mirror of
https://github.com/MillironX/nf-core_modules.git
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e2ba70ed9a
* feat(cellranger): Add initial count module Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com> * feat(cellranger): Add mkgtf module * test(cellranger): Fix count test with mkgtf * fix(cellranger): Generalize gtf attribute filters * chore: Add .gitignore for cellranger tar * build(cellranger): Update dockerfile https://joshtronic.com/2021/09/12/fixed-repository-debian-security-buster-updates-changed-suite-from-stable-to-oldstable/ * Apply suggestions from code review Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com> * Apply suggestions from code review Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update modules/cellranger/mkgtf/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * style: Capitalize README * test(cellranger): Update pytest_modules * feat(cellranger): Add initial mkfastq module * ci: Update pytest modules * refactor(cellranger): Update modules to new syntax * docs(cellranger): Update meta files There is some terrible copy-pasting going on. * fix(cellranger): Add args Co-authored-by: Gisela Gabernet <gisela.gabernet@gmail.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
21 lines
829 B
Docker
21 lines
829 B
Docker
FROM continuumio/miniconda3:4.8.2
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LABEL authors="Gisela Gabernet <gisela.gabernet@gmail.com>" \
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description="Docker image containing Cell Ranger"
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# Disclaimer: this container is not provided nor supported by 10x Genomics.
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# Install procps and clean apt cache
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RUN apt-get update --allow-releaseinfo-change \
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&& apt-get install -y procps \
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&& apt-get clean -y && rm -rf /var/lib/apt/lists/*
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# Copy pre-downloaded cellranger file
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ENV CELLRANGER_VER 6.0.2
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COPY cellranger-$CELLRANGER_VER.tar.gz /opt/cellranger-$CELLRANGER_VER.tar.gz
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# Install cellranger
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RUN \
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cd /opt && \
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tar -xzvf cellranger-$CELLRANGER_VER.tar.gz && \
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export PATH=/opt/cellranger-$CELLRANGER_VER:$PATH && \
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ln -s /opt/cellranger-$CELLRANGER_VER/cellranger /usr/bin/cellranger && \
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rm -rf /opt/cellranger-$CELLRANGER_VER.tar.gz
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