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Author SHA1 Message Date
Mahesh Binzer-Panchal
7a85760d08 remove 'auto' test 2022-05-06 13:33:27 +00:00
Lucpen
0fa36e6777 fix added correct entry workflow in test.yml 2022-05-06 15:26:34 +02:00
Nicolas Vannieuwkerke
84b354ab6a Added the rtgtools/vcfeval module 2022-05-06 14:23:40 +02:00
Matthias De Smet
26d2231e85 fix linting 2022-05-06 14:16:38 +02:00
Matthias De Smet
3930ba227b merge snapaligner modes into one 2022-05-06 14:10:44 +02:00
Mahesh Binzer-Panchal
9fa6b6c1fc Update meta.yml 2022-05-06 11:56:43 +00:00
Mahesh Binzer-Panchal
a9f23bb477
Merge branch 'master' into busco 2022-05-06 13:49:01 +02:00
Mahesh Binzer-Panchal
35c5828f43 Add --auto-lineage option and remove single_end 
Co-authored-by: Jill V. Hagey, PhD <jvhagey@gmail.com>
 2022-05-06 11:48:21 +00:00
Jose Espinosa-Carrasco
56e9e6b921
Merge pull request #1619 from matthdsm/modules/md5sum 
new modules : md5sum / sha256sum
 2022-05-06 12:37:49 +02:00
Jose Espinosa-Carrasco
035655e35d
Merge branch 'master' into modules/md5sum 2022-05-06 12:34:14 +02:00
Ramprasad Neethiraj
2ad7cb8a49
Merge pull request #1617 from ramprasadn/feat/update_cnvpytor 
Cnvpytor - merging calls from multiple samples
 2022-05-06 12:03:49 +02:00
Ramprasad Neethiraj
e639b1e455
Merge branch 'master' into feat/update_cnvpytor 2022-05-06 12:03:12 +02:00
Ramprasad Neethiraj
77209d0866
Merge pull request #1618 from ramprasadn/feat/update_svdb 
update svdb version
 2022-05-06 11:48:22 +02:00
Matthias De Smet
bd1b80f36e fix software definitions 2022-05-06 11:07:05 +02:00
Ramprasad Neethiraj
1ccea5ff4d remove prefix def in callcnvs 2022-05-06 10:56:58 +02:00
Matthias De Smet
1c7205d683 fixed container definitions 2022-05-06 10:44:51 +02:00
Matthias De Smet
77d825e043 fix copy paste errors 2022-05-06 10:39:13 +02:00
Matthias De Smet
09e729ad41 added sha256sum 2022-05-06 10:28:14 +02:00
Matthias De Smet
853b623969 new module: md5sum 2022-05-06 09:20:40 +02:00
Ramprasad Neethiraj
313d76e005 update svdb version 2022-05-06 00:18:16 +02:00
Ramprasad Neethiraj
bb5c904e59 Merge branch 'feat/update_cnvpytor' of github.com:ramprasadn/modules into feat/update_cnvpytor 2022-05-06 00:13:57 +02:00
Ramprasad Neethiraj
af73544010 update meta 2022-05-06 00:13:49 +02:00
Ramprasad Neethiraj
db56d80060 Merge branch 'master' of https://github.com/nf-core/modules into feat/update_cnvpytor 2022-05-06 00:10:28 +02:00
Ramprasad Neethiraj
1a3f18d012
Merge branch 'master' into feat/update_cnvpytor 2022-05-06 00:10:05 +02:00
Ramprasad Neethiraj
e4e4f8090c combine multiple pytor 2022-05-05 23:59:12 +02:00
Sateesh Peri
faf45edc5e
Merge branch 'master' into busco 2022-05-05 12:48:39 -04:00
Ramprasad Neethiraj
4dff258262
Merge pull request #1594 from ramprasadn/feat/update_cnvpytor 
update cnvpytor to v1.2.1
 2022-05-05 17:32:00 +02:00
Ramprasad Neethiraj
db2acba71b
Merge branch 'master' into feat/update_cnvpytor 2022-05-05 17:31:10 +02:00
Ramprasad Neethiraj
c183d7b397 Merge branch 'feat/update_cnvpytor' of github.com:ramprasadn/modules into feat/update_cnvpytor 2022-05-05 17:28:59 +02:00
Ramprasad Neethiraj
ea1f5daf44 polish python script in view 2022-05-05 17:28:49 +02:00
Harshil Patel
1289626cc9
Update modules/busco/main.nf 2022-05-05 16:09:45 +01:00
Mahesh Binzer-Panchal
2542ae1823
Update modules/busco/main.nf 
Co-authored-by: Sateesh Peri <33637490+sateeshperi@users.noreply.github.com>
 2022-05-05 16:33:32 +02:00
Sateesh Peri
3414d3aba3
Merge branch 'master' into busco 2022-05-05 10:08:55 -04:00
JIANHONG OU
1be14375ce
Merge pull request #1528 from jianhong/motus_downloaddb 
add module motus_downloaddb
 2022-05-05 09:37:02 -04:00
JIANHONG OU
a8bc386ea3
Merge branch 'master' into motus_downloaddb 2022-05-05 09:36:25 -04:00
Simone Carpanzano
e4a31e4e0e
Merge pull request #1601 from carpanz/firstbranch 
Non-breaking changes to krona modules: update kronadb module name, inclusion of ext.args, legacy module maintained
 2022-05-05 14:32:54 +02:00
JIANHONG OU
566c11dacc
Merge branch 'master' into motus_downloaddb 2022-05-05 08:28:10 -04:00
Francesco L
97f318eea6
Merge branch 'master' into firstbranch 2022-05-05 14:25:00 +02:00
Maxime U. Garcia
448934b749
Merge pull request #1613 from maxulysse/master_snpeff_vep_improved 
update ensemblvep and snpeff modules
 2022-05-05 14:24:47 +02:00
Carpanzano
a700a9c15e Merge branch 'firstbranch' of github.com:carpanz/modules into firstbranch 2022-05-05 13:52:45 +02:00
Carpanzano
9083d3bb3d integrating suggestions from PR comments, including recovery of tests for kronadb and more detailed explanation of input database in yml file 2022-05-05 13:51:41 +02:00
jasmezz
47a95388c2 Remove trailing whitespaces (ECLint check) 2022-05-05 13:17:36 +02:00
jasmezz
24b9c397dd Apply suggestions from code review + add support for GFF annotations 2022-05-05 13:14:39 +02:00
MaxUlysse
40dd662fd2 update ensemblvep and snpeff modules 2022-05-05 12:57:14 +02:00
James A. Fellows Yates
e60c6f9bfd
Merge branch 'master' into firstbranch 2022-05-05 10:57:27 +02:00
Carpanzano
204dfba2d8 fixing ktupdatetaxonomy/meta.yml as suggested in PR 2022-05-05 10:51:22 +02:00
Mahesh Binzer-Panchal
865ad3447a Update meta.yml output files 2022-05-05 08:23:54 +00:00
jasmezz
6a7aec8b41 Remove prokka test workflow 2022-05-05 10:22:02 +02:00
Mahesh Binzer-Panchal
58ea709f7f
Merge branch 'master' into busco 2022-05-05 09:34:14 +02:00
Lauri Mesilaakso
6bb9be38c5
Merge pull request #1606 from Genomic-Medicine-Linkoping/add_compression_to_bam2fq 
update samtools/bam2fq: add compression for output fastq file
 2022-05-05 09:37:36 +03:00