Commits · efd2b9d338b907c4d9396394438eea2333cd3e2c · OBITools / OBITools3 · GitLab

20 May, 2020 2 commits
- Cleaner installation · efd2b9d3
  Celine Mercier committed May 20, 2020
  
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- obi import: fixed to work with `seq` genbank extension · ca6e3e7a
  Celine Mercier committed May 20, 2020
  
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18 May, 2020 3 commits
- Switch to version 3.0.0b18 with version formatting that fits setuptools · 76ed8e18
  Celine Mercier committed May 18, 2020
  
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- setup: now using setuptools instead of distutils to work with pip · 1d17f28a
  Celine Mercier committed May 18, 2020
  
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- obi import: small bug fix · fa834e4b
  Celine Mercier committed May 18, 2020
  
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12 May, 2020 1 commit
- Python: fasta parser: fixed a bug stopping the program when the last · a72fea3c
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line contained a single nucleotide
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  Celine Mercier committed May 12, 2020
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07 May, 2020 6 commits
- Switch to version 3.0.0-beta16 · e9a37d8a
  Celine Mercier committed May 07, 2020
  
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- typo · ef074f84
  Celine Mercier committed May 07, 2020
  
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- C, views: no more automatic COUNT column if MERGED_sample column exists · aec5e69f
  Celine Mercier committed May 07, 2020
  
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- Views: added obi prefix to commands in bash history · 170ef3f1
  Celine Mercier committed May 07, 2020
  
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- obi uniq: fixed the remerging of already merged informations, and · f9999465
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efficiency improvements
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  Celine Mercier committed May 07, 2020
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- obi import: fixed the import of old obitools files with premerged · 773b36ec
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informations, and other minor improvements
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  Celine Mercier committed May 07, 2020
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29 Apr, 2020 4 commits
- version 3.0.0-beta15c · 69cb434a
  Celine Mercier committed Apr 29, 2020
  
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- obi annotate: fixed annotation at ranks · 55d4f98d
  Celine Mercier committed Apr 29, 2020
  
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- ecotag: fixed a bug where all the full DMS path weren't properly sent to · 0bec2631
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the C layer
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  Celine Mercier committed Apr 29, 2020
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- AVLs: Made an error message more informative · e6b6c6fa
  Celine Mercier committed Apr 29, 2020
  
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28 Apr, 2020 2 commits
- build_ref_db: fixed bug erasing some of the higher LCAs (i.e. lowest · 974528b2
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similarities)
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  Celine Mercier committed Apr 28, 2020
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- ecotag: better specificity by now correctly looking for similarities · 1b346b54
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within refs above best score instead of ecotag threshold
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  Celine Mercier committed Apr 28, 2020
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27 Apr, 2020 1 commit
- ecopcr: fixed a bug where sequences were considered circular (generating · 058f2ad8
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false positives)
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  Celine Mercier committed Apr 27, 2020
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24 Apr, 2020 1 commit
- obi annotate: now defaults to setting str if expression is not valid · 60bfd3ae
  Celine Mercier committed Apr 24, 2020
  
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18 Apr, 2020 2 commits
- C: build_ref_db: added progress display for each step · 67bdee10
  Celine Mercier committed Apr 18, 2020
  
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- C: Columns: optimizing column file growth · 0f745e01
  Celine Mercier committed Apr 18, 2020
  
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17 Apr, 2020 2 commits
- export: fixed progress bar bug · da8de52b
  cmercier committed Apr 17, 2020
  
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- C: SSE lcs alignment: band-aid for memory bug I don't understand · 4d36538c
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(triggered on specific db on ubuntu)
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  cmercier committed Apr 17, 2020
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15 Apr, 2020 2 commits
- Switch to version 3.0.0-beta14 · 8d0b17d8
  Celine Mercier committed Apr 15, 2020
  
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- Taxonomy: fixed a critical memory bug when building the list of merged · 343999a6
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taxids
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  Celine Mercier committed Apr 15, 2020
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13 Apr, 2020 2 commits
- C: Columns: rounding column growth to ceil to avoid looping on small · e9a40630
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values
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  Celine Mercier committed Apr 13, 2020
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- C: Columns: reduced column growth factor from 2 to 1.3 to avoid errno28 · 8dbcd302
  Celine Mercier committed Apr 13, 2020
  
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12 Apr, 2020 7 commits
- Switch to version 3.0.0-beta13 · 4cf635d0
  Celine Mercier committed Apr 12, 2020
  
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- Made completion script cleaner · b7e7cc23
  Celine Mercier committed Apr 12, 2020
  
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- C: made error message more detailed when checking that sequences and · b6ab792c
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qualities match
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  Celine Mercier committed Apr 12, 2020
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- obi import: fixed inconsequential error when precomputing number of · ddea5a29
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entries in some formats
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  Celine Mercier committed Apr 12, 2020
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- View bash history: removed useless shebang · 30852ab7
  Celine Mercier committed Apr 12, 2020
  
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- all commands (almost): cleaner DMS closing at the end · 4d029990
  Celine Mercier committed Apr 12, 2020
  
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- obi stats: fixed error when printing bool keys · eef5156d
  Celine Mercier committed Apr 12, 2020
  
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10 Apr, 2020 2 commits
- goes with previous commit · e62c991b
  Celine Mercier committed Apr 10, 2020
  
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- ecopcr: now printing a warning instead of interrupting with an error · 1218eed7
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when a taxid is not found
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  Celine Mercier committed Apr 10, 2020
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09 Apr, 2020 2 commits
- obi import: fixed critical bug where the last entry of embl and genbank · cd9cea8c
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files was not imported
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  Celine Mercier committed Apr 09, 2020
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- ecopcr: made some errors more informative · 98cfb70d
  Celine Mercier committed Apr 09, 2020
  
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05 Apr, 2020 1 commit
- ecopcr: added warnings and check of primer length (related to #75 ) · b9f68c76
  Celine Mercier committed Apr 05, 2020
  
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