mirror of
https://github.com/MillironX/singularity-builds.git
synced 2024-11-22 01:46:04 +00:00
58 lines
1.2 KiB
Modula-2
58 lines
1.2 KiB
Modula-2
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Bootstrap: library
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From: default/alpine:3.14.0
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%post
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# Install java
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apk add --no-cache openjdk8 bash
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# Make versioning easier
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CLIQUE_VERSION=2.0.2
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cd /opt
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wget https://github.com/vtsyvina/CliqueSNV/archive/refs/tags/$CLIQUE_VERSION.tar.gz -O cliquesnv.tar.gz
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tar xvzf cliquesnv.tar.gz
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rm cliquesnv.tar.gz
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cd
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{
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echo "#!/bin/bash"
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echo "java -jar /opt/CliqueSNV-$CLIQUE_VERSION/clique-snv.jar \"\$@\""
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} > /usr/bin/clique-snv
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chmod +x /usr/bin/clique-snv
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%test
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test_command () {
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if ! command -v "${1}"; then
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echo "command ${1} not found!"
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export FAILED_TESTS=1
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fi
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}
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test_command bash
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test_command ps
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test_command java
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test_command clique-snv
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if [ -n "$FAILED_TESTS" ]; then
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exit 1
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fi
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%runscript
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clique-snv "$@"
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%labels
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Author 25492070+MillironX@users.noreply.github.com
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SoftwareVersion 2.0.2
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SingularityDefinitionVersion 1
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%help
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CliqueSNV
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=========
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CliqueSNV can identify minority haplotypes based on extracting pairs of
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statistically linked mutations from noisy reads.
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For more help, see
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- <https://github.com/vtsyvina/CliqueSNV>
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- <https://github.com/MillironX/singularity-builds>
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