mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-24 11:48:17 +00:00
e937c7950a
* Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml
30 lines
836 B
Docker
30 lines
836 B
Docker
FROM nfcore/base:1.14
|
|
LABEL \
|
|
author="Maxime Garcia" \
|
|
description="VEP image for nf-core pipelines" \
|
|
maintainer="maxime.garcia@scilifelab.se"
|
|
|
|
# Install the conda environment
|
|
COPY environment.yml /
|
|
RUN conda env create -f /environment.yml && conda clean -a
|
|
|
|
# Add conda installation dir to PATH (instead of doing 'conda activate')
|
|
ENV PATH /opt/conda/envs/nf-core-vep-104.3/bin:$PATH
|
|
|
|
# Setup default ARG variables
|
|
ARG GENOME=GRCh38
|
|
ARG SPECIES=homo_sapiens
|
|
ARG VEP_VERSION=99
|
|
|
|
# Download Genome
|
|
RUN vep_install \
|
|
-a c \
|
|
-c .vep \
|
|
-s ${SPECIES} \
|
|
-y ${GENOME} \
|
|
--CACHE_VERSION ${VEP_VERSION} \
|
|
--CONVERT \
|
|
--NO_BIOPERL --NO_HTSLIB --NO_TEST --NO_UPDATE
|
|
|
|
# Dump the details of the installed packages to a file for posterity
|
|
RUN conda env export --name nf-core-vep-104.3 > nf-core-vep-104.3.yml
|