Mercurial > repos > iuc > baredsc_1d
diff baredsc_1d.xml @ 1:4fff5a293013 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/baredsc commit 576069ce2296ef58daa8a4e03c993d5900608c4c
| author | iuc |
|---|---|
| date | Mon, 16 Oct 2023 14:01:08 +0000 |
| parents | 02b1fe7aed76 |
| children |
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--- a/baredsc_1d.xml Mon Oct 02 13:24:52 2023 +0000 +++ b/baredsc_1d.xml Mon Oct 16 14:01:08 2023 +0000 @@ -58,27 +58,27 @@ </section> </inputs> <outputs> - <data format="npz" name="output" label="${tool.name} on $getVar('input_counts.input', 'input_counts.inputAnnData') for ${geneColName}: Numpy archive" from_work_dir="output.npz"/> - <data format="txt" name="neff" label="${tool.name} on $getVar('input_counts.input', 'input_counts.inputAnnData') for ${geneColName}: Neff" from_work_dir="output/baredSC_neff.txt"/> - <collection type="list" name="qc_plots" label="${tool.name} on $getVar('input_counts.input', 'input_counts.inputAnnData') for ${geneColName}: QC plots"> + <data format="npz" name="output" label="${tool.name} on $getVar('input_counts.input', $getVar('input_counts.inputAnnData', 'shouldNeverHappen')).element_identifier for ${geneColName}: Numpy archive" from_work_dir="output.npz"/> + <data format="txt" name="neff" label="${tool.name} on $getVar('input_counts.input', $getVar('input_counts.inputAnnData', 'shouldNeverHappen')).element_identifier for ${geneColName}: Neff" from_work_dir="output/baredSC_neff.txt"/> + <collection type="list" name="qc_plots" label="${tool.name} on $getVar('input_counts.input', $getVar('input_counts.inputAnnData', 'shouldNeverHappen')).element_identifier for ${geneColName}: QC plots"> <discover_datasets pattern="baredSC_(?P<identifier_0>\S+)\.(?P<ext>.*)" directory="QC"/> </collection> - <data format="tabular" name="pdf" label="${tool.name} on $getVar('input_counts.input', 'input_counts.inputAnnData') for ${geneColName}: PDF with error bar" from_work_dir="output/baredSC_pdf.txt"> + <data format="tabular" name="pdf" label="${tool.name} on $getVar('input_counts.input', $getVar('input_counts.inputAnnData', 'shouldNeverHappen')).element_identifier for ${geneColName}: PDF with error bar" from_work_dir="output/baredSC_pdf.txt"> <actions> <action name="column_names" type="metadata" default="x,low,mean,high,median" /> </actions> </data> - <data format="png" name="plot" label="${tool.name} on $getVar('input_counts.input', 'input_counts.inputAnnData') for ${geneColName}: plot" from_work_dir="baredSC"> + <data format="png" name="plot" label="${tool.name} on $getVar('input_counts.input', $getVar('input_counts.inputAnnData', 'shouldNeverHappen')).element_identifier for ${geneColName}: plot" from_work_dir="baredSC"> <change_format> <when input="plots.image_file_format" value="png" format="png" /> <when input="plots.image_file_format" value="svg" format="svg" /> <when input="plots.image_file_format" value="pdf" format="pdf" /> </change_format> </data> - <collection type="list" name="other_outputs" label="${tool.name} on $getVar('input_counts.input', 'input_counts.inputAnnData') for ${geneColName}: plots and txt"> + <collection type="list" name="other_outputs" label="${tool.name} on $getVar('input_counts.input', $getVar('input_counts.inputAnnData', 'shouldNeverHappen')).element_identifier for ${geneColName}: plots and txt"> <discover_datasets pattern="baredSC_(?P<identifier_0>\S+)\.(?P<ext>.*)"/> </collection> - <data format="txt" name="logevidence" label="${tool.name} on $getVar('input_counts.input', 'input_counts.inputAnnData') for ${geneColName}: Log evidence" from_work_dir="logevidence.txt"/> + <data format="txt" name="logevidence" label="${tool.name} on $getVar('input_counts.input', $getVar('input_counts.inputAnnData', 'shouldNeverHappen')).element_identifier for ${geneColName}: Log evidence" from_work_dir="logevidence.txt"/> </outputs> <tests> <!-- First test -->