sschmeier/simg-rnaseq:201903

$ singularity pull shub://sschmeier/simg-rnaseq: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:$PATH"
  unset CONDA_DEFAULT_ENV
  export ANACONDA_HOME=/opt/conda


%post
   export PATH=/opt/conda/bin:$PATH
   conda update --yes -q conda 
   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 r-samr bioconductor-deseq2=1.18.1 bioconductor-edger r-readr bioconductor-limma bioconductor-ihw bioconductor-tximport bioconductor-biocparallel bioconductor-clusterprofiler bioconductor-org.hs.eg.db bioconductor-org.mm.eg.db bioconductor-gseabase pandas numpy star=2.6.1d multiqc=1.7 bbmap=38.22 samtools=1.9 colorama rseqc=3.0.0 salmon=0.13.1 gffutils=0.9
   conda clean --index-cache --tarballs --packages --yes

Collection


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Metrics

key value
id /containers/sschmeier-simg-rnaseq-201903
collection name sschmeier/simg-rnaseq
branch master
tag 201903
commit 75760802b770c9920004739bc30bfe1ea90678e5
version (container hash) da9ae84f0e511618173dd8137a02862c
build date 2019-12-16T01:41:21.662Z
size (MB) 3060
size (bytes) 1024339999
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
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