Create install script #19
Workflow file for this run
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| name: DevTesting | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - dev | |
| pull_request: | |
| branches: | |
| - master | |
| - dev | |
| jobs: | |
| deploy: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/[email protected] | |
| - uses: docker://snakemake/snakemake:v7.19.1 | |
| with: | |
| directory: '.test' | |
| - name: dryrun | |
| run: | | |
| bash ./install.sh carlisle-dev | |
| echo $PATH | |
| cd .test | |
| mkdir annotation | |
| for f in hg38.fa genes.gtf hg38.bed hg38.tss.bed hg38_refseq.ucsc Ecoli_GCF_000005845.2_ASM584v2_genomic.fna adapters.fa | |
| do | |
| touch annotation/$f | |
| done | |
| which carlisle | |
| carlisle --runmode=init --workdir=./ | |
| docker run -v $PWD:/opt2 snakemake/snakemake:v7.19.1 /bin/bash -c \ | |
| carlisle --runmode=dryrun --workdir=./ --configfile config_lint.yaml |