mirror of
https://github.com/MillironX/singularity-builds.git
synced 2024-11-24 18:39:54 +00:00
63 lines
1.5 KiB
Modula-2
63 lines
1.5 KiB
Modula-2
Bootstrap: library
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From: default/debian:buster
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%post
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# Declare version variable
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export SNIFFLES_VERSION='1.0.12'
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export SNIFFLES_TAG="v${SNIFFLES_VERSION}b"
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# Install dependencies
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apt-get update
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apt-get install -y --no-install-recommends \
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git cmake make gcc g++ libghc-zlib-dev bash procps build-essential
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# Get Sniffles
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cd /opt || exit 1
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git config --global http.sslverify false
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git clone https://github.com/fritzsedlazeck/Sniffles.git
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cd Sniffles || exit 1
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git checkout $SNIFFLES_TAG
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# Build Sniffles
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mkdir build && cd build || exit 1
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cmake .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=/usr/local
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make
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# Install Sniffles
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cd ../bin/sniffles-core-$SNIFFLES_VERSION || exit 1
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install -D -m 0755 sniffles -t /usr/local/bin
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install -D -m 0755 sniffles-debug -t /usr/local/bin
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# Cleanup repo
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cd ../.. || exit 1
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rm -rf Sniffles
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# Cleanup packages
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rm -rf /var/lib/apt/lists/*
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%test
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command -v bash
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command -v ps
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command -v sniffles
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command -v sniffles-debug
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%runscript
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sniffles "$@"
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%labels
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Author 25492070+MillironX@users.noreply.github.com
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SoftwareVersion v1.0.12b
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SingularityDefinitionVersion 3
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%help
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Sniffles
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========
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Sniffles is a structural variation caller using third generation sequencing
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(PacBio or Oxford Nanopore). It detects all types of SVs (10bp+) using
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evidence from split-read alignments, high-mismatch regions, and coverage
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analysis.
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For more help, see
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- <https://github.com/fritzsedlazeck/Sniffles>
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- <https://github.com/MillironX/singularity-builds>
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