millironx/nf-core_modules
1
0
Fork 0
mirror of https://github.com/MillironX/nf-core_modules.git synced 2024-11-10 20:23:10 +00:00
Code Issues Releases Packages Activity

Bump chromap index version (#1216)

Browse source 
* Bump chromap version

* Update md5 hash

* Remove md5 check, variable with conda
This commit is contained in:
Jose Espinosa-Carrasco 2022-01-18 12:24:21 +01:00 committed by GitHub
parent 1287ba48fe
commit 4e9cc84514
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23
2 changed files with 5 additions and 8 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

12
modules/chromap/index/main.nf
View file

@ -1,13 +1,12 @@
def VERSION = '0.1' // Version information not provided by tool on CLI
process CHROMAP_INDEX { process CHROMAP_INDEX {
tag '$fasta' tag '$fasta'
label 'process_medium' label 'process_medium'
conda (params.enable_conda ? "bioconda::chromap=0.1 bioconda::samtools=1.13" : null) conda (params.enable_conda ? "bioconda::chromap=0.1.5" : null)
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/mulled-v2-1f09f39f20b1c4ee36581dc81cc323c70e661633:2cad7c5aa775241887eff8714259714a39baf016-0' : 'https://depot.galaxyproject.org/singularity/chromap:0.1.5--h9a82719_0' :
'quay.io/biocontainers/mulled-v2-1f09f39f20b1c4ee36581dc81cc323c70e661633:2cad7c5aa775241887eff8714259714a39baf016-0' }" 'quay.io/biocontainers/chromap:0.1.5--h9a82719_0' }"
input: input:
path fasta path fasta
@ -29,8 +28,7 @@ process CHROMAP_INDEX {
cat <<-END_VERSIONS > versions.yml cat <<-END_VERSIONS > versions.yml
"${task.process}": "${task.process}":
chromap: $VERSION chromap: \$(echo \$(chromap --version 2>&1))
samtools: \$(echo \$(samtools --version 2>&1) | sed 's/^.*samtools //; s/Using.*\$//')
END_VERSIONS END_VERSIONS
""" """
} }

1
tests/modules/chromap/index/test.yml
View file

@ -5,4 +5,3 @@
- chromap - chromap
files: files:
- path: output/chromap/genome.index - path: output/chromap/genome.index
md5sum: f889d5f61d80823766af33277d27d386