|
|
ea73047fc7
|
Added rewinddir before each readdir so that the directories are always
read properly
|
2017-11-24 18:04:58 +01:00 |
|
|
|
0998268955
|
Fixed two little potential bugs when cleaning unfinished columns and
deleted old trace
|
2017-11-24 18:03:59 +01:00 |
|
|
|
31726407a3
|
Taxonomy: fixed a bug where a pointer was not properly reallocated, and
a bug where the merged list of taxids was not built correctly
|
2017-11-24 18:01:30 +01:00 |
|
|
|
9e3ac477eb
|
OBIDMS: Opened DMS now have a counter associated so that DMS are not
actually opened several times by the same program, which triggers the
cleaning of unfinished views and columns (to discuss)
|
2017-11-24 17:58:47 +01:00 |
|
|
|
3ba7ce1c91
|
View rollback: version files and column directories aren't deleted
anymore to prevent indexer bug, and fixed a freeing bug
|
2017-11-15 17:27:26 +01:00 |
|
|
|
9a50803c00
|
Added tuple columns containing immutable indexed data arrays of any type
|
2017-11-15 13:48:59 +01:00 |
|
|
|
1684f96b79
|
Fixed a bug when flagging a read-only column as finished
|
2017-10-26 19:11:29 +02:00 |
|
|
|
dfd51939a0
|
Views are now rollbacked if an error occurs, and unfinished views and
columns are deleted when an OBIDMS is opened.
|
2017-10-26 18:58:48 +02:00 |
|
|
|
04e065094a
|
All DMS opened by a program are now listed and closed with atexit system
|
2017-10-16 10:35:07 +02:00 |
|
|
|
9fc6868341
|
Increased maximum length for elements names
|
2017-10-04 16:10:53 +02:00 |
|
|
|
535692b020
|
Taxonomy: new functions and improvements
|
2017-10-04 15:55:13 +02:00 |
|
|
|
5ed6835e0e
|
Fixed a bug where the new line count when truncating a column would not
be computed correctly when dealing with high numbers (bad automatic type
for intermediate result)
|
2017-09-25 10:52:19 +02:00 |
|
|
|
7c57bd33e5
|
Added check to prevent views from having the name 'taxonomy' (used for
URIs)
|
2017-09-15 14:54:55 +02:00 |
|
|
|
38029b1f77
|
Forgot a ;
|
2017-08-20 17:56:18 +02:00 |
|
|
|
c559ddf487
|
BUG FIX: creation of a new column would fail because of a case not
handled when a high number of elements per line would imply less than
one line per memory page
|
2017-08-20 17:30:23 +02:00 |
|
|
|
93cff94e7f
|
Fixed some compilation warnings
|
2017-08-20 17:25:58 +02:00 |
|
|
|
9744a48a67
|
BUG FIX: seemingly identical obiblobs would have different hash values
because of the padding added by the compiler. Fixed by using calloc
instead of malloc for obiblob memory allocation.
|
2017-08-20 17:25:15 +02:00 |
|
|
|
6afdc9fb5f
|
AVLs: Added an error check
|
2017-08-20 17:21:06 +02:00 |
|
|
|
6f202363f4
|
Fixed a typo in doc
|
2017-08-20 17:20:13 +02:00 |
|
|
|
4b86aa67a8
|
New C functions to import a column and a view from a DMS to another DMS
|
2017-08-03 16:33:12 +02:00 |
|
|
|
a3e81930c2
|
Views: finished handling and documenting the conditions for an existing
column to be added to a view
|
2017-08-03 16:32:22 +02:00 |
|
|
|
644b55b49f
|
Fixed doc typo
|
2017-08-03 16:29:25 +02:00 |
|
|
|
927c684fc2
|
Utils: new function to copy the content of a file into another file
|
2017-08-03 16:28:54 +02:00 |
|
|
|
344566d9e9
|
AVLs: made some functions public and changed some rights to be able to
import AVLs from a DMS to another
|
2017-08-03 16:27:43 +02:00 |
|
|
|
7c0d882bc9
|
Patch a bug when creating a DMS not in the current directory. Use the
basename function to locate the DMS name instead of the loop...
|
2017-07-28 15:56:21 +02:00 |
|
|
|
9482c663c0
|
minor comments and changes
|
2017-07-27 19:46:34 +02:00 |
|
|
|
c5f3fdc295
|
Increased maximum element names length in columns
|
2017-07-27 19:44:49 +02:00 |
|
|
|
15d383fa8b
|
Added possibility to specify the offset for encoding and decoding
sequence quality character strings
|
2017-07-27 19:24:41 +02:00 |
|
|
|
59dd0a8a8c
|
Standardized and improved the API to create new columns, updated the doc
|
2017-07-18 17:34:32 +02:00 |
|
|
|
c88df2e12c
|
First version of automatic ID and COUNT columns, to discuss (for now,
columns created when NUC_SEQ views are closed if the columns don't
already exist)
|
2017-07-17 17:31:09 +02:00 |
|
|
|
1e57bfacb4
|
Fixed some C documentation
|
2017-07-17 16:45:08 +02:00 |
|
|
|
3e6aecc635
|
Added a C function to add a COUNT column to a view with all lines set to
1
|
2017-07-11 16:44:23 +02:00 |
|
|
|
f03928c679
|
Committing minor comments before merging branch with master
|
2017-07-06 10:56:39 +02:00 |
|
|
|
d10192ab0e
|
C functions to detect IUPAC sequences
|
2017-07-05 17:26:03 +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 |
|
|
|
71b1a43df8
|
Added functions to clone views with a simpler API
|
2017-04-21 11:58:15 +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 |
|
|
|
ad8de80353
|
Views: better checks when adding an existing column to a view
|
2017-04-06 14:44:07 +02:00 |
|
|
|
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 |
|
|
|
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 |
|
|
|
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 |
|
|
|
a9102620f5
|
Fixed missing email address
|
2017-02-07 17:14:10 +01:00 |
|
|
|
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 |
|
|
|
651c1d7845
|
utilities: bsearch and qsort with additional user_data pointer argument
|
2017-01-31 16:45:47 +01:00 |
|
|
|
c0bcdce724
|
Taxonomy: documentation for all the functions, and fixed bugs when
closing the taxonomy (overwriting of .pdx files, missing freeing, and
re-placed a misplaced condition)
|
2017-01-18 18:22:49 +01:00 |
|
|
|
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 |
|
