Mercurial > repos > iuc > biotradis

comparison tradis_essentiality.xml @ 2:103bd59b3e33 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/biotradis commit 6a29aaead9d6b0f69ef70113df58047877fc6ce5"
author iuc
date Wed, 04 Nov 2020 15:32:47 +0000
parents 58234d95978d
children 8e4a4f240961
comparison
equal deleted inserted replaced
1:58234d95978d 2:103bd59b3e33
2 <description></description> 2 <description></description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <command> 7 <command detect_errors="aggressive">
8 <![CDATA[ 8 <![CDATA[
9 ln -s '$input_insert_file' input.csv && 9 ln -s '$input_insert_file' input.csv &&
10 tradis_essentiality.R input.csv 10 tradis_essentiality.R input.csv
11 ]]> 11 ]]>
12 </command> 12 </command>
13
14 <inputs> 13 <inputs>
15 <param name="input_insert_file" type="data" format="csv" label="Gene insertion counts" help="Ourput file of `Bio-TraDis counts to gene insertion data` tool"/> 14 <param name="input_insert_file" type="data" format="csv" label="Gene insertion counts" help="Ourput file of `Bio-TraDis counts to gene insertion data` tool"/>
16 </inputs> 15 </inputs>
17
18 <outputs> 16 <outputs>
19 17 <data name="ess_genes" format="csv" label="${tool.name} on ${on_string}: Essential genes" from_work_dir="input.csv.essen.csv"/>
20 <data name="ess_genes" format="csv" label="${tool.name} on ${on_string} : Essential genes" from_work_dir="input.csv.essen.csv"/> 18 <data name="ambig_genes" format="csv" label="${tool.name} on ${on_string}: Unclassified genes" from_work_dir="input.csv.ambig.csv"/>
21 <data name="ambig_genes" format="csv" label="${tool.name} on ${on_string} : Unclassified genes" from_work_dir="input.csv.ambig.csv"/> 19 <data name="all_genes" format="csv" label="${tool.name} on ${on_string}: All genes" from_work_dir="input.csv.all.csv"/>
22 <data name="all_genes" format="csv" label="${tool.name} on ${on_string} : All genes" from_work_dir="input.csv.all.csv"/> 20 <data name="qc_results" format="pdf" label="${tool.name} on ${on_string}: QC report" from_work_dir="input.csv.QC_and_changepoint_plots.pdf"/>
23 <data name="qc_results" format="pdf" label="${tool.name} on ${on_string} : QC report" from_work_dir="input.csv.QC_and_changepoint_plots.pdf"/>
24 </outputs> 21 </outputs>
25
26 <tests> 22 <tests>
27 <test> 23 <test>
28 <param name="input_insert_file" ftype="csv" value="test.csv"/> 24 <param name="input_insert_file" ftype="csv" value="test.csv"/>
29 <output name="ess_genes" file="test.csv.essen.csv" compare="sim_size" delta="200" /> 25 <output name="ess_genes" file="test.csv.essen.csv" compare="sim_size" delta="200" />
30 <output name="ambig_genes" file="test.csv.ambig.csv" compare="sim_size" delta="200" /> 26 <output name="ambig_genes" file="test.csv.ambig.csv" compare="sim_size" delta="200" />