TomHarrop/variant-utils:transindel_7098bd6

$ singularity pull shub://TomHarrop/variant-utils:transindel_7098bd6

Singularity Recipe

Bootstrap: docker
From: python:2.7.17-buster

%help
    transIndel 7098bd6
    https://github.com/cauyrd/transIndel

%labels
    MAINTAINER "Tom Harrop"
    VERSION "transIndel 7098bd6"

%post
    # install samtools
    apt-get update
    apt-get install -y samtools

    # install python2 dependencies
    /usr/local/bin/pip install \
        pysam==0.15.3 \
        numpy==1.16.5
    /usr/local/bin/pip install \
        HTSeq==0.11.2

    # install transindel
    git clone git://github.com/cauyrd/transIndel.git
    cd transIndel || exit 1
    git checkout -f 7098bd6

    # change to python 2.17.7
    sed -i 's/#!\/usr\/bin\/python/#!\/usr\/local\/bin\/python/' \
        *.py
    chmod 755 *.py

%environment
    export PATH="${PATH}:/transIndel"

%runscript
    exec /transIndel/transIndel_build_DNA.py "$@"

Collection


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Metrics

key value
id /containers/TomHarrop-variant-utils-transindel_7098bd6
collection name TomHarrop/variant-utils
branch master
tag transindel_7098bd6
commit b5e6f92659d4e4d90bb33613f6b1bcd6a942cbe4
version (container hash) a0aa985746dfe810fb9af6f9740f0e7811b680458b9a2e1ed4c5fb1cec170ff4
build date 2019-12-16T21:58:12.908Z
size (MB) 447.29296875
size (bytes) 469020672
SIF Download URL (please use pull with shub://)
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