Mercurial > repos > stevecassidy > alveoimport

annotate alveo_api_key.cwl @ 14:a38315ecf593 draft

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planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
author stevecassidy
date Wed, 01 Nov 2017 01:18:15 -0400
parents 56fda3d161f0
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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6
56fda3d161f0 planemo upload commit 0203cb3a0b40d9348674b2b098af805e2986abca-dirty
stevecassidy
parents:
diff changeset
1 #!/usr/bin/env cwl-runner
14
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
2 arguments:
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
3 - valueFrom:
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
4 engine: '#galaxy_command_line'
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
5 script: |-
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
6 python
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
7 alveo_api_key.py --api_key "$api_key" --output_path $output
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
8 baseCommand: [/bin/sh, -c]
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56fda3d161f0 planemo upload commit 0203cb3a0b40d9348674b2b098af805e2986abca-dirty
stevecassidy
parents:
diff changeset
9 class: CommandLineTool
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a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
10 inputs:
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
11 - {default: '', id: '#api_key', label: API Key, type: string}
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
12 - {default: output, id: '#output', type: string}
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
13 label: Store Alveo API Key
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
14 outputs:
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
15 - id: '#output_out'
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
16 outputBinding: {glob: output}
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
17 type: File
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
18 requirements:
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
19 - {class: ExpressionEngineRequirement, engineCommand: ./galaxy-command-line.py, id: '#galaxy_command_line'}
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
20 - {class: ExpressionEngineRequirement, engineCommand: ./galaxy-template.py, id: '#galaxy_template'}
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
21 - class: EnvVarRequirement
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
22 envDef:
a38315ecf593 planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit b5b26e9118f2ad8af109d606746b39a5588f0511-dirty
stevecassidy
parents: 6
diff changeset
23 - {envName: GALAXY_SLOTS, envValue: ''}