Mercurial > repos > ebi-gxa > scmap_scmap_cluster

comparison scmap_scmap_cluster.xml @ 10:0a1dabbae5fa draft

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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 8350493268ce3ced12b1133b9b0f734a288deb75
author ebi-gxa
date Tue, 23 Apr 2024 07:48:14 +0000
parents a0da1d3155dd
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9:a0da1d3155dd 10:0a1dabbae5fa
11 <param type="data" name="index_single_cell_experiment" label="Index SingleCellExperiment object" format="rdata" help="File with serialized SingleCellExperiment object as produced by 'scmap select features' and 'scmap index clusters', onto which another dataset will be projected." /> 11 <param type="data" name="index_single_cell_experiment" label="Index SingleCellExperiment object" format="rdata" help="File with serialized SingleCellExperiment object as produced by 'scmap select features' and 'scmap index clusters', onto which another dataset will be projected." />
12 <param type="data" name="project_single_cell_experiment" label="SingleCellExperiment object to project" format="rdata" help="File with serialized SingleCellExperiment object to project onto the index'" /> 12 <param type="data" name="project_single_cell_experiment" label="SingleCellExperiment object to project" format="rdata" help="File with serialized SingleCellExperiment object to project onto the index'" />
13 <param name="threshold" type="float" label="Threshold" value="0.7" help="Threshold on similarity (or probability for SVM and RF)." /> 13 <param name="threshold" type="float" label="Threshold" value="0.7" help="Threshold on similarity (or probability for SVM and RF)." />
14 </inputs> 14 </inputs>
15 <outputs> 15 <outputs>
16 <data name="output_single_cell_experiment" format="rdata" /> 16 <data name="output_single_cell_experiment" format="rdata" label="${tool.name} on ${on_string}: RDS object"/>
17 <data name="output_txt" format="tabular" /> 17 <data name="output_txt" format="tabular" label="${tool.name} on ${on_string}: table"/>
18 </outputs> 18 </outputs>
19 <tests> 19 <tests>
20 <test> 20 <test>
21 <param name="index_single_cell_experiment" value="index_cluster.rds" ftype="rdata"/> 21 <param name="index_single_cell_experiment" value="index_cluster.rds" ftype="rdata"/>
22 <param name="project_single_cell_experiment" value="test_sce_processed.rds" ftype="rdata"/> 22 <param name="project_single_cell_experiment" value="test_sce_processed.rds" ftype="rdata"/>
23 <output name="output_single_cell_experiment" file="project_cluster.rds" compare="sim_size"/> 23 <output name="output_single_cell_experiment">
24 <output name="output_txt" file="project_cluster.tsv" compare="sim_size"/> 24 <assert_contents>
25 <has_size value="6100k" delta="500k"/>
26 </assert_contents>
27 </output>
28 <output name="output_txt">
29 <assert_contents>
30 <has_n_lines n="91"/>
31 <has_text text="zygote"/>
32 </assert_contents>
33 </output>
25 </test> 34 </test>
26 </tests> 35 </tests>
27 <help><![CDATA[ 36 <help><![CDATA[
28 @HELP@ 37 @HELP@
29 38