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https://github.com/MillironX/nf-core_modules.git
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e0d820f9f4
* feat: add snpeff * fix: linting * fix: tests * fix: add csv output * fix: add params information * fix: improve script * Update software/snpeff/environment.yml * Update software/snpeff/environment.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Apply suggestions from code review * fix test Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
24 lines
578 B
Bash
Executable file
24 lines
578 B
Bash
Executable file
#!/usr/bin/env bash
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set -euo pipefail
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# Build and push all containers
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build_push() {
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GENOME=$1
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SNPEFF_CACHE_VERSION=$2
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SNPEFF_TAG=$3
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docker build \
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-t nfcore/snpeff:${SNPEFF_TAG}.${GENOME} \
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software/snpeff/. \
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--build-arg GENOME=${GENOME} \
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--build-arg SNPEFF_CACHE_VERSION=${SNPEFF_CACHE_VERSION}
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docker push nfcore/snpeff:${SNPEFF_TAG}.${GENOME}
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}
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build_push "GRCh37" "75" "5.0"
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build_push "GRCh38" "99" "5.0"
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build_push "GRCm38" "99" "5.0"
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build_push "CanFam3.1" "99" "5.0"
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build_push "WBcel235" "99" "5.0"
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