Commits · 27744222246fc9bc33e1091f6106386ac12ea011 · OBITools / OBITools3 · GitLab

29 Mar, 2019 8 commits
- Patch the way of installing the obi main command · 27744222
  Eric Coissac committed Mar 29, 2019
  
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- Add some .ignore files · bf62960e
  Eric Coissac committed Mar 29, 2019
  
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- Move and rename the obi.py script · 9c41b1e9
  Eric Coissac committed Mar 29, 2019
  
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- remove the old distutils · 3a6d1be7
  Eric Coissac committed Mar 29, 2019
  
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- Switch back to the original python source from the paster branch · 6c529660
  Eric Coissac committed Mar 29, 2019
  
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- First version compiling the code correctly · 46018797
  Eric Coissac committed Mar 29, 2019
  
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- Add the location of install · 52b8008b
  Eric Coissac committed Mar 29, 2019
  
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- patch some relative imports · 6b9da380
  Eric Coissac committed Mar 29, 2019
  
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26 Mar, 2019 7 commits
- trying to fix cython difficulties · 7c2787b6
  Celine Mercier committed Mar 26, 2019
  
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- Import taxo · 14eca43e
  Eric Coissac committed Mar 26, 2019
  
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- Convert relative import an delete cfiles · 0b4ea495
  Eric Coissac committed Mar 26, 2019
  
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- Merge branch 'pip-standard' of git@git.metabarcoding.org:obitools/obitools3.git into pip-standard · cd88c37a
  Eric Coissac committed Mar 26, 2019
  
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- Patch relative import to absolute · 1095a617
  Eric Coissac committed Mar 26, 2019
  
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- fixed relative cython imports to be absolute · 5a05258f
  Celine Mercier committed Mar 26, 2019
  
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- First version of the simplified setup.py script · 10ab5572
  Eric Coissac committed Mar 26, 2019
  
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20 Mar, 2019 2 commits
- Genbank file parser functions that should have been included in a · 06178d9d
```
previous commit
```
  Celine Mercier committed Mar 20, 2019
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- obi_errno_to_exception function now properly reads obi_errno global · 3abe1b7a
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variable directly
```
  Celine Mercier committed Mar 20, 2019
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18 Mar, 2019 1 commit
- data import: entries now counted if there are multiple files · 802a3f59
  Celine Mercier committed Mar 18, 2019
  
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15 Mar, 2019 9 commits
- Added genbank parser · 7e208707
  Celine Mercier committed Mar 15, 2019
  
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- Fixed the ultimate bug with embl (and genbank) parsers: raising any · e8090a44
```
exception in a python generator makes it unable to resume. So now,
exceptions are not raised but printed, then functions return None and
that's handled at higher level.
```
  Celine Mercier committed Mar 15, 2019
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- Fixed no-skip-on-error option :p · 832f5828
  Celine Mercier committed Mar 15, 2019
  
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- Made skip on error option True by default...... · 58d0c850
  Celine Mercier committed Mar 15, 2019
  
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- Small fix in embl and genbank features parser · 7737211a
  Celine Mercier committed Mar 15, 2019
  
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- Fixed embl import where sequences were not imported as Nuc_Seq objects · c953f0cb
  Celine Mercier committed Mar 15, 2019
  
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- added TAXID_COLUMN to C API declarations for Cython · bb045c3a
  Celine Mercier committed Mar 15, 2019
  
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- obi import: now properly uses macros for column names · 2a4f1b8f
  Celine Mercier committed Mar 15, 2019
  
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- URIs: URIs built with autocomplete now work too · 24a63f87
  Celine Mercier committed Mar 15, 2019
  
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13 Mar, 2019 6 commits
- Cleaner stderr prints · 478d19ab
  Celine Mercier committed Mar 13, 2019
  
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- Cleaner progress bar · e3c565d6
  Celine Mercier committed Mar 13, 2019
  
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- Cython API: when importing a file in a DMS, its length is computed · d88390c6
```
beforehand for the progress bar
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  Celine Mercier committed Mar 13, 2019
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- added math.h import where needed · 50e7cd61
  Celine Mercier committed Mar 13, 2019
  
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- removed deprecated comment · 49d5f6fb
  Celine Mercier committed Mar 13, 2019
  
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- Cython API: cleaner column rewriting API · b45c2ee6
  Celine Mercier committed Mar 13, 2019
  
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12 Mar, 2019 2 commits
- Cython API: Views: fixed a bug when rewriting a column with different · 6afd1294
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attributes (last line is not written anymore)
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  Celine Mercier committed Mar 12, 2019
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- obidistutils: added fPIC flag needed for linux compilation and set · a9ba7744
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minimum python version to 3.7
```
  cmercier committed Mar 12, 2019
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11 Mar, 2019 1 commit
- cleaner Makefile · 185a95e6
  Celine Mercier committed Mar 11, 2019
  
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07 Mar, 2019 4 commits
- removed -R compilaiton flag that gcc doesn't like · 8835a1a9
  Celine Mercier committed Mar 07, 2019
  
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- Fixed a bug when creating a column and checking the comments string if · 1ee50b72
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it was NULL
```
  Celine Mercier committed Mar 07, 2019
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- Installation: basic Makefile that creates the shared obi3 library used · 720bb65b
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by Cython
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  Celine Mercier committed Mar 07, 2019
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- Cython API, Views: guessing an obitype from a python value is now done · 2a1ab9db
```
through the corresponding functions in utils
```
  Celine Mercier committed Mar 07, 2019
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