https://github.com/connor-lab/ncov2019-artic-nf
Revision 42b69972a60050dde2c0bcc2bcb7dc73a840f153 authored by Matt Bull on 12 March 2020, 22:47:57 UTC, committed by Matt Bull on 12 March 2020, 22:47:57 UTC
1 parent daf240f
Tip revision: 42b69972a60050dde2c0bcc2bcb7dc73a840f153 authored by Matt Bull on 12 March 2020, 22:47:57 UTC
Fix barcoded workflow
Fix barcoded workflow
Tip revision: 42b6997
Singularity
Bootstrap: docker
From: continuumio/miniconda3:latest
%files
environment.yml /
%labels
authors="Matt Bull"
description="Docker image containing all requirements for the ARTIC project's ncov2019 pipeline"
%post
apt-get update && apt-get install -y g++ git make procps && apt-get clean -y
/opt/conda/bin/conda env create -f /environment.yml && /opt/conda/bin/conda clean -a
PATH=/opt/conda/envs/artic-ncov2019/bin:$PATH
%environment
export PATH=/opt/conda/envs/artic-ncov2019/bin:$PATH
%runscript
exec "/opt/conda/envs/artic-ncov2019/bin/artic" "$@"
%startscript
/opt/conda/envs/artic-ncov2019/bin/rampart "$@"
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