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Uses a multi-stage build to get all the dependencies in order.
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This adds a Dockerfile to create a hotspot2 docker container.
Usage
Where the current directory has:
./data/chr20.chrom_sizes.bed./data/chr20.bamand will create:
./data/chr20.chrom_sizes.center.starch./data/out_chr20/chr20.allcalls.starch./data/out_chr20/chr20.cleavage.total./data/out_chr20/chr20.cutcounts.starch./data/out_chr20/chr20.density.bw./data/out_chr20/chr20.density.starch./data/out_chr20/chr20.fragments.sorted.starch./data/out_chr20/chr20.hotspots.fdr0.05.starch./data/out_chr20/chr20.peaks.narrowpeaks.starch./data/out_chr20/chr20.peaks.starch./data/out_chr20/chr20.SPOT.txtDocker trivia
.dockerignoreis a file much like.gitignore- files matching these patterns are not sent as context to the docker daemon.this
Dockerfileuses a multi-stage build approach. This builds several small sub-images (modwt-build,samtools-build, etc), to compile the code necessary. The final stage copies only the necessary tools out of the previous stages, resulting in a lean image size of 75MB.