titipata pubmed_parser issues

titipata / pubmed_parser

:clipboard: A Python Parser for PubMed Open-Access XML Subset and MEDLINE XML Dataset

http://titipata.github.io/pubmed_parser/

MIT License

580 stars 166 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

#134 Parse `version_id` and `version_date` in `parse_xml_web()`

#156 nils-herrmann closed 1 month ago
0
#154 Handle missing ppub and collection

#155 nils-herrmann closed 1 month ago
0
Error parsing date

#154 nils-herrmann closed 1 month ago
0
Drop argument `all_paragraph` from `parse_pubmed_paragraph()`

#153 nils-herrmann closed 1 month ago
0
[Bug report] No module find error

#152 jonghyunlee1993 closed 1 month ago
3
AttributeError: 'NoneType' object has no attribute 'getchildren'

#151 qm-intel opened 1 month ago
1
AttributeError: 'NoneType' object has no attribute 'text' when using parse_pubmed_caption

#150 qm-intel opened 1 month ago
0
How to extract the figures' inline mentions from the artcile xml file?

#149 qm-intel opened 1 month ago
2
It couldn't recognize the xml file I downloaded from pubmed

#148 wildwhip opened 2 months ago
6
Drop all_paragraph from parse_pubmed_paragraph()

#147 mattyding closed 1 month ago
7
#144 Update action versions and implement checkout of fork for tests

#146 nils-herrmann closed 3 months ago
1
#144 Fix checks

#145 nils-herrmann closed 3 months ago
0
Fix GitHub workflows

#144 nils-herrmann closed 1 month ago
4
#110 Parse text inside journal-title nodes.

#143 nils-herrmann closed 4 months ago
0
#119 Modify XPath to retreive tables and references.

#142 nils-herrmann closed 4 months ago
0
#112 Parse epub insed of mix of ppub and epub

#141 nils-herrmann closed 2 months ago
2
Handling of non-ASCII / unicode characters

#140 Michael-E-Rose opened 4 months ago
0
#125 Create exception for empty figures and parse figure sub-points.

#139 nils-herrmann closed 4 months ago
1
Parse `pii` in the web parser

#138 nils-herrmann closed 5 months ago
0
Add `pii` to web parser

#137 nils-herrmann closed 5 months ago
0
#135 Fix: Use doi from`ELocationID` insted of `ArticleIdList\\ArticleId`

#136 nils-herrmann closed 5 months ago
0
Inconsistent PMID and DOI when using parse_xml_web for an XML file.

#135 JIBSN closed 5 months ago
1
Parse VersionID and VersionDate

#134 Michael-E-Rose closed 1 month ago
0
Fix Medline parser tests

#133 nils-herrmann closed 1 month ago
1
Up-to-date tests for Medline and PubMed OA parsers

#132 nils-herrmann closed 5 months ago
0
Update tests: Use current data

#131 nils-herrmann closed 1 month ago
2
#129 Parse language in parse_xml_web()

#130 nils-herrmann closed 7 months ago
4
Parse language in `parse_xml_web()`

#129 nils-herrmann closed 7 months ago
1
CALL FOR MAINTAINER/CONTRIBUTOR FOR PUBMED_PARSER

#128 titipata opened 11 months ago
7
Bug report - XML citations from website

#127 chungimungi opened 12 months ago
1
ValueError when attempting to parse OA XML

#126 mazzespazze closed 7 months ago
3
parse_pubmed_caption() failing on some papers

#125 oblodgett closed 4 months ago
0
Question: parsing error first line expecting '<' not found

#124 jjgreen12 closed 1 year ago
0
question using pp.parese_medline

#123 scm1210 closed 4 months ago
2
Question: Abstract with Mesh Tag

#122 shrimonmuke0202 closed 4 months ago
3
Question for extracting text

#121 shrimonmuke0202 closed 7 months ago
1
turn parse_medline_xml into an iterator to save memory

#120 seandavi closed 1 year ago
1
parse_pubmed_table() and parse_pubmed_references() returning None

#119 octotus closed 4 months ago
1
Table parsing issues with parse_pubmed_table

#118 octotus closed 4 months ago
2
Add optional parsing of MeSH subheadings

#117 raypereda closed 2 years ago
8
Fix Nonetype in article_meta

#116 titipata closed 2 years ago
0
AttributeError: 'NoneType' object has no attribute 'find'

#115 JIBINJOHNV closed 2 years ago
2
fix git install link

#114 grivaz closed 2 years ago
0
Error: parse_medline_xml() is unable to parse the file even though the provided path is correct

#113 srishti-git1110 closed 2 years ago
11
physical & electronic publication dates can be mixed into erroneous dates

#112 ghost closed 2 months ago
1
parse_pubmed_paragraph() function seems to miss some paragraphs sometimes.

#111 zhao-zy15 opened 2 years ago
0
PMC OA: tags in the <journal-title> field break parse_pubmed_xml

#110 ghost closed 4 months ago
2
All of PubMed XML was updated to follow the MEDLINE XML format.

#109 MattYoon opened 2 years ago
0
bug correction for vernacular title extraction

#108 jtourille closed 2 years ago
0
Is there a reason why PubMed/MEDLINE extracted list elements are joined with ";" instead of keeping them as lists ?

#107 jtourille closed 4 months ago
2