Mercurial > repos > shellac > sam_consensus_v3
diff env/lib/python3.9/site-packages/cwltool/tests/wf/trick_revsort.cwl @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.9/site-packages/cwltool/tests/wf/trick_revsort.cwl Mon Mar 22 18:12:50 2021 +0000 @@ -0,0 +1,79 @@ +#!/usr/bin/env cwl-runner +# +# This is a two-step workflow which uses "revtool" and "sorttool" defined above. +# +class: Workflow +doc: "Reverse the lines in a document, then sort those lines." +cwlVersion: v1.0 + +# Requirements & hints specify prerequisites and extensions to the workflow. +# In this example, DockerRequirement specifies a default Docker container +# in which the command line tools will execute. +hints: + - class: DockerRequirement + dockerPull: debian:8 + + +# The inputs array defines the structure of the input object that describes +# the inputs to the workflow. +# +# The "reverse_sort" input parameter demonstrates the "default" field. If the +# field "reverse_sort" is not provided in the input object, the default value will +# be used. +inputs: + workflow_input: + type: File + doc: "The input file to be processed." + format: iana:text/plain + default: + class: File + location: hello.txt + reverse_sort: + type: boolean + default: true + doc: "If true, reverse (decending) sort" + name: + type: string + doc: "Here to test for a bug in --pack" + +# The "outputs" array defines the structure of the output object that describes +# the outputs of the workflow. +# +# Each output field must be connected to the output of one of the workflow +# steps using the "outputSource" field. Here, the parameter "sorted_output" of the +# workflow comes from the "sorted_output" output of the "sorted" step. +outputs: + sorted_output: + type: File + outputSource: sorted/sorted_output + doc: "The output with the lines reversed and sorted." + +# The "steps" array lists the executable steps that make up the workflow. +# The tool to execute each step is listed in the "run" field. +# +# In the first step, the "in" field of the step connects the upstream +# parameter "workflow_input" of the workflow to the input parameter of the tool +# "revtool_input" +# +# In the second step, the "in" field of the step connects the output +# parameter "revtool_output" from the first step to the input parameter of the +# tool "sorted_input". +steps: + rev: + in: + revtool_input: workflow_input + out: [revtool_output] + run: revtool.cwl + + sorted: + in: + sorted_input: rev/revtool_output + reverse: reverse_sort + out: [sorted_output] + run: sorttool.cwl + +$namespaces: + iana: https://www.iana.org/assignments/media-types/ + +$schemas: + - empty2.ttl