From 7818935121de9e9fab60234949a0a5437edf0f3e Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 20 May 2019 16:20:26 +0200
Subject: [PATCH] nf module: ccin2p3 profile become cc2inp3_conda
---
src/nf_modules/bedtools/fasta_from_bed.config | 2 +-
src/nf_modules/bowtie/indexing.config | 2 +-
src/nf_modules/bowtie/mapping_paired.config | 2 +-
src/nf_modules/bowtie/mapping_single.config | 2 +-
src/nf_modules/bowtie2/indexing.config | 2 +-
src/nf_modules/bowtie2/mapping_paired.config | 2 +-
src/nf_modules/bowtie2/mapping_single.config | 2 +-
src/nf_modules/bwa/indexing.config | 2 +-
src/nf_modules/bwa/mapping_paired.config | 2 +-
src/nf_modules/cutadapt/adaptor_removal_paired.config | 2 +-
src/nf_modules/cutadapt/adaptor_removal_single.config | 2 +-
src/nf_modules/cutadapt/trimming_paired.config | 2 +-
src/nf_modules/cutadapt/trimming_single.config | 2 +-
src/nf_modules/deeptools/bam_to_bigwig.config | 2 +-
src/nf_modules/deeptools/compute_matrix.config | 2 +-
src/nf_modules/deeptools/plot_profile.config | 2 +-
src/nf_modules/fastp/fastp_paired.config | 2 +-
src/nf_modules/fastp/fastp_single.config | 2 +-
src/nf_modules/fastqc/fastqc_paired.config | 2 +-
src/nf_modules/fastqc/fastqc_single.config | 2 +-
src/nf_modules/hisat2/indexing.config | 2 +-
src/nf_modules/hisat2/mapping_paired.config | 2 +-
src/nf_modules/hisat2/mapping_single.config | 2 +-
src/nf_modules/htseq/htseq.config | 2 +-
src/nf_modules/kallisto/mapping_paired.config | 2 +-
src/nf_modules/kallisto/mapping_single.config | 2 +-
src/nf_modules/macs2/peak_calling.config | 2 +-
src/nf_modules/multiqc/multiqc_paired.config | 2 +-
src/nf_modules/multiqc/multiqc_single.config | 2 +-
src/nf_modules/music/peak_calling_single.config | 2 +-
src/nf_modules/rsem/indexing.config | 2 +-
src/nf_modules/rsem/quantification_paired.config | 2 +-
src/nf_modules/rsem/quantification_single.config | 2 +-
src/nf_modules/sambamba/index_bams.config | 2 +-
src/nf_modules/sambamba/sort_bams.config | 2 +-
src/nf_modules/sambamba/split_bams.config | 2 +-
src/nf_modules/samblaster/dedup_sams.config | 2 +-
src/nf_modules/samtools/filter_bams.config | 2 +-
src/nf_modules/samtools/index_bams.config | 2 +-
src/nf_modules/samtools/sort_bams.config | 2 +-
src/nf_modules/samtools/split_bams.config | 2 +-
src/nf_modules/sratoolkit/fastqdump.config | 2 +-
src/nf_modules/urqt/trimming_paired.config | 2 +-
src/nf_modules/urqt/trimming_single.config | 2 +-
44 files changed, 44 insertions(+), 44 deletions(-)
diff --git a/src/nf_modules/bedtools/fasta_from_bed.config b/src/nf_modules/bedtools/fasta_from_bed.config
index d3cf48e7..36e7ef46 100644
--- a/src/nf_modules/bedtools/fasta_from_bed.config
+++ b/src/nf_modules/bedtools/fasta_from_bed.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fasta_from_bed {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bowtie/indexing.config b/src/nf_modules/bowtie/indexing.config
index 0f6fd494..19094c45 100644
--- a/src/nf_modules/bowtie/indexing.config
+++ b/src/nf_modules/bowtie/indexing.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_fasta {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bowtie/mapping_paired.config b/src/nf_modules/bowtie/mapping_paired.config
index 3582d00f..7e00b2bc 100644
--- a/src/nf_modules/bowtie/mapping_paired.config
+++ b/src/nf_modules/bowtie/mapping_paired.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bowtie/mapping_single.config b/src/nf_modules/bowtie/mapping_single.config
index 3582d00f..7e00b2bc 100644
--- a/src/nf_modules/bowtie/mapping_single.config
+++ b/src/nf_modules/bowtie/mapping_single.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bowtie2/indexing.config b/src/nf_modules/bowtie2/indexing.config
index 85480186..8a373d99 100644
--- a/src/nf_modules/bowtie2/indexing.config
+++ b/src/nf_modules/bowtie2/indexing.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_fasta {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bowtie2/mapping_paired.config b/src/nf_modules/bowtie2/mapping_paired.config
