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comparison kwip.xml @ 6:aaeba1765ceb draft

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planemo upload
author jowong
date Mon, 19 Nov 2018 09:35:55 -0500
parents cb9c0a5ebfa0
children 1850de9baad0
comparison
equal deleted inserted replaced
5:cb9c0a5ebfa0 6:aaeba1765ceb
1 <tool id="kwip" name="kwip" version="1.1.4"> 1 <tool id="kwip" name="kwip" version="1.1.5">
2 <description>Calculates CNV of genomic data based on template</description> 2 <description>Calculates CNV of genomic data based on template</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.2.0">kwip</requirement> 4 <requirement type="package" version="0.2.0">kwip</requirement>
5 </requirements> 5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
7 #for $input in $inputs# cp $input "$input".ct.gz && #end for# 7 #for $input in $inputs# cp $input "$input.element_identifier".ct.gz && #end for#
8 kwip 8 kwip
9 -t $advanced.thread 9 -t $advanced.thread
10 -k kwip.kernel 10 -k kwip.kernel
11 -d kwip.dist 11 -d kwip.dist
12 $advanced.unweighted 12 $advanced.unweighted
13 #if str( $advanced.calc ) == "True" 13 #if str( $advanced.calc ) == "True"
14 -w $advanced.weight -C 14 -w $advanced.weight -C
15 #end if 15 #end if
16 #for $input in $inputs# "$input".ct.gz #end for# 16 #for $input in $inputs# "$input.element_identifier".ct.gz #end for#
17 ]]></command> 17 ]]></command>
18 <inputs> 18 <inputs>
19 <param name="inputs" format="data" type="data_collection" label="inputs" help="Specify dataset with hashed reads"/> 19 <param name="inputs" format="data" type="data_collection" label="inputs" help="Specify dataset with hashed reads"/>
20 <section name="advanced" title="Advanced options" expanded="false"> 20 <section name="advanced" title="Advanced options" expanded="false">
21 <param type="boolean" argument="--unweighted" label="Unweighted Inner Product" checked="false" truevalue="--unweighted" falsevalue="" help="Use the unweighted inner proudct kernel. (default: False)"/> 21 <param type="boolean" argument="--unweighted" label="Unweighted Inner Product" checked="false" truevalue="--unweighted" falsevalue="" help="Use the unweighted inner proudct kernel. (default: False)"/>