Commit f1013ddb authored by Sander Bollen's avatar Sander Bollen
Browse files

nogroup on fastqc reports

parent eb3cbd05
......@@ -403,7 +403,7 @@ rule fastqc_raw:
output:
aux=out_path("{sample}/pre_process/raw_fastqc/.done.txt")
conda: "envs/fastqc.yml"
shell: "fastqc -o {params.odir} {input.r1} {input.r2} && echo 'done' > {output.aux}"
shell: "fastqc --nogroup -o {params.odir} {input.r1} {input.r2} && echo 'done' > {output.aux}"
rule fastqc_merged:
......@@ -417,7 +417,7 @@ rule fastqc_merged:
r1=out_path("{sample}/pre_process/merged_fastqc/{sample}.merged_R1_fastqc.zip"),
r2=out_path("{sample}/pre_process/merged_fastqc/{sample}.merged_R2_fastqc.zip")
conda: "envs/fastqc.yml"
shell: "fastqc -o {params.odir} {input.r1} {input.r2}"
shell: "fastqc --nogroup -o {params.odir} {input.r1} {input.r2}"
rule fastqc_postqc:
......@@ -431,7 +431,7 @@ rule fastqc_postqc:
r1=out_path("{sample}/pre_process/postqc_fastqc/{sample}.cutadapt_R1_fastqc.zip"),
r2=out_path("{sample}/pre_process/postqc_fastqc/{sample}.cutadapt_R2_fastqc.zip")
conda: "envs/fastqc.yml"
shell: "fastqc -o {params.odir} {input.r1} {input.r2}"
shell: "fastqc --nogroup -o {params.odir} {input.r1} {input.r2}"
## fastq-count
......
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