diff --git a/.github/workflows/cutadapt.yml b/.github/workflows/deprecated/cutadapt.yml similarity index 100% rename from .github/workflows/cutadapt.yml rename to .github/workflows/deprecated/cutadapt.yml diff --git a/.github/workflows/fastqc.yml b/.github/workflows/deprecated/fastqc.yml similarity index 100% rename from .github/workflows/fastqc.yml rename to .github/workflows/deprecated/fastqc.yml diff --git a/.github/workflows/samtools_index.yml b/.github/workflows/deprecated/samtools_index.yml similarity index 100% rename from .github/workflows/samtools_index.yml rename to .github/workflows/deprecated/samtools_index.yml diff --git a/.github/workflows/samtools_sort.yml b/.github/workflows/deprecated/samtools_sort.yml similarity index 100% rename from .github/workflows/samtools_sort.yml rename to .github/workflows/deprecated/samtools_sort.yml diff --git a/.github/workflows/tcoffee.yml b/.github/workflows/deprecated/tcoffee.yml similarity index 100% rename from .github/workflows/tcoffee.yml rename to .github/workflows/deprecated/tcoffee.yml diff --git a/.github/workflows/trim_galore.yml b/.github/workflows/deprecated/trim_galore.yml similarity index 100% rename from .github/workflows/trim_galore.yml rename to .github/workflows/deprecated/trim_galore.yml diff --git a/deprecated/trim_galore/Dockerfile b/deprecated/trim_galore/Dockerfile index ef13a1bf..6a66cf2c 100644 --- a/deprecated/trim_galore/Dockerfile +++ b/deprecated/trim_galore/Dockerfile @@ -2,6 +2,8 @@ FROM nfcore/base:1.7 LABEL authors="phil.ewels@scilifelab.se" \ description="Docker image for nf-core modules trimgalore" +#### THIS IS A BUG + # foobar COPY environment.yml / RUN conda env create -f /environment.yml && conda clean -a diff --git a/software/fastqc/main.nf b/software/fastqc/main.nf index 7f882525..ed80e019 100644 --- a/software/fastqc/main.nf +++ b/software/fastqc/main.nf @@ -1,5 +1,5 @@ // Import generic module functions -include { initOptions; saveFiles; getSoftwareName } from './functions' +include { initOptions; saveFiles; getSoftwareName } from './lib/functions' process FASTQC { tag "$meta.id"