index 3584a222..704adb6a 100644
--- a/src/nf_modules/bowtie2/mapping_paired.config
+++ b/src/nf_modules/bowtie2/mapping_paired.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bowtie2/mapping_single.config b/src/nf_modules/bowtie2/mapping_single.config
index 3584a222..704adb6a 100644
--- a/src/nf_modules/bowtie2/mapping_single.config
+++ b/src/nf_modules/bowtie2/mapping_single.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bwa/indexing.config b/src/nf_modules/bwa/indexing.config
index 4fcea110..d73ff104 100644
--- a/src/nf_modules/bwa/indexing.config
+++ b/src/nf_modules/bwa/indexing.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_fasta {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/bwa/mapping_paired.config b/src/nf_modules/bwa/mapping_paired.config
index d1f05908..1c8dfa5d 100644
--- a/src/nf_modules/bwa/mapping_paired.config
+++ b/src/nf_modules/bwa/mapping_paired.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/cutadapt/adaptor_removal_paired.config b/src/nf_modules/cutadapt/adaptor_removal_paired.config
index 87bf451d..7e6aadec 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_paired.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_paired.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: adaptor_removal {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/cutadapt/adaptor_removal_single.config b/src/nf_modules/cutadapt/adaptor_removal_single.config
index 87bf451d..7e6aadec 100644
--- a/src/nf_modules/cutadapt/adaptor_removal_single.config
+++ b/src/nf_modules/cutadapt/adaptor_removal_single.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: adaptor_removal {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/cutadapt/trimming_paired.config b/src/nf_modules/cutadapt/trimming_paired.config
index 1d067da7..28e17285 100644
--- a/src/nf_modules/cutadapt/trimming_paired.config
+++ b/src/nf_modules/cutadapt/trimming_paired.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: trimming {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/cutadapt/trimming_single.config b/src/nf_modules/cutadapt/trimming_single.config
index 1d067da7..28e17285 100644
--- a/src/nf_modules/cutadapt/trimming_single.config
+++ b/src/nf_modules/cutadapt/trimming_single.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: trimming {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/deeptools/bam_to_bigwig.config b/src/nf_modules/deeptools/bam_to_bigwig.config
index bf1ebd09..e6d71340 100644
--- a/src/nf_modules/deeptools/bam_to_bigwig.config
+++ b/src/nf_modules/deeptools/bam_to_bigwig.config
@@ -52,7 +52,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/deeptools/compute_matrix.config b/src/nf_modules/deeptools/compute_matrix.config
index 76ccaa7a..0000f5b2 100644
--- a/src/nf_modules/deeptools/compute_matrix.config
+++ b/src/nf_modules/deeptools/compute_matrix.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: compute_matrix {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/deeptools/plot_profile.config b/src/nf_modules/deeptools/plot_profile.config
index eca7b8bb..afa10d54 100644
--- a/src/nf_modules/deeptools/plot_profile.config
+++ b/src/nf_modules/deeptools/plot_profile.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: plot_profile {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/fastp/fastp_paired.config b/src/nf_modules/fastp/fastp_paired.config
index c0832fc5..f660e797 100644
--- a/src/nf_modules/fastp/fastp_paired.config
+++ b/src/nf_modules/fastp/fastp_paired.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fastp_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/fastp/fastp_single.config b/src/nf_modules/fastp/fastp_single.config
index c0832fc5..f660e797 100644
--- a/src/nf_modules/fastp/fastp_single.config
+++ b/src/nf_modules/fastp/fastp_single.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fastp_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/fastqc/fastqc_paired.config b/src/nf_modules/fastqc/fastqc_paired.config
