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v3.0.0-beta6
obitools3/src
History
Celine Mercier b4b2e62195 Cleaner handling of reverse quality columns
2020-01-18 19:28:12 +01:00
..
libecoPCR
Fixed gcc warnings
2019-09-25 11:38:00 +02:00
libjson
C: Json comments: added an obi_read_comment function to read one value
2019-08-31 18:28:51 +02:00
_sse.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
.gitignore
Add some .ignore files
2019-03-29 15:52:54 +01:00
array_indexer.c
C: fixed remaining memory bug in array indexer
2019-09-01 17:24:57 +02:00
array_indexer.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
bloom.c
Commented #ifdef directive for detect_bucket_size function because it
2016-04-27 10:24:40 +02:00
bloom.h
Updated prototypes with no arguments with a void argument as suggested
2018-10-17 12:00:40 +02:00
build_reference_db.c
Added signal catching and handling in C and Cython
2019-09-21 16:47:22 +02:00
build_reference_db.h
C: build_ref_db: now adds a comment with the threshold used to build the
2019-08-31 18:29:40 +02:00
char_str_indexer.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
char_str_indexer.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
CMakeLists.txt
CMake: unset gcc for nix
2019-09-26 21:04:42 +02:00
crc64.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
crc64.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
dna_seq_indexer.c
minor fixes and comments
2018-11-19 11:23:54 +01:00
dna_seq_indexer.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
encode.c
C: Added a function to get a nucleotide at a specific index in an
2019-01-21 17:18:02 +01:00
encode.h
C: Added a function to get a nucleotide at a specific index in an
2019-01-21 17:18:02 +01:00
hashtable.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
hashtable.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
kmer_similarity.c
ngsfilter and alignpairedend: paired-end reads are now correctly
2019-07-23 18:56:51 +02:00
kmer_similarity.h
fixed a comment
2019-09-10 14:42:12 +02:00
linked_list.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
linked_list.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +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_clean.c
Added signal catching and handling in C and Cython
2019-09-21 16:47:22 +02:00
obi_clean.h
obiclean parallelized
2019-06-20 19:44:04 +02:00
obi_ecopcr.c
ecopcr: fixed and improved the options to keep nuclotides around the
2019-12-26 20:45:54 +01:00
obi_ecopcr.h
ecopcr: fixed and improved the options to keep nuclotides around the
2019-12-26 20:45:54 +01:00
obi_ecotag.c
Added signal catching and handling in C and Cython
2019-09-21 16:47:22 +02:00
obi_ecotag.h
New command and C functions: obi ecotag
2018-12-09 19:19:32 +01:00
obi_lcs.c
Fixed gcc warnings
2019-09-25 11:38:00 +02:00
obi_lcs.h
C obi_lcs: updated deprecated column names and associated comments
2018-12-09 19:17:13 +01:00
obiavl.c
C: optimized dir opening
2019-08-29 16:35:10 +02:00
obiavl.h
C: optimized dir opening
2019-08-29 16:35:10 +02:00
obiblob_indexer.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obiblob_indexer.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obiblob.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obiblob.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidebug.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidms_taxonomy.c
Fixed gcc warnings
2019-09-25 11:38:00 +02:00
obidms_taxonomy.h
C, taxonomy: new function to get the lowest common ancestor of two taxa
2018-11-27 16:00:29 +01:00
obidms.c
C: closing DMS after cleaning it instead of counting on upper layer
2020-01-18 17:27:35 +01:00
obidms.h
DMS are now locked when used by a command. Added checks and changed
2019-09-20 20:37:19 +02:00
obidmscolumn_array.c
Fixed a bug in the array indexer where the value's length was no
2018-11-27 16:18:34 +01:00
obidmscolumn_array.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_blob.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_blob.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_bool.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_bool.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_char.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_char.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_float.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_float.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_idx.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_idx.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_int.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_int.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_qual.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_qual.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_seq.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_seq.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_str.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn_str.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obidmscolumn.c
Fixed gcc warnings
2019-09-25 11:38:00 +02:00
obidmscolumn.h
DMS are now locked when used by a command. Added checks and changed
2019-09-20 20:37:19 +02:00
obidmscolumndir.c
C: fixed a bug when opening or creating a new column directory where the
2019-09-04 13:16:28 +02:00
obidmscolumndir.h
C: made it so column DIR* are not kept open to handle very large DMS
2019-09-04 12:55:21 +02:00
obierrno.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obierrno.h
Added signal catching and handling in C and Cython
2019-09-21 16:47:22 +02:00
obilittlebigman.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obilittlebigman.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obisig.c
Added signal catching and handling in C and Cython
2019-09-21 16:47:22 +02:00
obisig.h
Added signal catching and handling in C and Cython
2019-09-21 16:47:22 +02:00
obitypes.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
obitypes.h
C: Changed obibool definitions because of conflict with R
2020-01-06 15:11:31 +01:00
obiview.c
C: Views: fixed a bug when trying to add a comment after changing the
2019-09-25 11:39:32 +02:00
obiview.h
Cleaner handling of reverse quality columns
2020-01-18 19:28:12 +01:00
sse_banded_LCS_alignment.c
C: Changed obibool definitions because of conflict with R
2020-01-06 15:11:31 +01:00
sse_banded_LCS_alignment.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
uint8_indexer.c
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
uint8_indexer.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
upperband.c
updated a comment
2019-07-23 19:03:24 +02:00
upperband.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00
utils.c
C: optimized dir opening
2019-08-29 16:35:10 +02:00
utils.h
Weird buggy Eclipse commit with nothing changed
2018-10-21 17:35:18 +02:00