build Docker container locally (51315873) · Commits · github_fork / Universc

Dockerfile

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		@@ -20,11 +20,20 @@ RUN apt-get install -y \
		RUN git clone "https://github.com/TomKellyGenetics/universc.git"

		RUN cd universc/test/cellranger_reference/cellranger-tiny-ref/ \
		&& git lfs pull \
		# && git lfs pull \
		&& rm -rf 3.0.0 1.2.0 \
		&& cellranger mkref --genome=3.0.0 --fasta=genome-3.0.0.fa --genes=genes-3.0.0.gtf \
		&& cellranger mkref --genome=1.2.0 --fasta=genome-1.2.0.fa --genes=genes-1.2.0.gtf

		COPY .version universc/.version
		COPY CHANGELOG universc/CHANGELOG
		COPY README.Rmd universc/README.Rmd
		COPY README.md universc/README.md
		COPY README.html universc/README.html
		COPY inst/CITATION universc/inst/CITATION
		COPY launch_universc.sh universc/launch_universc.sh
		COPY sub/FilterSmartSeqReadUMI.pl universc/sub/FilterSmartSeqReadUMI.pl

		RUN cd universc \
		&& make reference \
		&& cd ..

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		version=1.1.3
		sed -i "s/1.1.2/1.1.3/g" md html sh .version man/sh inst/*
		sed -i "s/1.1.2/1.1.3/g" md html launch_universc.sh .version man/sh inst/
		R -e "knitr::knit('README.Rmd')"; pandoc -f markdown -t html README.md > README.html
		echo "building version $version"
		docker build -t universc:1.1.3 .

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		version=1.1.3
		sed -i "s/1.1.2/1.1.3/g" md html sh .version man/sh inst/*
		sed -i "s/1.1.2/1.1.3/g" md html launch_universc.sh .version man/sh inst/
		R -e "knitr::knit('README.Rmd')"; pandoc -f markdown -t html README.md > README.html
		echo "building version $version"
		podman build -t universc:1.1.3 .