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Code Issues Pull Requests Actions Packages Projects Releases 66 Wiki Activity
450 Commits 18 Branches 66 Tags
5156f6bb9ee0d01e12ff643793e646c6d55914cf
Commit Graph

253 Commits

Author SHA1 Message Date
Celine Mercier
c9dce03295 Fixed major bug when cloning an AVL group (last AVL of new group was not 
correctly enlarged before copying the data) + minor improvements
 2016-09-05 12:29:52 +02:00
Celine Mercier
f46ea0b988 Finished fixing issues with DMS paths 2016-08-30 11:09:45 +02:00
Celine Mercier
5b2e370ffb Fixed a bug when using an absolute path for a DMS 2016-08-29 17:30:31 +02:00
Celine Mercier
7b780ffb28 View files now have a dynamic size to allow unlimited comments size 2016-08-18 17:57:03 +02:00
Celine Mercier
e4129610cf Quality columns are now optional in NUC_SEQS views + minor fixes 2016-08-16 15:17:26 +02:00
Celine Mercier
92cad61417 Fixed bug when closing views with no associated predicate 2016-08-12 15:52:38 +02:00
Celine Mercier
2d8ac2b035 Fixed bug when creating an OBI_IDX column 2016-08-11 17:30:32 +02:00
Celine Mercier
5b7917bb5a Fixed bug when writing predicates in view file 2016-08-11 17:30:09 +02:00
Celine Mercier
2aaa87edcc 1st version of obi align command and reworked functions that handle 
column alignment
 2016-08-10 14:51:02 +02:00
Celine Mercier
26b8e1f215 Modified C API to set and get in columns: added functions to set and get 
using column names instead of pointers, and changed function names
 2016-08-02 16:33:19 +02:00
Celine Mercier
312f50ff0f Major update: Column aliases. Columns are now identified in the context 
of a view by an alias that can be modified.
 2016-08-01 18:25:30 +02:00
Celine Mercier
3843485a04 Deleted deprecated function declaration that would make compilation 
impossible and fixed error in documentation
 2016-07-22 16:21:02 +02:00
Celine Mercier
20425a5d2b Deleted deprecated structure declarations 2016-07-19 15:48:56 +02:00
Celine Mercier
56e4848ebd The predicates associated with a view are now described in its comments 
field
 2016-07-19 15:31:21 +02:00
Celine Mercier
38718320f9 First version for the association of one column to another. Closes #55 2016-07-15 15:38:49 +02:00
Celine Mercier
8ee85c3005 A first version of predicate functions that are checked when a new view 
is saved and closed
 2016-07-12 14:54:11 +02:00
Celine Mercier
0869b9ba3f Closes issue #47 by storing each view in a separate file named with the 
view's name and created upon view creation.
 2016-06-30 11:41:30 +02:00
Celine Mercier
ad2af0b512 Some comments updated 2016-06-16 11:26:54 +02:00
Celine Mercier
2a1ea3ba3f Setting NA values is now handled properly for OBI_SEQ, OBI_STR and 
OBI_QUAL columns
 2016-06-09 14:22:36 +02:00
Celine Mercier
fc3641d7ff Read-only AVLs are now hard-linked instead of copied when cloning an AVL 
group to make it writable. Also fixed several bugs when handling AVL
groups.
 2016-06-03 19:02:46 +02:00
Celine Mercier
799b942017 Deleted old debugging print 2016-06-03 18:57:32 +02:00
Celine Mercier
6e3f5b230e Fixed typo in doc 2016-06-03 18:56:45 +02:00
Celine Mercier
2f57f80c63 Fixed a bug where an unmapped variable would be read 2016-06-03 18:55:58 +02:00
Celine Mercier
2962c4d250 Goes with previous commit 2016-06-03 18:54:25 +02:00
Celine Mercier
e681ca646d Fixed a problem with some columns being shorter in views and triggering 
errors when trying to get values. Temporary fix that needs discussion
 2016-05-20 18:45:29 +02:00
Celine Mercier
3b59043ea8 Major update: New column type to store sequence qualities. Closes #41 2016-05-20 16:45:22 +02:00
Celine Mercier
ffff91e76c Fixed variable name that had been accidentally changed for better 
clarity
 2016-05-18 13:27:41 +02:00
Celine Mercier
6a8df069ad Indexers are now cloned if needed to modify them after they've been 
closed. Obligatory indexers' names now follow the same pattern as other
indexers (columnname_version). Closes #46 and #49.
 2016-05-18 13:23:48 +02:00
Celine Mercier
8ae7644945 First version of quality handling (not working yet) and now it is 
checked that a column is writable before enlarging it
 2016-05-11 16:38:14 +02:00
Celine Mercier
b3c47809da First version of alignment functions (imported from suma* programs) 2016-05-11 16:36:23 +02:00
Celine Mercier
3567681339 Now when a column is added to a view, if there is a line selection, all 
columns in the view are cloned first
 2016-05-11 16:34:20 +02:00
Celine Mercier
a32920e401 Relative paths when creating or opening a DMS now work 2016-04-29 17:46:36 +02:00
Celine Mercier
31cf27d676 Added indexer function that returns the name of the indexer 2016-04-29 16:18:56 +02:00
Celine Mercier
5bd12079ae Added comments about listing columns and indexers in obidms functions 2016-04-29 16:06:01 +02:00
Celine Mercier
b3976fa461 Merge branch 'luke_tests' 2016-04-28 11:17:24 +02:00
Celine Mercier
f3b20b809d Fixed bug with indexer names being defined and generating seg fault if 
creating a column not using indexers
 2016-04-27 14:01:36 +02:00
Celine Mercier
0c8504b6db Commented #ifdef directive for detect_bucket_size function because it 
causes errors
 2016-04-27 10:24:40 +02:00
Celine Mercier celine.mercier@ujf-grenoble.fr
654c34a1a6 changed inline functions to macros to make it work on Luke 2016-04-26 15:40:12 +02:00
Celine Mercier
2d8c06f7b7 Fixed variable initialization for error detection 2016-04-26 14:38:46 +02:00
Celine Mercier
366264828e Renamed MurmurHash2.c file to murmurhash2.c as it could be a problem 2016-04-26 14:29:17 +02:00
Celine Mercier
d3a6ff6043 Removed deprecated code 2016-04-26 14:27:16 +02:00
Celine Mercier
87935c6678 Fixed all compilation problems with new function names, locations etc 2016-04-25 18:35:02 +02:00
Celine Mercier
92980508c0 Made the function to clone a column in the context of a view private 2016-04-25 18:15:25 +02:00
Celine Mercier
65880db422 Made function to update the line count of a view private 2016-04-25 18:11:37 +02:00
Celine Mercier
767d9c7804 Reordered view functions for better coherence 2016-04-25 18:07:58 +02:00
Celine Mercier
2566377e2a Updated the documentation for utils functions 2016-04-25 18:02:58 +02:00
Celine Mercier
8cdfbb379e Documentation for views and reworked the code a little 2016-04-25 17:58:12 +02:00
Celine Mercier
0a55e26520 Reworked obiview code and added more comments 2016-04-25 11:37:53 +02:00
Celine Mercier
68a8509c12 Updated documentation in obitypes.h 2016-04-25 10:33:01 +02:00
Celine Mercier
5f98d2ed5c Fixed the calculation of the size of data for OBI_STR and OBI_SEQ 
columns
 2016-04-25 10:26:51 +02:00