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Parse_ArxivData_AdjMatrix_vs3.py
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Parse_ArxivData_AdjMatrix_vs3.py
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# -*- coding: utf-8 -*-
"""
Created on Wed Sep 12 16:52:12 2018
@author: gerasimos
"""
from __future__ import print_function
import collections
import numpy as np
import itertools
#import string
authorsD = collections.defaultdict(list)
papersD = collections.defaultdict(list)
normalizedAuthorsD = collections.defaultdict(list)
fullAuthorsD = collections.defaultdict(list)
AuthorNoInPapD = collections.defaultdict(list)
papersClusterIdD = collections.defaultdict(list)
dictAdj = collections.defaultdict(dict)
dictFeat = collections.defaultdict(dict)
dictLabels = collections.defaultdict(dict)
with open("data/arxiv-mrdm05.dat") as f_in:
# csv.reader(f_in, delimeter='\n')
for line in f_in: # CREATE an anonymous generator
#print(line[0])
row_author_id = line.split('|')[1].lstrip(" ").rstrip(" ") #print(row_author_id[0])
row_paper_id = line.split('|')[5].lstrip(" ").rstrip(" ") #print(row_author_id[0])
#print(row_author_id,row_paper_id)
authorsD[row_author_id].append(row_paper_id)
# authors[line[0]].append(line[5])
papersD[row_paper_id].append(row_author_id)
#
row_normalizedAuthors = line.split('|')[2].lstrip(" ").rstrip(" ") #print(row_author_id[0])
normalizedAuthorsD[row_normalizedAuthors].append(row_author_id)
#
row_fullAuthors = line.split('|')[3].lstrip(" ").rstrip(" ") #print(row_author_id[0])
fullAuthorsD[row_fullAuthors].append(row_author_id)
#
row_AuthorNoInPap = line.split('|')[4].lstrip(" ").rstrip(" ") #print(row_author_id[0])
AuthorNoInPapD[row_AuthorNoInPap].append(row_author_id)
#
row_papersCluster = line.split('|')[6].lstrip(" ").rstrip(" ") #print(row_author_id[0])
papersClusterIdD[row_papersCluster].append(row_author_id)
for i in authorsD['41952']:
print(i)
adj = np.zeros((len(papersD),len(papersD)), np.int32)
feat = np.zeros((len(papersD), len(authorsD)), np.int32)
labels = np.zeros((len(papersD),len(AuthorNoInPapD)), np.int32)
################ SANITY CHECK #####################################
papers = authorsD['41952']
papersList = []
papersList.append(papers)
#adj = np.zeros((len(authorsD),len(authorsD)))
for p in papersD['10']:
print(p, authorsD[p])
###################################################################
#for author, papers in authors: #AuthorsDict
"""for author in authorsD: #AuthorsDict
#print(author)
#print(authors[author])
#break
#print(author)
papersList = []
papersList.append(authorsD[author]) #papersList.append(papers)
###for p in papersList:
adj[p,pp] = ###
for p in papersList:
authorsList = []
authorsList.append(papersD[p])
adj[p,pp] =
#papersList.append(pp)
#for k,v in papersList:"""
####################################################################
# with open('arxiv.cites', 'a') as output_file1:
for p in papersD:
authorsList = papersD[p] #authorsList = []
#authorsList.append(papersD[p]) #has authors (of this paper)
#papersList.append(pp)
for author in authorsList:
#for author in authorsD: #AuthorsDict
#print(author)
#print(authors[author])
#break
#print(author)
papersList = authorsD[author] #papersList = []
#papersList.append(authorsD[author]) #has papers
#papersList.append(papers)
"""for p in papersList:
adj[p,pp] = """
for pp in papersList:
dictAdj[p][pp]=1 # dictAdj[p,pp]=1
#print('{:07d} {07d}'.format(key,neighboor),file=output_file1, end='')
####################################################################
""" mapping: newDict
Read each line
Take the key of each line
If it belongs to dictionary: continue
else: add to list and increase counter """
count = 0
dictMap = collections.defaultdict(dict)
dictReverMap = collections.defaultdict(dict)
for p in dictAdj:
#for p in papersD:
dictMap[p] = count
dictReverMap[count] = p
count = count+1
if count == 1:
print(p)
################ SANITY CHECK #####################################
a = 0
for key in dictMap:
