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another issue i found is that cmopipeline/metafusion:0.0.6 will not execute with /bin/bash, and this is causing issues when running on AWS, which uses docker execution. to my knowledge this was not happening when running the pipeline on juno, where we used singularity execution. this can probably be fixed by adding ENTRYPOINT ["/bin/bash"] or ENTRYPOINT ["/bin/bash","-l","-c"] to the Dockerfile next time the container is built--but that needs to be tested first.
forte/modules/local/metafusion/container/Dockerfile
Line 12 in ea6d373
dockerfile points to non-mskcc github repo.
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