 Eric Coissac
|
65f5109957
|
Plenty of small bugs
Former-commit-id: 42c7fab7d65906c80ab4cd32da6867ff21842ea8
|
2024-06-04 16:49:12 +02:00 |
|
|
Eric Coissac
|
e843d2aa5c
|
Patch a tricky bug in parsing of json header and save the last sequence from files
Former-commit-id: bfe3d0e9eb8e65113699d535bd1d9a5fe0d3ce1d
|
2024-06-04 13:46:23 +02:00 |
|
|
Eric Coissac
|
aa42df326a
|
Correct a bug in the fastq reader affecting the quality of the last record of each chunk
Former-commit-id: b842d60af9c2f1f971946d99999d13cfc15793b3
|
2024-06-04 11:57:16 +02:00 |
|
|
Eric Coissac
|
411124d1b3
|
Add automatic rules to manage version number
Former-commit-id: f4fcc1927f4169025c1d8cc88c5f3abcdc76037c
|
2024-06-01 17:26:16 +02:00 |
|
|
Eric Coissac
|
38945d0a41
|
Adds the --template option to obimultiplex
Former-commit-id: 349e9f278abd6a6c258f31d99ea04853a79c62de
|
2024-05-31 11:34:06 +02:00 |
|
|
Eric Coissac
|
4487723d14
|
Adds possibility to provide the ngsfilter configuration as a CSV file
Former-commit-id: f0fd2cb1a7b149ae2a330edc5087b21be2c4585b
|
2024-05-31 11:08:20 +02:00 |
|
|
Eric Coissac
|
dbeb44bc79
|
Patch a bug in the quality string writing
Former-commit-id: 1a76d58b8648378d10e8b59d05208263e96238c9
|
2024-05-31 11:07:25 +02:00 |
|
|
Eric Coissac
|
3e1d9a41ec
|
Adds more format checking during fasta parsing
Former-commit-id: fbc3d9c923936287a591f01f9401b710b584aa14
|
2024-05-30 18:12:06 +02:00 |
|
|
Eric Coissac
|
dd9307a4cd
|
Swich to the system min and max functions and remove the version from obiutils
Former-commit-id: 8c4558921b0d0c266b070f16e83813de6e6d4a0f
|
2024-05-30 08:27:24 +02:00 |
|
|
Eric Coissac
|
98b3bc2a8c
|
Patch a bug on the reading of each last sequence of a chunck in the fasta reader
Former-commit-id: eacf64112582befa4751f66352999a28abf349f7
|
2024-05-27 10:17:17 +02:00 |
|
|
Eric Coissac
|
d249902073
|
A lot of changes and debug... A complete first
version of the recipy in the Cookbook about
avaluating primers
Former-commit-id: 6c816f5546b3f472f6930d112abe3da04d2d5a55
|
2024-05-26 12:56:29 +02:00 |
|
|
Eric Coissac
|
55ce36f329
|
Update of obipcr and homogenization of logging
Former-commit-id: 46abf47c19ace5248042c02cf1f81d9f6c12eb10
|
2024-05-16 15:18:30 +02:00 |
|
|
Eric Coissac
|
61be8a55b1
|
Merge obiminion and obiconsensus
Former-commit-id: 49d65d671e9fe4454de60c20507c3d8df6e9c51c
|
2024-05-14 17:53:32 +02:00 |
|
|
Eric Coissac
|
7fcb0538a3
|
Cleaning of obiminion
Former-commit-id: 75148afd70e5006cc6855bcddc86506b099761a1
|
2024-05-14 11:45:46 +02:00 |
|
|
Eric Coissac
|
017030bcce
|
Add obiminion first version
Former-commit-id: aa5ace7bd4d2266333715fca7094d1c3cbbb5e6d
|
2024-05-14 08:16:12 +02:00 |
|
|
Eric Coissac
|
9e63013bc2
|
Correction on obiformat of bug leading to partial parsing and add godocs
Former-commit-id: b27105355f1a330eedf6eaa72c8ac94f06806c28
|
2024-05-07 10:54:12 +02:00 |
|
|
Eric Coissac
|
5b98393a68
|
Refactor sequence file reading
Former-commit-id: 3dcb96e68da648d72bb585da047e3496427d7851
|
2024-05-01 00:50:23 +02:00 |
|
|
Eric Coissac
|
33d4d63acd
|
Adds a warning on max-cpu = 1
Former-commit-id: ed02328d7d0e36b7c6b77ea776c0bde7c0eb64f3
|
2024-04-30 13:27:19 +02:00 |
|
|
Eric Coissac
|
d30d736e48
|
Simplify the workers code by removing dupplicates
Former-commit-id: 638fcf8d88dd93755d1ec89c8fe92f6ed3f733df
|
2024-04-30 12:22:22 +02:00 |
|
|
Eric Coissac
|
f37477b26c
|
Progress bar are automagically disabled if stderr is redirected
Former-commit-id: 20a3a22db7dcf530b9e9cad9090b46f22db0d078
|
2024-04-22 12:23:59 +02:00 |
|
|
Eric Coissac
|
8f08959ebb
|
Make the --no-progressbar option effective on graph building progress too.
Former-commit-id: 3fabecfc9de69ad406d6840c8f821c16eebaef46
|
2024-04-22 12:01:43 +02:00 |
|
|
Eric Coissac
|
df74b2b2bd
|
Add a basic managment of obisequenceslice to obiscript
Former-commit-id: c3d2888ebbfb237826630548b839ce93cdbf86eb
|
2024-04-16 12:58:25 +02:00 |
|
|
Eric Coissac
|
cb35612a6c
|
new --version option and qualities method in obiscript
Former-commit-id: 7b0ce2901785d5c7494dec3a7a95d1fc5dc4a52b
|
2024-04-13 12:40:43 +02:00 |
|
|
Eric Coissac
|
0a2ea962db
|
obitag bug
Former-commit-id: e6f8750d8db74c0b175c4a93d5b58bd84f293d52
|
2024-04-03 16:28:06 +02:00 |
|
|
Eric Coissac
|
3d1d9f32df
|
Make obiconsensus using the count of the sequences
Former-commit-id: 7fc5292aeb225843a86cd85591a5405e35125e3d
|
2024-04-03 12:58:32 +02:00 |
|
|
Eric Coissac
|
d68210ef94
|
Tag version 4.2.0
Former-commit-id: 9315e463fcf9c654ff34738d0fb93c94538600a1
|
2024-04-03 12:57:00 +02:00 |
|
|
Eric Coissac
|
bf41d16e67
|
Patch a bug in obitag on the identification of the best match
Former-commit-id: e551b3b83e79a517dd5409ea8112fb005c39c2ee
|
2024-04-03 12:30:40 +02:00 |
|
|
Eric Coissac
|
e25c3b7365
|
Bug in the json parsing
Former-commit-id: e652b04b9fa7e11124eb5930c7bec4613c808758
|
2024-03-19 13:50:13 +01:00 |
|
|
Eric Coissac
|
11a14b6dc8
|
Parse correctly json header when a curly brace is included in a string.
Former-commit-id: 35225bc7db165825d4e5ef583324e54829695503
|
2024-03-19 13:47:03 +01:00 |
|
|
Eric Coissac
|
b428c48353
|
Obitag, allow for reference sequences with bad taxid, which are discarded with the emission of a warning
Former-commit-id: a8781da1afa86de9c34b008959f0705ae69fc64f
|
2024-03-18 19:11:41 +01:00 |
|