if key == dictReverMap[dictMap[key]]:
1 #print('ok')
else: print('problem')
####################################################################
#matr = np.zeros((len(dictMap),len(dictMap)))
with open('data/arxiv.cites', 'a') as output_file1:
for key in dictAdj: # for key,value in dictAdj:
# print(value)
DictedNeighboors = dictAdj[key] # value = dictAdj[key]
for neighboor in DictedNeighboors:
#print(neighboor,DictedNeighboors[neighboor]) # print(element)
#for key1 in element:
########################## SANITY PRINT ############################
#print(key,neighboor) #print(key1)
####################################################################
#print(element)
#key1=int(float(key1))
#print(key1)
#key= int(float(key))
#print(key)
adj[dictMap[key],dictMap[neighboor]]=1 # value[element]
# OUTPUT THE RESULT
print('{:d} {:d}\n'.format(dictMap[key],dictMap[neighboor]),file=output_file1, end='')
############################# SANITY CHECK ###############################
store = 0
storeOv = 0
for j in range(np.shape(adj)[0]):
store = sum(adj[j])
storeOv = max((storeOv, store))
"""store = 0
for i in range(np.shape(adj)[0]):
store = store + adj[j][i]
if j % 1000 == 0:
print(j)
if storeOv < store:
storeOv = store """
####################################################################
####################################################################
####################################################################
########################## FEATURE MATRIX ##########################
"""with open('arxiv.cites', 'a') as output_file1:
for i in range(len(np.shape(adj))):
for j in range(len(np.shape(adj))):
if adj[i,j]==1:
print('{:07d} {:07d}'.format(i,j,file=output_file1,end='')"""
### EQUIVALENT TO PAPERSD
for p in papersD:
authorsList = papersD[p] #authorsList = []
#authorsList.append(papersD[p]) #has authors (of this paper)
#papersList.append(pp)
for author in authorsList:
#for author in authorsD: #AuthorsDict
#print(author)
#print(authors[author])
#break
#print(author)
#papersList = authorsD[author] #papersList = []
#papersList.append(authorsD[author]) #has papers
#papersList.append(papers)
##for p in papersList:
## adj[p,pp] =
#for pp in papersList:
#dictAdj[p][pp]=1
dictFeat[p][author]=1
dictMapFeat = collections.defaultdict(dict)
"""MapFeatFlag = collections.defaultdict(dict)#dict(itertools.izip(xrange(len(authorsD)), itertools.repeat(0)))
for author in authorsD:
MapFeatFlag[author]=0 """
#dictMapFeatFlag = collections.defaultdict(dict)
#dict.fromkeys(dictMapFeatFlag, 0)
#dictReverMapFeat = collections.defaultdict(dict)
count2 = 0
""" SHOULD BE WORKING, BUT IT IS NOT
for p in dictFeat:
#for p in papersD:
DictedAuthors = dictFeat[p] #dictMapFeat[p] = count2
for author in DictedAuthors:
if MapFeatFlag[author] == 0:
dictMapFeat[author] = count2
#dictReverMapFeat[count2] = p
count2 = count2+1
dictMapFeatFlag[author] = 1 """
for author in authorsD:
dictMapFeat[author] = count2
count2 = count2+1
with open('data/arxiv.content', 'a') as output_file2:
for key in papersD: # dictFeat: # for key,value in dictAdj:
# print(value)
DictedNeighboors = papersD[key] # dictAdj[key] # value = dictAdj[key]
for neighboor in DictedNeighboors:
#print(neighboor,DictedNeighboors[neighboor]) # print(element)
#for key1 in element:
########################## SANITY PRINT ############################
#print(key,neighboor) #print(key1)
####################################################################
#print(element)
#key1=int(float(key1))
#print(key1)
#key= int(float(key))
#print(key)
feat[dictMap[key],dictMapFeat[neighboor]]=1 # value[element]
# OUTPUT THE RESULT
print('{:d} {:d}\n'.format(dictMap[key],dictMapFeat[neighboor]),file=output_file2, end='')
#print('{:d} {:d}\n'.format(dictMap[key],dictMapFeat[neighboor]),file=output_file2, end='')
####################################################################
### LABEL MATRIX
####################################################################
#new_dic = {}
#new_dic[1] = {}
#new_dic[1][2] = 5