Matthieu Muffato f0a86eaf5b Multithreaded samtools commands (#2080) ... * Multithreaded samtools commands * Updated the checksums since the BAM files include the actual command line Co-authored-by: Simon Pearce <24893913+SPPearce@users.noreply.github.com>		2022-09-26 17:44:36 +01:00
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ampliconclip	Multithreaded samtools commands (#2080)	2022-09-26 17:44:36 +01:00
bam2fq	Remove variable md5sum from the tests	2022-05-05 08:32:45 +02:00
collate	samtools collate module (#2078)	2022-09-21 14:12:59 +01:00
collatefastq	Add samtools/collatefastq module (#1536)	2022-04-20 10:05:17 +02:00
convert	Generalize Bam2Cram do either conversion	2022-05-09 15:22:54 +02:00
depth	Update all modules to new NF DSL2 syntax (#1099)	2021-11-26 07:58:40 +00:00
dict	Added the samtools/dict module (#1922)	2022-07-26 22:13:19 +01:00
faidx	Added the optional .gzi output of "samtools faidx" (#1935)	2022-09-08 13:35:23 +01:00
fastq	update samtools version to 1.15 (#1358)	2022-02-28 12:42:29 +01:00
fixmate	Samtools version update (#1507)	2022-04-11 14:26:28 +02:00
flagstat	Fix/samtools flagstat (#1979)	2022-08-29 13:11:58 +02:00
idxstats	samtools/*stats*: use prefix for outputs (#1788)	2022-06-16 13:42:01 +02:00
index	update samtools version to 1.15 (#1358)	2022-02-28 12:42:29 +01:00
markdup	samtools markdup module (#2087)	2022-09-21 15:39:10 +01:00
merge	small update to samtools/merge (#1896)	2022-07-18 11:37:45 +02:00
mpileup	Mpileup intervals (#1955)	2022-08-16 14:16:35 +02:00
sort	Samtools version update (#1507)	2022-04-11 14:26:28 +02:00
stats	fix samtools stats thread usage (#1975)	2022-08-29 12:05:47 +02:00
view	Update samtools view (#2098)	2022-09-23 16:52:01 +02:00