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4aa772c405882e355eabda3d45f3c581141d57e4
obitools3/src
History
Celine Mercier 4aa772c405 ecotag: Added list of taxids for all best matches (closes #80)
2020-06-09 14:33:14 +02:00
..
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
Cleaning first stage
2019-03-29 16:40:36 +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
build_ref_db: fixed bug erasing some of the higher LCAs (i.e. lowest
2020-04-28 15:56:06 +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
C: kmer alignment: fixed a bug where scores of 0 were at
2020-06-05 16:09:33 +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
Removed an OpenMP clause that was not obligatory and triggered a known
2020-01-24 16:00:53 +01:00
obi_clean.h
obiclean parallelized
2019-06-20 19:44:04 +02:00
obi_ecopcr.c
ecopcr: fixed a bug where sequences were considered circular (generating
2020-04-27 14:44:35 +02:00
obi_ecopcr.h
ecopcr: added warnings and check of primer length (related to #75)
2020-04-05 18:40:56 +02:00
obi_ecotag.c
ecotag: Added list of taxids for all best matches (closes #80)
2020-06-09 14:33:14 +02:00
obi_ecotag.h
ecotag: Added list of taxids for all best matches (closes #80)
2020-06-09 14:33:14 +02:00
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
AVLs: Made an error message more informative
2020-04-29 10:14:04 +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
Taxonomy: fixed a critical memory bug when building the list of merged
2020-04-15 17:46:13 +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
C: Columns: optimizing column file growth
2020-04-18 13:55:47 +02:00
obidmscolumn.h
C: Columns: optimizing column file growth
2020-04-18 13:55:47 +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: no more automatic COUNT column if MERGED_sample column exists
2020-05-07 17:08:07 +02:00
obiview.h
obi import: rewriting a column now deletes the old one to save disk
2020-02-01 15:31:14 +01:00
sse_banded_LCS_alignment.c
C: SSE lcs alignment: band-aid for memory bug I don't understand
2020-04-17 15:07:52 +02:00
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