sschmeier/simg-preprocess:201903
$ singularity pull shub://sschmeier/simg-preprocess:201903
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=5.4.3 atropos=1.1.21 bbmap=38.22 cutadapt=1.18 fastp=0.19.5 fastqc=0.11.7 flexbar multiqc=1.7 fastq-screen
# 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-201903 |
collection name | sschmeier/simg-preprocess |
branch | master |
tag | 201903 |
commit | 4f69b5b582c44ef793da9072f8c287fb9bdc0c86 |
version (container hash) | 703a13100bc955268e098533d4197a38 |
build date | 2019-03-24T23:26:33.912Z |
size (MB) | 1957 |
size (bytes) | 697323551 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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