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Celine Mercier 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
..
_sse.h
First version of alignment functions (imported from suma* programs)
2016-05-11 16:36:23 +02:00
bloom.c
Commented #ifdef directive for detect_bucket_size function because it
2016-04-27 10:24:40 +02:00
bloom.h
Documented changes made in bloom functions
2016-04-21 11:22:31 +02:00
char_str_indexer.c
Major update: New column type to store sequence qualities. Closes #41
2016-05-20 16:45:22 +02:00
char_str_indexer.h
Major update: New column type to store sequence qualities. Closes #41
2016-05-20 16:45:22 +02:00
crc64.c
Fixed minor warning
2016-03-25 16:11:52 +01:00
crc64.h
Short doc for crc function
2016-04-21 13:23:52 +02:00
dna_seq_indexer.c
Major update: New column type to store sequence qualities. Closes #41
2016-05-20 16:45:22 +02:00
dna_seq_indexer.h
Documentation for DNA sequence indexing functions
2016-04-21 13:36:51 +02:00
encode.c
Replaced malloc+memset with calloc
2016-04-21 13:45:39 +02:00
encode.h
Updated encode functions documentation
2016-04-21 13:46:02 +02:00
hashtable.c
Major update: Column aliases. Columns are now identified in the context
2016-08-01 18:25:30 +02:00
hashtable.h
Major update: Column aliases. Columns are now identified in the context
2016-08-01 18:25:30 +02:00
murmurhash2.c
Renamed MurmurHash2.c file to murmurhash2.c as it could be a problem
2016-04-26 14:29:17 +02:00
murmurhash2.h
Little annotations for the murmur hash function.
2016-04-21 13:53:29 +02:00
obi_align.c
Views: Files for unfinished views now have the extension
2017-02-07 17:16:09 +01:00
obi_align.h
Fixed missing email address
2017-02-07 17:14:10 +01:00
obiavl.c
Fixed major bug when cloning an AVL where the bloom filter was not
2016-09-15 11:47:02 +02:00
obiavl.h
Changed file name limits to adapt to system limits + minor changes
2016-09-22 18:05:07 +02:00
obiblob_indexer.c
Changed the inline functions syntax, which should make it compatible
2016-11-18 16:21:26 +01:00
obiblob_indexer.h
Changed the inline functions syntax, which should make it compatible
2016-11-18 16:21:26 +01:00
obiblob.c
Finished moving obiblob functions to obiblob files and documentation for
2016-04-21 15:18:14 +02:00
obiblob.h
Major update: New column type to store sequence qualities. Closes #41
2016-05-20 16:45:22 +02:00
obidebug.h
Doxygen documentation corrected and completed.
2015-09-30 12:03:46 +02:00
obidms_taxonomy.c
Taxonomy: documentation for all the functions, and fixed bugs when
2017-01-18 18:22:49 +01:00
obidms_taxonomy.h
Taxonomy: documentation for all the functions, and fixed bugs when
2017-01-18 18:22:49 +01:00
obidms.c
Added C functions to write .rdx, .tdx, .ndx binary taxonomy files from a
2016-10-14 17:03:10 +02:00
obidms.h
Added C functions to write .rdx, .tdx, .ndx binary taxonomy files from a
2016-10-14 17:03:10 +02:00
obidmscolumn_blob.c
Functions to get obiblobs through views
2016-11-18 15:59:50 +01:00
obidmscolumn_blob.h
Functions to get obiblobs through views
2016-11-18 15:59:50 +01:00
obidmscolumn_bool.c
Removed unused inclusions and definitions in all column types code
2016-04-22 15:50:19 +02:00
obidmscolumn_bool.h
Refactored and relocated the set and get functions of all column types,
2016-04-13 15:10:24 +02:00
obidmscolumn_char.c
Removed unused inclusions and definitions in all column types code
2016-04-22 15:50:19 +02:00
obidmscolumn_char.h
Refactored and relocated the set and get functions of all column types,
2016-04-13 15:10:24 +02:00
obidmscolumn_float.c
Removed unused inclusions and definitions in all column types code
2016-04-22 15:50:19 +02:00
obidmscolumn_float.h
Refactored and relocated the set and get functions of all column types,
2016-04-13 15:10:24 +02:00
obidmscolumn_idx.c
Finished adding all the functions to directly set and get indices in
2016-11-30 11:08:11 +01:00
obidmscolumn_idx.h
Finished adding all the functions to directly set and get indices in
2016-11-30 11:08:11 +01:00
obidmscolumn_int.c
Removed unused inclusions and definitions in all column types code
2016-04-22 15:50:19 +02:00
obidmscolumn_int.h
Fixed error in documentation
2016-11-28 10:55:23 +01:00
obidmscolumn_qual.c
Some comments updated
2016-06-16 11:26:54 +02:00
obidmscolumn_qual.h
Read-only AVLs are now hard-linked instead of copied when cloning an AVL
2016-06-03 19:02:46 +02:00
obidmscolumn_seq.c
Goes with 8f724f4f, forgotten file
2016-11-10 14:48:31 +01:00
obidmscolumn_seq.h
Updated the documentation for OBI_SEQ columns
2016-04-22 15:58:20 +02:00
obidmscolumn_str.c
Some code refactoring
2016-11-09 16:48:00 +01:00
obidmscolumn_str.h
Updated the documentation for OBI_STR columns
2016-04-22 15:59:32 +02:00
obidmscolumn.c
Merge branch 'Eric_new_Python_API' of
2017-02-20 14:55:36 +01:00
obidmscolumn.h
Merge branch 'Eric_new_Python_API' of
2017-02-20 14:55:36 +01:00
obidmscolumndir.c
Moved the functions getting full paths for files and directories to
2016-04-15 11:11:13 +02:00
obidmscolumndir.h
Comments in column headers are now working.
2015-11-10 10:56:45 +01:00
obierrno.c
closes #13, obi_errno is initialized to 0
2015-10-02 13:46:34 +02:00
obierrno.h
Fixed typo
2016-09-05 12:31:06 +02:00
obilittlebigman.c
Merge branch 'Eric_new_Python_API' of
2017-02-20 14:55:36 +01:00
obilittlebigman.h
Doxygen documentation corrected and completed.
2015-09-30 12:03:46 +02:00
obitypes.c
First version of quality handling (not working yet) and now it is
2016-05-11 16:38:14 +02:00
obitypes.h
Goes with a0ebc2d8
2016-11-10 15:01:29 +01:00
obiview.c
Views: Files for unfinished views now have the extension
2017-02-07 17:16:09 +01:00
obiview.h
Views: Files for unfinished views now have the extension
2017-02-07 17:16:09 +01:00
sse_banded_LCS_alignment.c
LCS alignment: it is now checked that sequences are not longer than what
2016-12-22 17:06:23 +01:00
sse_banded_LCS_alignment.h
LCS alignment: documentation for all the lowest level functions
2016-12-22 17:03:51 +01:00
uint8_indexer.c
Major update: New column type to store sequence qualities. Closes #41
2016-05-20 16:45:22 +02:00
uint8_indexer.h
Major update: New column type to store sequence qualities. Closes #41
2016-05-20 16:45:22 +02:00
upperband.c
Added function to build kmer table for 2 columns, and fixed bug (with
2016-12-16 19:10:18 +01:00
upperband.h
Added function to build kmer table for 2 columns, and fixed bug (with
2016-12-16 19:10:18 +01:00
utils.c
utilities: bsearch and qsort with additional user_data pointer argument
2017-01-31 16:45:47 +01:00
utils.h
utilities: bsearch and qsort with additional user_data pointer argument
2017-01-31 16:45:47 +01:00