TomHarrop/variant-utils:sniffles_f958698
$ singularity pull shub://TomHarrop/variant-utils:sniffles_f958698
Singularity Recipe
Bootstrap: docker
From: ubuntu:20.04
%help
Sniffles f958698
https://github.com/fritzsedlazeck/Sniffles
%labels
MAINTAINER "Tom Harrop"
VERSION "Sniffles f958698"
%environment
export PATH="${PATH}:/sniffles/bin/sniffles-core-1.0.12"
export LC_ALL=C
%runscript
exec /sniffles/bin/sniffles-core-1.0.12/sniffles "$@"
%post
export DEBIAN_FRONTEND=noninteractive
export LC_ALL=C
# reset apt
apt-get clean
rm -r /var/lib/apt/lists/*
(
. /etc/os-release
cat << _EOF_ > mirror.txt
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME} main restricted universe multiverse
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME}-updates main restricted universe multiverse
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME}-backports main restricted universe multiverse
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME}-security main restricted universe multiverse
_EOF_
mv /etc/apt/sources.list /etc/apt/sources.list.bak
cat mirror.txt /etc/apt/sources.list.bak > /etc/apt/sources.list
)
apt-get update
apt-get upgrade -y --fix-missing
# dependencies
apt-get install -y \
build-essential \
cmake \
git \
wget \
zlib1g-dev
#############################
# CHECK PATH ON NEW COMMITS #
#############################
# install Sniffles from git branch
git clone \
https://github.com/fritzsedlazeck/Sniffles \
/sniffles
(
cd /sniffles || exit 1
git checkout -f f958698
git submodule update --init --recursive
mkdir build
cd build || exit 1
cmake ..
make && make install
)
Collection
- Name: TomHarrop/variant-utils
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/TomHarrop-variant-utils-sniffles_f958698 |
collection name | TomHarrop/variant-utils |
branch | master |
tag | sniffles_f958698 |
commit | 56857e2f4b807c5aaad56ce621e214fb7e0e9f61 |
version (container hash) | 71a0c206aefdd1ebb6630eb08d8300c87e238794733cf83e5d62737c4906a927 |
build date | 2020-10-05T03:06:48.095Z |
size (MB) | 194.74609375 |
size (bytes) | 204206080 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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