to the database"""
global DB_CONN
if relogin:
DB_CONN = MySQLdb.connect(host=options["dbhost"], db=options["dbname"], user=options["dbuser"], passwd=options["dbpass"])
return DB_CONN
else:
#try:
if 1==1:
d = DB_CONN
return d
#except NameError:
# DB_CONN = MySQLdb.connect(host=dbhost, db=dbname, user=dbuser, passwd=dbpass)
# return DB_CONN
def run_sql2(sql, param=None, n=0, with_desc=0):
""" Runs SQL on the server and returns result"""
db = _db_login(1)
if param:
param = tuple(param)
try:
cur = db.cursor()
rc = cur.execute(sql, param)
except:
db = _db_login(relogin = 1)
cur = db.cursor()
rc = cur.execute(sql, param)
if string.upper(string.split(sql)[0]) in ("SELECT", "SHOW", "DESC", "DESCRIBE"):
if n:
recset = cur.fetchmany(n)
else:
recset = cur.fetchall()
if with_desc:
return recset, cur.description
else:
return recset
else:
if string.upper(string.split(sql)[0]) == "INSERT":
rc = cur.insert_id()
return rc
#def citationimpact(row):
# return bibrank_engine(row)
def accessimpact(row, run):
return bibrank_engine(row, run)
#def authorimpact(row):
# return bibrank_engine(row)
#def merge(row):
# return bibrank_engine(row)
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