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


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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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