index 32ee3d12..291d2eb4 100644
--- a/src/nf_modules/fastqc/fastqc_paired.config
+++ b/src/nf_modules/fastqc/fastqc_paired.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fastqc_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/fastqc/fastqc_single.config b/src/nf_modules/fastqc/fastqc_single.config
index 32ee3d12..291d2eb4 100644
--- a/src/nf_modules/fastqc/fastqc_single.config
+++ b/src/nf_modules/fastqc/fastqc_single.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fastqc_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/hisat2/indexing.config b/src/nf_modules/hisat2/indexing.config
index 6214ad49..fc8ca47b 100644
--- a/src/nf_modules/hisat2/indexing.config
+++ b/src/nf_modules/hisat2/indexing.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_fasta {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/hisat2/mapping_paired.config b/src/nf_modules/hisat2/mapping_paired.config
index 95108b57..31edc5c6 100644
--- a/src/nf_modules/hisat2/mapping_paired.config
+++ b/src/nf_modules/hisat2/mapping_paired.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/hisat2/mapping_single.config b/src/nf_modules/hisat2/mapping_single.config
index 95108b57..31edc5c6 100644
--- a/src/nf_modules/hisat2/mapping_single.config
+++ b/src/nf_modules/hisat2/mapping_single.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/htseq/htseq.config b/src/nf_modules/htseq/htseq.config
index 2d24635e..e703516f 100644
--- a/src/nf_modules/htseq/htseq.config
+++ b/src/nf_modules/htseq/htseq.config
@@ -46,7 +46,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: sort_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/kallisto/mapping_paired.config b/src/nf_modules/kallisto/mapping_paired.config
index f033f789..755a49b2 100644
--- a/src/nf_modules/kallisto/mapping_paired.config
+++ b/src/nf_modules/kallisto/mapping_paired.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/kallisto/mapping_single.config b/src/nf_modules/kallisto/mapping_single.config
index f033f789..755a49b2 100644
--- a/src/nf_modules/kallisto/mapping_single.config
+++ b/src/nf_modules/kallisto/mapping_single.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/macs2/peak_calling.config b/src/nf_modules/macs2/peak_calling.config
index 1670ee68..43e5cbef 100644
--- a/src/nf_modules/macs2/peak_calling.config
+++ b/src/nf_modules/macs2/peak_calling.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/multiqc/multiqc_paired.config b/src/nf_modules/multiqc/multiqc_paired.config
index 1c26caa8..4413a1eb 100644
--- a/src/nf_modules/multiqc/multiqc_paired.config
+++ b/src/nf_modules/multiqc/multiqc_paired.config
@@ -55,7 +55,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fastqc_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/multiqc/multiqc_single.config b/src/nf_modules/multiqc/multiqc_single.config
index 2420357b..451cbd2b 100644
--- a/src/nf_modules/multiqc/multiqc_single.config
+++ b/src/nf_modules/multiqc/multiqc_single.config
@@ -54,7 +54,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fastqc_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/music/peak_calling_single.config b/src/nf_modules/music/peak_calling_single.config
index d6faf0fb..b9418753 100644
--- a/src/nf_modules/music/peak_calling_single.config
+++ b/src/nf_modules/music/peak_calling_single.config
@@ -68,7 +68,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: compute_mappability {
beforeScript = "PATH=/sps/lbmc/common/nextflow/src/singularity_modules/music/6613c53/:/usr/bin:$PATH"
diff --git a/src/nf_modules/rsem/indexing.config b/src/nf_modules/rsem/indexing.config
index 5747a30f..d551058d 100644
--- a/src/nf_modules/rsem/indexing.config
+++ b/src/nf_modules/rsem/indexing.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_fasta {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/rsem/quantification_paired.config b/src/nf_modules/rsem/quantification_paired.config
index 0c1768cc..7a311076 100644
