Commits · c775d4ad81d01071bab6dc0c3e50e968258cbdd2 · bioinformatics / PanTools · GitLab

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Dec 23, 2022
- Merge branch 'release_v4.1.0' into 'pantools_v4' · c775d4ad
  Smit, Sandra authored 2 years ago
  View commits for tag v4.1.0 v4.1.0
  
  c775d4ad
- release v4.1.0 including optimized construction · b72558aa
  Robin van Esch authored 2 years ago and Smit, Sandra committed 2 years ago
  
  b72558aa
Dec 21, 2022
- Removed copied reference to read the docs manual · db13fd1a
  Robin van Esch authored 2 years ago
  
  View commits for tag v4.0.0 v4.0.0
  
  db13fd1a
- Updated README for 4.0.0 · b2fcaba5
  Robin van Esch authored 2 years ago
  
  b2fcaba5
- Changed merge request Id for closed merged to commit id in CHANGELOG.md · 02de0985
  Robin van Esch authored 2 years ago
  
  02de0985
- Added change in grouping cli --relaxation option to CHANGELOG.md · 7c5673c4
  Robin van Esch authored 2 years ago
  
  7c5673c4
- Added pointer for git release to the conda environment section in the manual · 55870384
  Robin van Esch authored 2 years ago
  
  55870384
- set --contrast to required · 8f338610
  Robin van Esch authored 2 years ago
  
  8f338610
- Removed Pantools.getResources with more functional logic. · bfaaac66
  Robin van Esch authored 2 years ago
  
  bfaaac66
Dec 20, 2022
- Changed readme git instructions to match 3.4.0 · 361a2130
  Robin van Esch authored 2 years ago
  
  361a2130
- Changed download instructions to match 3.4.0 · 018e8467
  Robin van Esch authored 2 years ago
  
  018e8467
- Changed figure and table paths to paths from root instead of relative paths. · d5a75870
  Robin van Esch authored 2 years ago
  
  d5a75870
- changed figure header to conventional italic notation. · 8eaa133c
  Robin van Esch authored 2 years ago
  
  8eaa133c
- Revert "Specified text styles in s5defs-roles.css and s5defs.txt" · b67859df
  Robin van Esch authored 2 years ago
  b67859df
- Specified text styles in s5defs-roles.css and s5defs.txt · 88271eb3
  Robin van Esch authored 2 years ago
  
  88271eb3
- Fixed reference formatting and incorrect indentation of list table · e94e5edd
  Robin van Esch authored 2 years ago
  
  e94e5edd
- Added missing space after text substitution · 3e9f00c1
  Robin van Esch authored 2 years ago
  
  3e9f00c1
- Increased length of subheader underlining to match the header · db653a97
  Robin van Esch authored 2 years ago
  
  db653a97
- Removed unused rst files · a7144ea9
  Robin van Esch authored 2 years ago
  
  a7144ea9
- Updated cross-references in the manual to match the correct locations and labels · 662cb004
  Robin van Esch authored 2 years ago
  
  662cb004
- Renamed ProteomeLayer.Intersection (from intersection) to follow Java class naming conventions · 1365179c
  Robin van Esch authored 2 years ago
  
  1365179c
Dec 14, 2022
- Figure and table paths adjusted for new directory layout · 1097ca86
  Robin van Esch authored 2 years ago
  
  1097ca86
Dec 13, 2022
- Added missing backticks · b986c343
  Robin van Esch authored 2 years ago
  
  b986c343
- Made the sub-parameters for intersection-rate, similarity-threshold,... · 72bc5a8d
  Robin van Esch authored 2 years ago
  72bc5a8d
- Added missing "git" in "git checkout v1.3". · ea81d807
  Robin van Esch authored 2 years ago
  
  ea81d807
- Renamed caption for tutorial to "Tutorial" · 50719ab4
  Robin van Esch authored 2 years ago
  
  50719ab4
- Removed most in-text instances of version substitution in favor of a more generalized wording. · b87f4b36
  Robin van Esch authored 2 years ago
  
  b87f4b36
- Changed caption formatting in toc trees · 9ee364a4
  Robin van Esch authored 2 years ago
  
  9ee364a4
Dec 09, 2022
- Moved captions out of toc tree · b2890fcf
  Robin van Esch authored 2 years ago
  
  b2890fcf
- Moved captions out of toc tree · 3f2ee806
  Robin van Esch authored 2 years ago
  
  3f2ee806
- Made toc trees not hidden · 1088af83
  Robin van Esch authored 2 years ago
  
  1088af83
- Fixed version using a comma rather than a period · fc4754a3
  Robin van Esch authored 2 years ago
  
  fc4754a3
- Moved conf.py back to docs/source · 31f816ce
  Robin van Esch authored 2 years ago
  
  31f816ce
- Pantools.getResource now checks if the program is run from a jar file · 1357546d
  Robin van Esch authored 2 years ago
  
  1357546d
- Group.RelaxationSettings is now a required argument. Defaults for relaxation... · 0b11d8dc
  Robin van Esch authored 2 years ago
  0b11d8dc
- Moved rst files for the read the docs user guide and tutorials to separate... · eefe2b96
  Robin van Esch authored 2 years ago
  eefe2b96
- Added protective if clause in AnnotationLayer.getMrnaSequence · eafcd100
  Robin van Esch authored 2 years ago
  
  eafcd100
- Added "-p" option for "--phenotype" in ANI · 1618c272
  Robin van Esch authored 2 years ago
  
  1618c272
Dec 01, 2022
- correct v3.4 names to current naming convention · 149a96db
  Workum, Dirk-Jan van authored 2 years ago
  
  149a96db
Nov 16, 2022
- fix date v3.4 release · c022c1f3
  Workum, Dirk-Jan van authored 2 years ago
  
  c022c1f3