millironx/nf-core_modules
1
0
Fork 0
mirror of https://github.com/MillironX/nf-core_modules.git synced 2024-12-22 19:18:17 +00:00
Code Issues Releases Packages Activity

Changing fasta_sizes by chrom_sizes input path for genomecov

Browse source
This commit is contained in:
JoseEspinosa 2020-07-14 16:09:01 +02:00
parent 9d79d64eb9
commit 0ffa739cd0
2 changed files with 3 additions and 3 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

4
software/bedtools/genomecov/main.nf
View file

@ -5,7 +5,7 @@ process GENOMECOV {
input: input:
path (bam) path (bam)
path (fasta_sizes) path (chrom_sizes)
val (genomecov_args) val (genomecov_args)
output: output:
@ -13,6 +13,6 @@ process GENOMECOV {
script: script:
""" """
bedtools genomecov -ibam ${bam} -g ${fasta_sizes} ${genomecov_args} bedtools genomecov -ibam ${bam} -g ${chrom_sizes} ${genomecov_args}
""" """
} }

2
software/bedtools/genomecov/meta.yml
View file

@ -15,7 +15,7 @@ input:
type: file type: file
description: Input genomic coordinates file description: Input genomic coordinates file
pattern: "*.{bam}" pattern: "*.{bam}"
- fasta_sizes: - chrom_sizes:
type: file type: file
description: Genome chromosome sizes description: Genome chromosome sizes
pattern: "*.{txt,sizes}" pattern: "*.{txt,sizes}"