From 33aec657ce4d42507a47087f27eb8a7c041637af Mon Sep 17 00:00:00 2001 From: ayoraind Date: Tue, 14 Mar 2023 11:25:36 +0100 Subject: [PATCH] changed filepath to conda yml file --- modules/processes.nf | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/modules/processes.nf b/modules/processes.nf index d3eae16..87e6749 100644 --- a/modules/processes.nf +++ b/modules/processes.nf @@ -2,7 +2,7 @@ process MINIMAP2_INDEX { // publishDir "${params.output_dir}/minimap", mode:'copy' // Note: the versions here need to match the versions used in minimap2/align - conda "../mapping_env.yml" + conda "/MIGE/01_DATA/07_TOOLS_AND_SOFTWARE/nextflow_pipelines/hDNA_removal_and_map_stats/mapping_env.yml" input: tuple val(meta), path(reference_fasta) @@ -35,7 +35,7 @@ process MINIMAP2_ALIGN { tag "minimap alignment on $sample_id" // Note: the versions here need to match the versions used in the mulled container below and minimap2/index - conda "../mapping_env.yml" + conda "/MIGE/01_DATA/07_TOOLS_AND_SOFTWARE/nextflow_pipelines/hDNA_removal_and_map_stats/mapping_env.yml" input: tuple val(sample_id), path(reads) @@ -71,7 +71,7 @@ process EXTRACT_MICROBIAL_READS { tag "extract microbial DNA from $sample_id" // Note: the versions here need to match the versions used in the mulled container below and minimap2/index - conda "../mapping_env.yml" + conda "/MIGE/01_DATA/07_TOOLS_AND_SOFTWARE/nextflow_pipelines/hDNA_removal_and_map_stats/mapping_env.yml" input: tuple val(sample_id), path(bam) @@ -112,7 +112,7 @@ process BAM_STATISTICS { tag "$sample_id" - conda "../mapping_env.yml" + conda "/MIGE/01_DATA/07_TOOLS_AND_SOFTWARE/nextflow_pipelines/hDNA_removal_and_map_stats/mapping_env.yml" input: tuple val(sample_id), path(bam)