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cb5ad2ed2d
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Added functions to try to open a DMS if it exists
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2017-07-05 15:38:22 +02:00 |
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1d2996c6c0
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Better handling and tracing of Index Errors between C and Cython
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2017-07-05 14:45:43 +02:00 |
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f6631f3857
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Removed deprecated declarations
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2017-07-05 14:42:21 +02:00 |
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3f5fef10b9
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obi test: minor changes
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2017-07-05 14:37:27 +02:00 |
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20c72af697
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Basic obi check command to check DMS and view informations
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2017-07-05 13:54:19 +02:00 |
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d252131950
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Basic obi less command
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2017-07-05 13:44:12 +02:00 |
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ca16ce0bb0
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Basic obi grep with new Cython API
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2017-07-05 11:58:10 +02:00 |
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ac94b35336
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Removed unused import
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2017-07-05 11:52:31 +02:00 |
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2d65db4ebc
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Goes with c2af955b : forgotten files for NUC_SEQS views
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2017-04-21 15:15:12 +02:00 |
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4b037ae236
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Updated obi test to test NUC_SEQS views and the taxonomy API
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2017-04-21 12:09:04 +02:00 |
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c2af955b78
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Cython view API: added NUC_SEQS views and sequence classes + changed
cloning API
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2017-04-21 12:08:14 +02:00 |
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1725b8b80c
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Reworked taxonomy Cython API to be a subclass of OBIWrapper
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2017-04-21 11:54:05 +02:00 |
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ab0d08293e
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Cython API: removed unnecessary imports
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2017-04-21 11:51:05 +02:00 |
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b998373be5
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Cython API: updated the test command for the new API and deactivated the
other commands for now
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2017-04-14 16:21:33 +02:00 |
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6f780148e2
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Cython API: added taxonomy API
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2017-04-14 16:20:30 +02:00 |
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0e08fc486a
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Cython API: fixed bug when deleting a column from a view where the
Cython wrapper wasn't closed, and fixed the Line selection
materialization
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2017-04-14 16:19:18 +02:00 |
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2bbee64e57
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Cython API: fixed problems with Column class
|
2017-04-14 16:14:41 +02:00 |
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693859eec2
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Cython API: fixed conversion bugs when setting and getting values
(especially NA values) in OBI_CHAR, OBI_STR and OBI_SEQ columns
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2017-04-14 16:07:23 +02:00 |
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a3fad27190
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Cython API: automatic importing of column classes now works
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2017-04-06 15:45:02 +02:00 |
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f351540b0b
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Merge branch 'Eric_new_Python_API' of git@git.metabarcoding.org:obitools/obitools3.git into Eric_new_Python_API
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2017-04-06 15:39:52 +02:00 |
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6dccaa0213
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Patch the registering function : register_all_column_classes
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2017-04-06 15:37:51 +02:00 |
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5de9e0de51
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Cython API: now using const char* instead of char* for the type of
values read from OBI_STR columns
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2017-04-06 15:15:20 +02:00 |
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8cd3e3604f
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Cython Column API
|
2017-04-06 14:42:11 +02:00 |
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255f3c92ae
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Cython View API
|
2017-04-06 14:41:58 +02:00 |
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08be4e231d
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Cython Object API
|
2017-04-06 14:41:43 +02:00 |
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b5b7995411
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new Cython DMS API
|
2017-04-06 14:41:26 +02:00 |
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0dfb1eb3e6
|
Cython typed columns
|
2017-04-06 14:40:44 +02:00 |
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381194194c
|
Cython API: compiling but not working
|
2017-03-06 16:07:02 +01:00 |
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778acc48cd
|
Added linked lists to handle lists of column pointers in views (not
tested)
|
2017-03-06 16:06:17 +01:00 |
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fc20b83ad1
|
Merging
|
2017-02-20 14:56:04 +01:00 |
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431c1c8c6a
|
Merge branch 'Eric_new_Python_API' of
git@git.metabarcoding.org:obitools/obitools3.git into
Eric_new_Python_API
Conflicts:
python/obitools3/obidms/_obidms.pxd
python/obitools3/obidms/_obidms.pyx
python/obitools3/obidms/_obidmscolumn_bool.pyx
python/obitools3/obidms/_obidmscolumn_str.pyx
python/obitools3/obidms/_obiseq.pxd
python/obitools3/obidms/_obiseq.pyx
python/obitools3/obidms/_obitaxo.pxd
python/obitools3/obidms/_obitaxo.pyx
python/obitools3/obidms/_obiview.pxd
python/obitools3/obidms/_obiview.pyx
python/obitools3/obidms/_obiview_nuc_seq.pxd
python/obitools3/obidms/_obiview_nuc_seq.pyx
python/obitools3/obidms/_obiview_nuc_seq_qual.pxd
python/obitools3/obidms/_obiview_nuc_seq_qual.pyx
python/obitools3/obidms/capi/obialign.pxd
python/obitools3/obidms/capi/obidmscolumn.pxd
python/obitools3/obidms/capi/obitaxonomy.pxd
python/obitools3/obidms/capi/obiview.pxd
|
2017-02-20 14:55:36 +01:00 |
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f23315e26f
|
New Cython API: compile but doesn't work
|
2017-02-17 15:14:06 +01:00 |
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|
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071a3b61ab
|
Merged master fixed conflict.
|
2017-02-14 10:58:43 +01:00 |
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e524041013
|
Views: Files for unfinished views now have the extension
'.obiview_unfinished', renamed to '.obiview' when the view is finished.
|
2017-02-07 17:16:09 +01:00 |
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7e9932f488
|
Fixed a C function declaration
|
2017-02-07 17:12:56 +01:00 |
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e50da64ea1
|
The elements names when a column contains several elements per line are
now formatted with '\0' as separator and handled in a more optimized way
|
2017-01-31 16:48:06 +01:00 |
|
|
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c065c1914a
|
Taxonomy: adding, writing and reading preferred names, changed some
function names, and fixed a bug with taxa indices not being properly
initialized
|
2017-01-16 17:28:20 +01:00 |
|
|
|
cf7f2de016
|
Modify __init__ and close method to deal with registration process
|
2017-01-10 14:26:16 +01:00 |
|
|
|
4b02ba73ac
|
Add the OBIObject concept
|
2017-01-10 14:07:10 +01:00 |
|
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|
4a1d3167a7
|
Last change on my branch
|
2017-01-02 16:46:52 +01:00 |
|
|
|
2139bfc748
|
refactoring...
|
2017-01-02 13:05:22 +01:00 |
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|
|
65f3b16e6d
|
Refactoring ...
|
2016-12-29 18:22:05 +01:00 |
|
|
|
0526386337
|
first working DMS class
|
2016-12-27 06:17:45 +01:00 |
|
|
|
62caf1346e
|
temporary remove some files
|
2016-12-26 15:03:24 +01:00 |
|
|
|
3ac6e85fb3
|
Big refactoring 4
|
2016-12-26 14:58:03 +01:00 |
|
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|
5156f6bb9e
|
Big refactoring 3
|
2016-12-26 14:18:01 +01:00 |
|
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|
e6db2086d5
|
Big refactoring 2
|
2016-12-26 13:56:31 +01:00 |
|
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|
daacd0df76
|
Strong refactoring 1
|
2016-12-26 13:35:31 +01:00 |
|
|
|
5c50e5b378
|
Embryo of code for openMP parallelization of LCS alignment but
deactivated for now because can't make it compile with cython/clang
|
2016-12-20 11:46:58 +01:00 |
|
|
|
3cedd00d7f
|
Add register function for column type
|
2016-12-20 11:13:57 +01:00 |
|
