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comparison spring_roc.xml @ 30:b0e195a47df7 draft

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"planemo upload commit b306c715d8284c097220bc5c8461399fdc05eac7"
author guerler
date Tue, 24 Nov 2020 14:02:08 +0000
parents 41353488926c
children 3071750405c9
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29:41353488926c 30:b0e195a47df7
1 <tool id="spring_roc" name="SPRING ROC" version="0.1.0" python_template_version="3.5"> 1 <tool id="spring_roc" name="SPRING ROC" version="0.1.0" python_template_version="3.5" license="MIT">
2 <description>plot generator</description> 2 <description>plot generator</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="3.3.3">matplotlib</requirement> 4 <requirement type="package" version="3.3.3">matplotlib</requirement>
5 </requirements> 5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
7 python3 '$__tool_directory__/spring_roc.py' -i '$input' -b '$database' -e '$experiment.type' -m '$experiment.method' -t '$throughput' -o '$rocplot' 7 python3 '$__tool_directory__/spring_roc.py' -i '$input' -b '$database' -e '$experiment.type' -m '$experiment.method' -t '$throughput' -l '$locations' -o '$rocplot'
8 ]]></command> 8 ]]></command>
9 <inputs> 9 <inputs>
10 <param format="tabular" name="input" type="data" label="Interactions" help="Prediction Input Table with 2-columns containing UniProt Accession codes."/> 10 <param format="tabular" name="input" type="data" label="Interactions" help="Prediction Input Table with 2-columns containing UniProt Accession codes."/>
11 <param format="tabular" name="database" type="data" label="BioGRID Database" help="BioGRID Database in TAB 3.0 format."/> 11 <param format="tabular" name="database" type="data" label="BioGRID Database" help="BioGRID Database in TAB 3.0 format."/>
12 <param format="tabular" name="locations" type="data" label="UniProt Localization" help="UniProt tabular export with localization column to sample non-interacting pairs." optional="True" />
12 <conditional name="experiment"> 13 <conditional name="experiment">
13 <param name="type" type="select" label="Experimental Type" display="radio" help="Choose a specific experimental system type."> 14 <param name="type" type="select" label="Experimental Type" display="radio" help="Choose a specific experimental system type.">
14 <option value="">Any</option> 15 <option value="">Any</option>
15 <option value="physical">Physical</option> 16 <option value="physical">Physical</option>
16 <option value="genetic">Genetic</option> 17 <option value="genetic">Genetic</option>
56 </outputs> 57 </outputs>
57 <tests> 58 <tests>
58 <test> 59 <test>
59 <param format="tabular" name="input" value="roc/human_hv1h2.txt" /> 60 <param format="tabular" name="input" value="roc/human_hv1h2.txt" />
60 <param format="tabular" name="database" value="roc/biogrid_fret.txt" /> 61 <param format="tabular" name="database" value="roc/biogrid_fret.txt" />
61 <conditional name="experiment">
62 <param name="type" value="physical" />
63 <param name="method" value="Two-hybrid" />
64 </conditional>
65 <output name="output" file="roc/human_hv1h2.png" /> 62 <output name="output" file="roc/human_hv1h2.png" />
66 </test> 63 </test>
67 </tests> 64 </tests>
68 <help><![CDATA[ 65 <help><![CDATA[
69 This tool generates a ROC plot for a given 2-column tabular prediction file containing UniProt Accession codes. The prediction is compared 66 This tool generates a ROC plot for a given 2-column tabular prediction file containing UniProt Accession codes. The prediction is compared