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Change API for getting article dataframes and add pretoken analysis #12

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merged 3 commits into from
Feb 5, 2024

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@cthoyt cthoyt commented Feb 5, 2024

This PR does the following

  1. renames biolexica.literature.get_pubmed_dataframe to biolexica.literature.get_article_dataframe_from_pubmeds (breaking change)
  2. makes batching part of this process from default
  3. adds biolexica.literature.get_article_dataframe_from_search
  4. adds pre-word analysis and example

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codecov bot commented Feb 5, 2024

Codecov Report

Attention: 28 lines in your changes are missing coverage. Please review.

Comparison is base (3b472cd) 46.38% compared to head (56abc10) 44.39%.

Files Patch % Lines
src/biolexica/literature/analyze.py 0.00% 21 Missing ⚠️
src/biolexica/literature/search.py 50.00% 4 Missing ⚠️
src/biolexica/literature/retrieve.py 86.36% 1 Missing and 2 partials ⚠️
Additional details and impacted files
@@            Coverage Diff             @@
##             main      #12      +/-   ##
==========================================
- Coverage   46.38%   44.39%   -2.00%     
==========================================
  Files          12       12              
  Lines         373      410      +37     
  Branches       75       70       -5     
==========================================
+ Hits          173      182       +9     
- Misses        193      219      +26     
- Partials        7        9       +2     

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@cthoyt cthoyt merged commit e4d324e into main Feb 5, 2024
7 of 8 checks passed
@cthoyt cthoyt deleted the pretoken-analysis branch February 5, 2024 16:40
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