--- a/src/nf_modules/rsem/quantification_paired.config
+++ b/src/nf_modules/rsem/quantification_paired.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/rsem/quantification_single.config b/src/nf_modules/rsem/quantification_single.config
index 0c1768cc..7a311076 100644
--- a/src/nf_modules/rsem/quantification_single.config
+++ b/src/nf_modules/rsem/quantification_single.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: mapping_fastq {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/sambamba/index_bams.config b/src/nf_modules/sambamba/index_bams.config
index 818acc4b..4b1cab9d 100644
--- a/src/nf_modules/sambamba/index_bams.config
+++ b/src/nf_modules/sambamba/index_bams.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/sambamba/sort_bams.config b/src/nf_modules/sambamba/sort_bams.config
index c4f8ed2d..20a878c3 100644
--- a/src/nf_modules/sambamba/sort_bams.config
+++ b/src/nf_modules/sambamba/sort_bams.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: sort_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/sambamba/split_bams.config b/src/nf_modules/sambamba/split_bams.config
index 1a7f7bbb..ed57b764 100644
--- a/src/nf_modules/sambamba/split_bams.config
+++ b/src/nf_modules/sambamba/split_bams.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: split_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/samblaster/dedup_sams.config b/src/nf_modules/samblaster/dedup_sams.config
index 5f00a51e..a4ed1732 100644
--- a/src/nf_modules/samblaster/dedup_sams.config
+++ b/src/nf_modules/samblaster/dedup_sams.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: dedup_sam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/samtools/filter_bams.config b/src/nf_modules/samtools/filter_bams.config
index 65d6c697..8b6406fc 100644
--- a/src/nf_modules/samtools/filter_bams.config
+++ b/src/nf_modules/samtools/filter_bams.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: filter_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/samtools/index_bams.config b/src/nf_modules/samtools/index_bams.config
index d1dbcef1..9b37acf2 100644
--- a/src/nf_modules/samtools/index_bams.config
+++ b/src/nf_modules/samtools/index_bams.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: index_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/samtools/sort_bams.config b/src/nf_modules/samtools/sort_bams.config
index fd8a8655..6f55fb1b 100644
--- a/src/nf_modules/samtools/sort_bams.config
+++ b/src/nf_modules/samtools/sort_bams.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: sort_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/samtools/split_bams.config b/src/nf_modules/samtools/split_bams.config
index 3e85e5b0..7d8c883c 100644
--- a/src/nf_modules/samtools/split_bams.config
+++ b/src/nf_modules/samtools/split_bams.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: split_bam {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/sratoolkit/fastqdump.config b/src/nf_modules/sratoolkit/fastqdump.config
index 8263bf55..3bfdaae2 100644
--- a/src/nf_modules/sratoolkit/fastqdump.config
+++ b/src/nf_modules/sratoolkit/fastqdump.config
@@ -32,7 +32,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: fastq_dump {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/urqt/trimming_paired.config b/src/nf_modules/urqt/trimming_paired.config
index deedb874..143b4b15 100644
--- a/src/nf_modules/urqt/trimming_paired.config
+++ b/src/nf_modules/urqt/trimming_paired.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: trimming {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
diff --git a/src/nf_modules/urqt/trimming_single.config b/src/nf_modules/urqt/trimming_single.config
index 7f7fdc56..c787338f 100644
--- a/src/nf_modules/urqt/trimming_single.config
+++ b/src/nf_modules/urqt/trimming_single.config
@@ -33,7 +33,7 @@ profiles {
}
}
}
- ccin2p3 {
+ ccin2p3_conda {
process{
withName: trimming {
beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
--
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