Commits · master · OBITools / OBITools3 · GitLab

22 Sep, 2019 5 commits
- Cython API: simpler column repr display · 28b7fce5
  Celine Mercier committed Sep 22, 2019
  
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- obi stats: fixed bug with None values · fa9555de
  Celine Mercier committed Sep 22, 2019
  
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- more cleaning · d30f7e73
  Celine Mercier committed Sep 22, 2019
  
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- obi import: fixed bug when importing a taxdump · 71276537
  Celine Mercier committed Sep 22, 2019
  
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- obi grep: now able to convert str to bytes in predicate expressions · ba9ba7aa
  Celine Mercier committed Sep 22, 2019
  
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21 Sep, 2019 6 commits
- obi less: now actually behaves like less · 336100f7
  Celine Mercier committed Sep 21, 2019
  
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- Cython: View: lines from simple View instances are now displayed in tab · d83398c0
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instead of dict format
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  Celine Mercier committed Sep 21, 2019
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- Cython: Fixed bug in tab formatter with header option always being set · 974d25b8
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to true
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  Celine Mercier committed Sep 21, 2019
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- Added signal catching and handling in C and Cython · ec0737a6
  Celine Mercier committed Sep 21, 2019
  
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- obi import: importing a view to a DMS now uses the C API (more efficient · 06f9d6da
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and imports all metadata)
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  Celine Mercier committed Sep 21, 2019
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- Python API: small option improvements · f0f7edf1
  Celine Mercier committed Sep 21, 2019
  
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20 Sep, 2019 4 commits
- obi ls: improved taxonomy list · 9e72c8d1
  Celine Mercier committed Sep 20, 2019
  
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- obi import: fixed bug when reading output URI · 7c3fa147
  Celine Mercier committed Sep 20, 2019
  
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- new command: clean_dms to clean and unlock a DMS after a bad exit. · ec874c09
  Celine Mercier committed Sep 20, 2019
  
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- DMS are now locked when used by a command. Added checks and changed · 783a1343
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cleaning mechanisms.
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  Celine Mercier committed Sep 20, 2019
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17 Sep, 2019 7 commits
- obi import: proper check for taxonomy name already existing in DMS when · eb6c59dc
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importing a taxdump
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  Celine Mercier committed Sep 17, 2019
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- obi export: if export format is not specified, it is guessed from the · ad460561
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view type
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  Celine Mercier committed Sep 17, 2019
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- Export options: output option is now only non-positional for obi export · 9063e915
  Celine Mercier committed Sep 17, 2019
  
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- URI decoding: fixed bug with dms-only URI · 01593859
  Celine Mercier committed Sep 17, 2019
  
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- obi export: made output to stdout and pipe in less possible · a0c8deb8
  Celine Mercier committed Sep 17, 2019
  
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- Added option for no progress bar and made output URI option non · f566618b
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positional (for stdout output)
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  Celine Mercier committed Sep 17, 2019
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- URIs: added stdout output (empty URI) · 88451116
  Celine Mercier committed Sep 17, 2019
  
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15 Sep, 2019 1 commit
- ecotag: trying to use a threshold lower than the ref db threshold now · eb913b27
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returns an error instead of a warning
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  Celine Mercier committed Sep 15, 2019
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10 Sep, 2019 2 commits
- obi stats: improved display with str instead of bytes · f8d1fa67
  Celine Mercier committed Sep 10, 2019
  
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- obi ls: various improvements · 8f9f2a2d
  Celine Mercier committed Sep 10, 2019
  
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04 Sep, 2019 1 commit
- C: Fixed opened DIR leak · 5e3c41b0
  Celine Mercier committed Sep 04, 2019
  
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03 Sep, 2019 1 commit
- Various display improvements · f2965177
  Celine Mercier committed Sep 03, 2019
  
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29 Aug, 2019 6 commits
- Fixed log to be in str instead of bytes · 53dcbc8e
  Celine Mercier committed Aug 29, 2019
  
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- obi import: fixed entry count · 4e75514b
  Celine Mercier committed Aug 29, 2019
  
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- obi grep: made an error message clearer (error could be eventually be · 1ed2d45a
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handled by program, looking for str in bytes returned by a column)
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  Celine Mercier committed Aug 29, 2019
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- Better detection of missing taxonomy · 18705302
  Celine Mercier committed Aug 29, 2019
  
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- Improved obi stats · dcf8cf1d
  Celine Mercier committed Aug 29, 2019
  
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- Improved progress display when importing files in a DMS · 3cfe3a9b
  Celine Mercier committed Aug 29, 2019
  
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28 Aug, 2019 1 commit
- Python: better display of tuple values in fasta format · 728af51c
  Celine Mercier committed Aug 28, 2019
  
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27 Aug, 2019 4 commits
- obi uniq: various improvements and fixes #66 · 99a397b8
  Celine Mercier committed Aug 27, 2019
  
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- minor comment · 580db2f7
  Celine Mercier committed Aug 27, 2019
  
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- Increased the threshold of elements per line in a column before they are · dbe09f83
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stored as a character string
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  Celine Mercier committed Aug 27, 2019
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- Better handling of column lines with all values at NA · 3d1b2e8e
  Celine Mercier committed Aug 27, 2019
  
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18 Aug, 2019 1 commit
- Fixed a bug when sending a DMS path to a C function from Cython · 66441e0a
  Celine Mercier committed Aug 18, 2019
  
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25 Jul, 2019 1 commit
- Fixed a bug where some commands wouldn't work if the input DMS was not · 13952358
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in the current directory
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  Celine Mercier committed Jul 25, 2019
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