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Changing fasta_sizes by chrom_sizes input path for genomecov

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This commit is contained in:
JoseEspinosa 2020-07-14 16:09:01 +02:00
parent f2eb3f68c0
commit 5f80a900e9
2 changed files with 3 additions and 3 deletions
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4
software/bedtools/genomecov/main.nf
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@ -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
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@ -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}"