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rabix
[Legacy] Executor for CWL workflows. Executes sbg:draft-2 and CWL 1.0
I would like to begin building models of resource requirements for workflow steps. To do that, I'll need to know input file size for each step, and the runtime metrics...
If i run a workflow with relative path references just by typing `rabix app.cwl inputs.json` I get the message `app.cwl is not a valid app!` most likely because relative references...
Hey team Rabix, For the CWL CI we configure running Rabix in two places: the overall conformance tests at https://ci.commonwl.org/job/rabix-conformance/ and the PR tester for the CWL specs themselves at...
Input expression is defined like this(ignore the '#'): ``` input_files: type: - File # - type: array # items: File # inputBinding: # prefix: -in inputBinding: position: 2 valueFrom: |...
Related: common-workflow-language/common-workflow-language/issues/210 Relevant discussion: common-workflow-language/common-workflow-language/issues/476
Boolean input is defined like this: trigger: type: boolean? default: true Its value is included in command-line via argument: - valueFrom: $(inputs.trigger) position: 6 Bunny execution first fails because there...
CWL V1 tool has a string input, that is by default a python script. This python script does not include indents when executed. [python-get-stat.cwl.zip](https://github.com/rabix/bunny/files/1109491/python-get-stat.cwl.zip)
`git clone https://github.com/jeremiahsavage/cwl_aws_cp.git` with cwltool: ``` (cwl) [jeremiah@localhost ~]$ cwltool cwl_aws_cp/aws_s3_get.cwl cwl_aws_cp/aws_s3_get.yml /home/jeremiah/.virtualenvs/cwl/bin/cwltool 1.0.20170413194156 Resolved 'cwl_aws_cp/aws_s3_get.cwl' to 'file:///home/jeremiah/cwl_aws_cp/aws_s3_get.cwl' [job aws_s3_get.cwl] /tmp/tmpXzacA9$ docker \ run \ -i \ --volume=/home/jeremiah/cwl_aws_cp/aws/config:/var/lib/cwl/stg7baa7395-1376-41a8-bfdc-ac1e41765685/config:ro \ --volume=/home/jeremiah/cwl_aws_cp/aws/credentials:/var/lib/cwl/stgb922b629-4142-439a-93ec-daa3f6bdc669/credentials:ro...