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
- Name: sschmeier/simg-rnaseq
- License: None
View on Datalad
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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