rtpwilliams/Summit_RNAseq_container:latest
$ singularity pull shub://rtpwilliams/Summit_RNAseq_container:latest
Singularity Recipe
BootStrap: docker
From: ubuntu:16.04
%files
environment.yml
%post
# install some system deps
apt-get -y update
apt-get -y install locales curl bzip2 less unzip git wget vim ant default-jdk
# this is a X11 dep
apt-get -y install libxext6
# tools to open PDF and HTML files
apt-get -y install firefox xpdf
# some extra devel libs
apt-get -y install zlib1g-dev libssl-dev libpng-dev uuid-dev
# other
locale-gen en_US.UTF-8
apt-get clean
# download and install miniconda3
curl -sSL -O https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
bash Miniconda3-latest-Linux-x86_64.sh -p /opt/conda -b
rm -fr Miniconda3-latest-Linux-x86_64.sh
export PATH=/opt/conda/bin:$PATH
conda update -n base conda
# download software through environment.yml and set as default environment
echo ". /opt/conda/etc/profile.d/conda.sh" >> ~/.bashrc
echo "source activate summit_rnaseq" > ~/.bashrc
/opt/conda/bin/conda env create -f environment.yml
%environment
export PATH=/opt/conda/envs/summit_rnaseq/bin:$PATH
export LANG=en_US.UTF-8
export LANGUAGE=en_US:en
export LC_ALL=en_US.UTF-8
export XDG_RUNTIME_DIR=""
export PATH=/opt/conda/bin:$PATH
%runscript
exec "$@"
Collection
- Name: rtpwilliams/Summit_RNAseq_container
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/rtpwilliams-Summit_RNAseq_container-latest |
collection name | rtpwilliams/Summit_RNAseq_container |
branch | master |
tag | latest |
commit | 4a3e0f8d01e613b9b788e0c0b919dbae949ec09e |
version (container hash) | bf2b6a7224f780c4a9a00a919a98a0c2 |
build date | 2020-04-09T16:46:54.266Z |
size (MB) | 4819.0 |
size (bytes) | 2270765087 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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