comparison scmap_scmap_cluster.xml @ 0:5421e01f640a draft

"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 815e36252846236124957052433572f1c1247114"
author ebi-gxa
date Mon, 16 Sep 2019 09:58:40 -0400
parents
children 97922339644a
comparison
equal deleted inserted replaced
-1:000000000000 0:5421e01f640a
1 <tool id="scmap_scmap_cluster" name="scmap cluster projection" version="@TOOL_VERSION@+galaxy0" python_template_version="3.5">
2 <description>projects one dataset to another</description>
3 <macros>
4 <import>scmap_macros.xml</import>
5 </macros>
6 <expand macro="requirements" />
7 <command detect_errors="exit_code"><![CDATA[
8 scmap-scmap-cluster.R --index-object-file '$index_single_cell_experiment' --projection-object-file '$project_single_cell_experiment' --threshold '$threshold' --output-object-file '$output_single_cell_experiment' --output-text-file '$output_txt'
9 ]]></command>
10 <inputs>
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'" />
13 <param name="threshold" type="float" label="Threshold" value="0.7" help="Threshold on similarity (or probability for SVM and RF)." />
14 </inputs>
15 <outputs>
16 <data name="output_single_cell_experiment" format="rdata" />
17 <data name="output_txt" format="csv" />
18 </outputs>
19 <tests>
20 <test>
21 <param name="index_single_cell_experiment" value="index_cluster.rds" ftype="rdata"/>
22 <param name="project_single_cell_experiment" value="test_sce.rds" ftype="rdata"/>
23 <output name="output_single_cell_experiment" file="project_cluster.rds"/>
24 <output name="output_txt" file="project_cluster.csv"/>
25 </test>
26 </tests>
27 <help><![CDATA[
28 @HELP@
29
30 @VERSION_HISTORY@
31 ]]></help>
32 <expand macro="citations" />
33 </tool>