740d021276
obi import: fixed bugs when rewriting a column: a bug with new elements
...
names ignoring previous elements names found, a bug with the global
obi_errno being reset too late, and a bug with the column dictionary
used by obi import not being updated after rewriting a column
2017-07-07 15:33:43 +02:00
906343187b
Fixed bug with view option in obi less and obi check
2017-07-06 16:42:27 +02:00
c3cd57a9e3
Removed deprecated file
2017-07-06 10:57:14 +02:00
f03928c679
Committing minor comments before merging branch with master
2017-07-06 10:56:39 +02:00
717ee46f08
Commented a loose print
2017-07-05 18:02:18 +02:00
313508cc94
Better *Seq* classes but still need work
2017-07-05 17:53:46 +02:00
535fc2af83
Column rewriter and optimized View getter
2017-07-05 17:49:05 +02:00
3bbc2ae469
More optimized Column item getter
2017-07-05 17:37:19 +02:00
5ee0b3989a
Cython API: set_line of Column_multi_elts now accept as values argument
...
any class where values are referenced by keys with an iterator
2017-07-05 17:32:32 +02:00
d10192ab0e
C functions to detect IUPAC sequences
2017-07-05 17:26:03 +02:00
101f764cce
New obi import with rewriting of columns when column type or line
...
elements (keys) change
2017-07-05 17:15:23 +02:00
cb5ad2ed2d
Added functions to try to open a DMS if it exists
2017-07-05 15:38:22 +02:00
f5e992abbf
Added a check on the element when setting a value in a column
2017-07-05 14:49:20 +02:00
1d2996c6c0
Better handling and tracing of Index Errors between C and Cython
2017-07-05 14:45:43 +02:00
f6631f3857
Removed deprecated declarations
2017-07-05 14:42:21 +02:00
3f5fef10b9
obi test: minor changes
2017-07-05 14:37:27 +02:00
20c72af697
Basic obi check command to check DMS and view informations
2017-07-05 13:54:19 +02:00
d252131950
Basic obi less command
2017-07-05 13:44:12 +02:00
ca16ce0bb0
Basic obi grep with new Cython API
2017-07-05 11:58:10 +02:00
ac94b35336
Removed unused import
2017-07-05 11:52:31 +02:00
2d65db4ebc
Goes with c2af955b : forgotten files for NUC_SEQS views
2017-04-21 15:15:12 +02:00
4b037ae236
Updated obi test to test NUC_SEQS views and the taxonomy API
2017-04-21 12:09:04 +02:00
c2af955b78
Cython view API: added NUC_SEQS views and sequence classes + changed
...
cloning API
2017-04-21 12:08:14 +02:00
71b1a43df8
Added functions to clone views with a simpler API
2017-04-21 11:58:15 +02:00
1725b8b80c
Reworked taxonomy Cython API to be a subclass of OBIWrapper
2017-04-21 11:54:05 +02:00
ab0d08293e
Cython API: removed unnecessary imports
2017-04-21 11:51:05 +02:00
2f0c4b90d7
Fixed a problem where a view would have a wrong line count after adding
...
a first column to it if there was already a Line selection associated
(happening when cloning), and fixed a bad error check.
2017-04-14 16:25:55 +02:00
537b9847da
Minor C doc clarification
2017-04-14 16:23:17 +02:00
b998373be5
Cython API: updated the test command for the new API and deactivated the
...
other commands for now
2017-04-14 16:21:33 +02:00
6f780148e2
Cython API: added taxonomy API
2017-04-14 16:20:30 +02:00
0e08fc486a
Cython API: fixed bug when deleting a column from a view where the
...
Cython wrapper wasn't closed, and fixed the Line selection
materialization
2017-04-14 16:19:18 +02:00
2bbee64e57
Cython API: fixed problems with Column class
2017-04-14 16:14:41 +02:00
693859eec2
Cython API: fixed conversion bugs when setting and getting values
...
(especially NA values) in OBI_CHAR, OBI_STR and OBI_SEQ columns
2017-04-14 16:07:23 +02:00
a3fad27190
Cython API: automatic importing of column classes now works
2017-04-06 15:45:02 +02:00
f351540b0b
Merge branch 'Eric_new_Python_API' of git@git.metabarcoding.org:obitools/obitools3.git into Eric_new_Python_API
2017-04-06 15:39:52 +02:00
6dccaa0213
Patch the registering function : register_all_column_classes
2017-04-06 15:37:51 +02:00
5de9e0de51
Cython API: now using const char* instead of char* for the type of
...
values read from OBI_STR columns
2017-04-06 15:15:20 +02:00
ad8de80353
Views: better checks when adding an existing column to a view
2017-04-06 14:44:07 +02:00
8cd3e3604f
Cython Column API
2017-04-06 14:42:11 +02:00
255f3c92ae
Cython View API
2017-04-06 14:41:58 +02:00
08be4e231d
Cython Object API
2017-04-06 14:41:43 +02:00
b5b7995411
new Cython DMS API
2017-04-06 14:41:26 +02:00
0dfb1eb3e6
Cython typed columns
2017-04-06 14:40:44 +02:00
381194194c
Cython API: compiling but not working
2017-03-06 16:07:02 +01:00
778acc48cd
Added linked lists to handle lists of column pointers in views (not
...
tested)
2017-03-06 16:06:17 +01:00
3319ede837
Views: Column dictionaries now store and return pointers on column
...
pointers instead of column pointers.
2017-02-22 13:49:50 +01:00
fc20b83ad1
Merging
2017-02-20 14:56:04 +01:00
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
f23315e26f
New Cython API: compile but doesn't work
2017-02-17 15:14:06 +01:00
071a3b61ab
Merged master fixed conflict.
2017-02-14 10:58:43 +01:00
