repeatexplorer/repex_tarean:latest
$ singularity pull shub://repeatexplorer/repex_tarean:latest
Singularity Recipe
Bootstrap: docker
From: ubuntu:20.04
%files
R_install.R /opt/R_install.R
%post
export DEBIAN_FRONTEND=noninteractive
apt-get -y update
apt-get -y install git python3 ncbi-blast+-legacy ncbi-blast+ python3 mafft python3-pip imagemagick diamond-aligner last-align
apt-get -y install r-base libcurl4-openssl-dev libxml2-dev libgtk2.0-dev libssl-dev build-essential gfortran libblas-dev liblapack-dev r-cran-future
apt-get -y install r-cran-stringr r-cran-dt r-cran-scales r-cran-igraph r-cran-hwriter r-bioc-biostrings
apt-get -y install r-cran-plotrix r-cran-png r-cran-dplyr r-cran-plyr r-cran-optparse r-cran-dbi r-cran-rsqlite
dpkg --add-architecture i386
apt-get update
apt-get -y install libc6:i386 libncurses5:i386 libstdc++6:i386
Rscript /opt/R_install.R
pip3 install pyRserve
cd opt
git clone https://petrnovak@bitbucket.org/petrnovak/repex_tarean.git
cd repex_tarean && make
ln -s /opt/repex_tarean/seqclust /usr/local/bin/seqclust
%environment
export LC_ALL=C
export PATH=/usr/games:$PATH
export TMPDIR=""
%runscript
seqclust $@
%labels
Author petr@umbr.cas.cz
Version v0.0.2
%test
cd /opt/repex_tarean/
/opt/repex_tarean/test_repex_pipeline.py SHORT_SUITE
Collection
- Name: repeatexplorer/repex_tarean
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/repeatexplorer-repex_tarean-latest |
collection name | repeatexplorer/repex_tarean |
branch | master |
tag | latest |
commit | ec6bbbddd38eb2d1c52fdb56f561998df01126f1 |
version (container hash) | 0e508250fb93433902086deb62773bb8 |
build date | 2021-04-12T16:31:09.726Z |
size (MB) | 2795.0 |
size (bytes) | 1082744863 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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