def augmentCollection(request, collection_id, seed_level):
if request.method == 'GET':
if collection_id in names:
return HttpResponse(json.dumps({warning: 'Collection already exists! Try with another collection id.'}), status=status.HTTP_304_NOT_MODIFIED)
seeds = Evidence.objects.filter(Q(created_by=collection_id)&~Q(abstract='')&Q(augmentation=seed_level))
counter = 0
start = 306
for e in seeds:
counter += 1
if counter < start:
continue
print 'processing entry #' + str(counter) + ' out of ' + str(seeds.count())
unicodeTitle = e.title.encode('utf-8')
related_evidence, citation_map, pmid = PubMedQuerier.get_related_evidence(unicodeTitle)
print 'found ' + str(len(related_evidence)) + ' related evidence for ' + unicodeTitle
refs, citedin = getRefsAndCitedin(pmid, citation_map)
for re in related_evidence:
if not re.title:
continue
re_object = Evidence.objects.create_evidence(re.title, re.abstract, serializePaperMetadata(re.pmid,re.authors_str,re.journal,re.year,''), collection_id, int(seed_level)+1)
if re.pmid in refs:
Citation.objects.get_or_create(paper_id=e.id, citation_id=re_object.id, collection_id=collection_id)
if re.pmid in citedin:
Citation.objects.get_or_create(paper_id=re_object.id, citation_id=e.id, collection_id=collection_id)
return HttpResponse(json.dumps({}), status=status.HTTP_200_OK)
def augmentCollection(request, collection_id, seed_level):
if request.method == 'GET':
if collection_id in names:
return HttpResponse(json.dumps({warning: 'Collection already exists! Try with another collection id.'}), status=status.HTTP_304_NOT_MODIFIED)
seeds = Evidence.objects.filter(Q(created_by=collection_id)&~Q(abstract='')&Q(augmentation=seed_level))
counter = 0
for e in seeds:
counter += 1
print 'processing entry #' + str(counter) + ' out of ' + str(seeds.count())
# print e.title
# counter += 1
# if counter < 183:
# continue
# if counter >
related_evidence = PubMedQuerier.get_related_evidence(e.title)
try:
print 'found ' + str(len(related_evidence)) + ' related evidence for ' + e.title
except UnicodeEncodeError:
pass
for re in related_evidence:
Evidence.objects.create_evidence(re.title, re.abstract, json.dumps({
'PMID': re.pmid,
'AUTHOR': re.authors_str,
'JOURNAL': re.journal,
'DATE': re.year,
'AFFILIATION': ''
}), collection_id, seed_level+1)
return HttpResponse(json.dumps({}), status=status.HTTP_200_OK)
def completeCitationInfo(request, collection_id):
if request.method == 'GET':
if collection_id == '18':
completeCitationInfoAMiner(collection_id)
else:
evidence = Evidence.objects.filter(created_by=collection_id)
start = 546
counter = 1
for e in evidence:
if counter < start:
counter += 1
continue
print '>> Processing entry ' + str(counter) + ' out of ' + str(evidence.count())
unicodeTitle = e.title.encode('utf-8')
related_evidence, citation_map, pmid = PubMedQuerier.get_related_evidence(unicodeTitle)
refs, citedin = getRefsAndCitedin(pmid, citation_map)
print 'found ' + str(len(refs)) + ' ref, ' + str(len(citedin)) + ' citedin'
for re in related_evidence:
re_objects = Evidence.objects.filter(title=re.title,created_by=collection_id)
# here paper_id cites citation_id
for re_object in re_objects:
if re.pmid in refs:
try:
Citation.objects.get_or_create(paper_id=e.id, citation_id=re_object.id, collection_id=collection_id)
except MultipleObjectsReturned:
print e.id
print re_object.id
if re.pmid in citedin:
try:
Citation.objects.get_or_create(paper_id=re_object.id, citation_id=e.id, collection_id=collection_id)
except MultipleObjectsReturned:
print re_object.id
print e.id
counter += 1
return HttpResponse(json.dumps({}), status=status.HTTP_200_OK)
