From 6385403a906a89bc40dbbefd4e8ca326573c9325 Mon Sep 17 00:00:00 2001 From: veitveit Date: Thu, 3 Feb 2022 11:39:08 +0100 Subject: [PATCH] now with conda-based images --- modules/maxquant/lfq/Dockerfile | 16 ---------------- modules/maxquant/lfq/environment.yml | 11 ----------- 2 files changed, 27 deletions(-) delete mode 100644 modules/maxquant/lfq/Dockerfile delete mode 100644 modules/maxquant/lfq/environment.yml diff --git a/modules/maxquant/lfq/Dockerfile b/modules/maxquant/lfq/Dockerfile deleted file mode 100644 index cd524abf..00000000 --- a/modules/maxquant/lfq/Dockerfile +++ /dev/null @@ -1,16 +0,0 @@ -FROM nfcore/base -LABEL authors="Niclas Kildegaard Nielsen and Veit Schwämmle" \ - description="Docker image containing all requirements for maxquant pipeline" - -COPY environment.yml / -# Create the environment: -RUN conda env create -f /environment.yml && conda clean -a -# Make RUN commands use the new environment: - -# Activates the env for the program to run in -RUN echo "source activate nf-core-maxquant" > ~/.bashrc -ENV PATH /opt/conda/envs/nf-core-maxquant/bin:$PATH - -# Changes the Work dir to the SDRF file area -WORKDIR / -# ENTRYPOINT ["/bin/bash"] diff --git a/modules/maxquant/lfq/environment.yml b/modules/maxquant/lfq/environment.yml deleted file mode 100644 index b05d9f91..00000000 --- a/modules/maxquant/lfq/environment.yml +++ /dev/null @@ -1,11 +0,0 @@ -name: nf-core-maxquant -channels: - - conda-forge - - bioconda - - defaults -dependencies: - - r-hexbin - - mono=5.14.0.177 - - maxquant=1.6.10.43 - - sdrf-pipelines=0.0.12 - - bioconductor-normalyzerde=1.8