Mercurial > repos > goeckslab > vitessce_spatial
comparison vitessce_spatial.xml @ 5:97be83fc3677 draft default tip
planemo upload for repository https://github.com/goeckslab/tools-mti/tree/main/tools/vitessce commit 90f081e58b5ee41bba3a7e6f01d97b5bd9392759
| author | goeckslab |
|---|---|
| date | Wed, 28 May 2025 21:14:59 +0000 |
| parents | 068da7f7cd83 |
| children |
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| 4:068da7f7cd83 | 5:97be83fc3677 |
|---|---|
| 14 <version_command>echo "@TOOL_VERSION@"</version_command> | 14 <version_command>echo "@TOOL_VERSION@"</version_command> |
| 15 <expand macro="vitessce_cmd" /> | 15 <expand macro="vitessce_cmd" /> |
| 16 | 16 |
| 17 <configfiles> | 17 <configfiles> |
| 18 <inputs name="inputs" /> | 18 <inputs name="inputs" /> |
| 19 <configfile name="galaxy_config"> | |
| 20 <![CDATA[ | |
| 21 { | |
| 22 "galaxy_url": "${__app__.config.galaxy_infrastructure_url}", | |
| 23 "dataset_id": "${__app__.security.encode_id($output.dataset.id)}" | |
| 24 } | |
| 25 ]]> | |
| 26 </configfile> | |
| 19 </configfiles> | 27 </configfiles> |
| 20 | 28 |
| 21 <inputs> | 29 <inputs> |
| 22 <param name="image" type="data" format="ome.tiff" label="Select the OME Tiff image" /> | 30 <param name="image" type="data" format="ome.tiff" label="Select the OME Tiff image" /> |
| 23 <param name="masks" type="data" format="tiff,ome.tiff" optional="true" label="Select masks for the OME Tiff image (Optional)" /> | 31 <param name="masks" type="data" format="tiff,ome.tiff" optional="true" label="Select masks for the OME Tiff image (Optional)" /> |
| 86 </when> | 94 </when> |
| 87 </conditional> | 95 </conditional> |
| 88 </inputs> | 96 </inputs> |
| 89 <outputs> | 97 <outputs> |
| 90 <data format="html" name="output" /> | 98 <data format="html" name="output" /> |
| 91 <data format="json" name="vitessce_config" from_work_dir="config.json" hidden="true" label="Vitessce config file on ${on_string}" /> | 99 <data format="json" |
| 100 name="vitessce_config" | |
| 101 from_work_dir="config.json" | |
| 102 hidden="true" | |
| 103 label="Vitessce config file on ${on_string}"> | |
| 104 </data> | |
| 92 </outputs> | 105 </outputs> |
| 93 <tests> | 106 <tests> |
| 94 <test> | 107 <test> |
| 95 <param name="image" value="vitessce_image.ome.tiff" ftype="ome.tiff" /> | 108 <param name="image" value="vitessce_image.ome.tiff" ftype="ome.tiff" /> |
| 96 <conditional name="do_phenotyping"> | 109 <conditional name="do_phenotyping"> |