sschmeier/simg-preprocess:201902
$ singularity pull shub://sschmeier/simg-preprocess:201902
Singularity Recipe
Bootstrap: docker
From: continuumio/miniconda3:4.5.12
%labels
AUTHOR schmeier@tuta.io
%environment
# ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
# This sets global environment variables for anything run within the container
export PATH="/opt/conda/bin:/usr/local/bin:/usr/bin:/bin:"
unset CONDA_DEFAULT_ENV
export ANACONDA_HOME=/opt/conda
%post
export PATH=/opt/conda/bin:$PATH
echo "We add conda channels."
conda config --add channels defaults
conda config --add channels conda-forge
conda config --add channels bioconda
echo "We install tools."
conda install --yes snakemake=5.4.2 atropos=1.1.21 bbmap=38.22 cutadapt=1.18 fastp=0.19.5 fastqc=0.11.7 flexbar=3.3.0 multiqc=1.7
# Clean up
conda clean --index-cache --tarballs --packages --yes
Collection
- Name: sschmeier/simg-preprocess
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/sschmeier-simg-preprocess-201902 |
collection name | sschmeier/simg-preprocess |
branch | master |
tag | 201902 |
commit | 0f78919f97c92c3ade75c75958b49491e21525a7 |
version (container hash) | bdca9d51e73d1bef04216f2bddfd84b2 |
build date | 2019-02-22T21:13:26.474Z |
size (MB) | 2564 |
size (bytes) | 923623455 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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