diff --git a/src/nf_modules/bedtools/fasta_from_bed.config b/src/nf_modules/bedtools/fasta_from_bed.config index d3cf48e79b31426dede758e76b9fdbc4d0b4a0e7..36e7ef46da6b8c3784e916d1ae83bfafe55b8770 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 0f6fd4940eba2805ae84b179be0eef0a6d98d62b..19094c45a0a3c67813ef581f1d388090f57cac8b 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 3582d00fdea05fc904399732ed01bfea3fee35b2..7e00b2bc704b289bdcbf31c57f25cd98f4d49061 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 3582d00fdea05fc904399732ed01bfea3fee35b2..7e00b2bc704b289bdcbf31c57f25cd98f4d49061 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 85480186a10df0359ed0af25d5d85aedc8a2aff1..8a373d99e286a3f512d750cf7719de8149e2fb35 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 3584a222226e410d0177118283e97a32e185989e..704adb6a714cb7b73e79adb96ce78afd28eb911c 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 3584a222226e410d0177118283e97a32e185989e..704adb6a714cb7b73e79adb96ce78afd28eb911c 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 4fcea110abcf27428b4852cd9c592b87db835bb9..d73ff10499cad8c64b5a2553fde8899dbbdff767 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 d1f05908884afc7fae2e665a90bd0cb7c5f7d06a..1c8dfa5d9d3b89ac4e8bc898d2077c283fee2456 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 87bf451de77059bc9997ac6669acd9ef5cf4604f..7e6aadec6a8c82d778d7feaddd311d8f675905b6 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 87bf451de77059bc9997ac6669acd9ef5cf4604f..7e6aadec6a8c82d778d7feaddd311d8f675905b6 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 1d067da778b7b7b9bc62d9d87e529c1fa182a539..28e17285f62db18e4a6cd8034dd27ff959b5de12 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 1d067da778b7b7b9bc62d9d87e529c1fa182a539..28e17285f62db18e4a6cd8034dd27ff959b5de12 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 bf1ebd09c46d0472cfa59f2f74f9da031c91a90d..e6d713401dd588ee18b56cc7e45b1fe9d2b7a75d 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 76ccaa7a802aab4a742b3d836b7e210f401b510f..0000f5b25a55de4c3d9f29820178e80f55e79f0b 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 eca7b8bbf2e135f8d043459756105e5a410599d1..afa10d54c3119fe880aed0dba9fdaecc3b5eb841 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 c0832fc5f34df49b8fa2ee2798b16c8481af8dca..f660e797a56ae13b51a02c0d0404989d1ed88fb9 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 c0832fc5f34df49b8fa2ee2798b16c8481af8dca..f660e797a56ae13b51a02c0d0404989d1ed88fb9 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 32ee3d128c4589e1bf6e066a0c7942c997f907fb..291d2eb44d0a07eb6d0e096c2142e51d78e1aaba 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 32ee3d128c4589e1bf6e066a0c7942c997f907fb..291d2eb44d0a07eb6d0e096c2142e51d78e1aaba 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 6214ad49ff0d8c441af98541a9d1051099575e3c..fc8ca47b63072365a9069f8806bbdfc4e4a64397 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 95108b57943a09620e63bd3ff2eb0563a236a1c9..31edc5c623bd4532d69ad8454aeaed219a21089e 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 95108b57943a09620e63bd3ff2eb0563a236a1c9..31edc5c623bd4532d69ad8454aeaed219a21089e 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 2d24635ee1cf328bf4cf56e8f2ac235248f19e9e..e703516f3da176c611c4921ca4994ad86fd6823a 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 f033f789c51747db65d8f34a7e68fe78a89b10fe..755a49b20c6f59da629df35d66c60a4cf0ab3ac3 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 f033f789c51747db65d8f34a7e68fe78a89b10fe..755a49b20c6f59da629df35d66c60a4cf0ab3ac3 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 1670ee68b1c068bd86dd2973635acf2604820be3..43e5cbef55973bd71602ac2b2de413a9bc863b22 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 1c26caa8db9745ac06173495cc0fbe42e0283751..4413a1eb819dc1f47cace9f2f9c445d7466463b6 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 2420357bd65d1df4fdb77e64bf63010e3a0a9554..451cbd2b4d268ae2efa32ea934a8e4f01259b2b6 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 d6faf0fb7e5da74ce87e582b3a488c336c7c2f2b..b94187533212009fd0f848d3cc10260101193077 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 5747a30f644c419c365e7b39e7edf9484b6f2d8d..d551058d409dca24e4629da3d24517ea1846e78e 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 0c1768cce652475d5f0ac91434a95b38de2a805e..7a3110765e7066243c526e608605e0234865fc40 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 0c1768cce652475d5f0ac91434a95b38de2a805e..7a3110765e7066243c526e608605e0234865fc40 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 818acc4b23a1a084c11adcf90e0787b7d671165b..4b1cab9d149445e9ddd02755483e24e891782db5 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 c4f8ed2d874e48ba8a4e2ddd6d07c3ccd7a96527..20a878c34c75f676dff0aa95f6ab7b6139abcddd 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 1a7f7bbbf04fdcb3a121d8ffea87ed118f7eba8b..ed57b7641a6c618a7f4e00cad5eae363158b35f3 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 5f00a51e0c926723f2c13f9b884df673e7722815..a4ed173205ad6fd9d79ce431b41d7a1965f89e01 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 65d6c697540a8d1ae6729a844a4fb27d5fddafb8..8b6406fc4792384df431ddaaa4e1a14a44ae96c2 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 d1dbcef14f09d2f136669c53a4b1ca93fbe5635b..9b37acf24f22034181cb59008dda66d7d625f0cc 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 fd8a865574697b09986b82ed881a56e50f3f9cc8..6f55fb1b71431d5e75f528b31b7513cf9a492cfd 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 3e85e5b053f41a25b3754bb3ac63582681853030..7d8c883c0e2ad675f3dec2c0834b565f79069f0e 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 8263bf551c8e404c876fe45ea40d4fe234659cb2..3bfdaae2c517d4f238fccb649d6035d1da67d249 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 deedb874dc0a07c5a989b4293022670baa9f0ebd..143b4b1554d1248b0d683107c4edbdb1f2fb5ca6 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 7f7fdc56f06805c615a8a2117e5a20f96cf261ca..c787338fd4d8290245d9f81dc595662441b727fa 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"