titipata/pubmed_parser

Issues

• How to extract the figures' inline mentions from the artcile xml file?

  #149 opened 4 months ago by qm-intel
  2

• It couldn't recognize the xml file I downloaded from pubmed

  #148 opened 5 months ago by wildwhip
  6

• Update tests: Use current data

  #131 opened 4 months ago by nils-herrmann
  2

• Fix Medline parser tests

  #133 opened 4 months ago by nils-herrmann
  1

• Parse VersionID and VersionDate

  #134 opened 4 months ago by Michael-E-Rose
  0

• Error parsing date

  #154 opened 4 months ago by nils-herrmann
  0

• Drop all_paragraph from parse_pubmed_paragraph()

  #147 opened 4 months ago by mattyding
  7

• [Bug report] No module find error

  #152 opened 4 months ago by jonghyunlee1993
  3

• Fix GitHub workflows

  #144 opened 4 months ago by nils-herrmann
  4

• AttributeError: 'NoneType' object has no attribute 'getchildren'

  #151 opened 4 months ago by qm-intel
  1

• AttributeError: 'NoneType' object has no attribute 'text' when using parse_pubmed_caption

  #150 opened 4 months ago by qm-intel
  0

• physical & electronic publication dates can be mixed into erroneous dates

  #112 opened 5 months ago by aren-lorenson-enveda
  1

• PMC OA: tags in the <journal-title> field break parse_pubmed_xml

  #110 opened 7 months ago by aren-lorenson-enveda
  2

• parse_pubmed_table() and parse_pubmed_references() returning None

  #119 opened 7 months ago by octotus
  1

• ModuleNotFoundError: No module named 'pubmed_parser'

  #91 opened 7 months ago by alonasorochynska
  3

• Question about Original XML

  #96 opened 7 months ago by dsdoermann
  3

• Is there a reason why PubMed/MEDLINE extracted list elements are joined with ";" instead of keeping them as lists ?

  #107 opened 7 months ago by jtourille
  2

• All of PubMed XML was updated to follow the MEDLINE XML format.

  #109 opened 3 years ago by MattYoon
  0

• Table parsing issues with parse_pubmed_table

  #118 opened 7 months ago by octotus
  2

• question using pp.parese_medline

  #123 opened 7 months ago by scm1210
  2

• Handling of non-ASCII / unicode characters

  #140 opened 7 months ago by Michael-E-Rose
  0

• Question: Abstract with Mesh Tag

  #122 opened 7 months ago by shrimonmuke0202
  3

• parse_pubmed_caption() failing on some papers

  #125 opened 7 months ago by oblodgett
  0

• Inconsistent PMID and DOI when using parse_xml_web for an XML file.

  #135 opened 8 months ago by JIBSN
  1

• Parse language in `parse_xml_web()`

  #129 opened 10 months ago by nils-herrmann
  1

• ValueError when attempting to parse OA XML

  #126 opened 10 months ago by mazzespazze
  3

• Question for extracting text

  #121 opened 10 months ago by shrimonmuke0202
  1

• CALL FOR MAINTAINER/CONTRIBUTOR FOR PUBMED_PARSER

  #128 opened a year ago by titipata
  7

• Bug report - XML citations from website

  #127 opened a year ago by chungimungi
  1

• Question: parsing error first line expecting '<' not found

  #124 opened 2 years ago by jjgreen12
  0

• AttributeError: 'NoneType' object has no attribute 'find'

  #115 opened 3 years ago by JIBINJOHNV
  2

• Error: parse_medline_xml() is unable to parse the file even though the provided path is correct

  #113 opened 3 years ago by srishti-git1110
  11

• parse_pubmed_paragraph() function seems to miss some paragraphs sometimes.

  #111 opened 3 years ago by zhao-zy15
  0

• medline_parser has syntax error: `"is not" with a literal`

  #104 opened 3 years ago by TiansuYu
  1

• Example of processing in dask rather than pyspark

  #103 opened 3 years ago by charliejeynes
  2

• Upload package on PyPI

  #101 opened 3 years ago by FrancescoCasalegno
  3

• Error using parse_pubmed_xml

  #95 opened 4 years ago by sublimotion
  5

• Extracting sections at a time rather than paragraphs

  #97 opened 4 years ago by krishmatta
  1

• parse_pubmed_xml does not return "subjects"

  #87 opened 5 years ago by thomascpan
  0

• Missing details in API docs

  #82 opened 5 years ago by tleonardi
  1

• SyntaxWarning raised during import

  #75 opened 5 years ago by tleonardi
  2

• JOSS paper text

  #77 opened 5 years ago by tleonardi
  2

• Contributing guidelines are missing

  #79 opened 5 years ago by tleonardi
  3

• Create test function for Pubmed Parser

  #80 opened 5 years ago by titipata
  3

• Question about downloading PubMed OA figures

  #74 opened 5 years ago by pidugusundeep
  6

• Missing dependencies

  #76 opened 5 years ago by tleonardi
  1

• Add community guideline

  #72 opened 5 years ago by titipata
  1

• Parsing DOI Medline XML

  #68 opened 5 years ago by sakrifor
  7

• pip3 install wget

  #65 opened 5 years ago by 0BN0
  2

• XMLSyntaxError

  #66 opened 5 years ago by musiccccc
  0