Mercurial > repos > timpalpant > java_genomics_toolkit

comparison galaxy-conf/DNAPropertyCalculator.xml @ 15:3e477c7e0e73 draft

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Update normalization tools to allow normalizing by chromosome (Z-scorer, scale, etc.) Add new tool to convert any interval file to Bed format. Miscellaneous bug fixes.
author timpalpant
date Sat, 09 Jun 2012 16:03:59 -0400
parents eb53be9a09f4
children
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14:f58706d4d421 15:3e477c7e0e73
1 <tool id="DNAPropertyCalculator" name="Calculate sequence-specific DNA properties" version="1.0.0"> 1 <tool id="DNAPropertyCalculator" name="Calculate sequence-specific DNA properties" version="2.0.0">
2 <description>for a genome</description> 2 <description>for a genome</description>
3 <command interpreter="sh">galaxyToolRunner.sh dna.DNAPropertyCalculator -i 3 <command interpreter="sh">galaxyToolRunner.sh dna.DNAPropertyCalculator -i
4 #if $refGenomeSource.genomeSource == "history": 4 #if $refGenomeSource.genomeSource == "history":
5 $refGenomeSource.ownFile 5 $refGenomeSource.ownFile
6 #else 6 #else
83 83
84 <tests> 84 <tests>
85 <test> 85 <test>
86 <param name="genomeSource" value="history"/> 86 <param name="genomeSource" value="history"/>
87 <param name="ownFile" value="test.fasta"/> 87 <param name="ownFile" value="test.fasta"/>
88 <param name="property" value="Twist"/>
88 <param name="N" value="false"/> 89 <param name="N" value="false"/>
89 <output name="output" file="twist.wig"/> 90 <output name="output" file="twist.wig"/>
90 </test> 91 </test>
91 <test> 92 <test>
92 <param name="genomeSource" value="history"/> 93 <param name="genomeSource" value="history"/>
93 <param name="ownFile" value="test.fasta"/> 94 <param name="ownFile" value="test.fasta"/>
95 <param name="property" value="Twist"/>
94 <param name="N" value="true"/> 96 <param name="N" value="true"/>
95 <output name="output" file="twist.normalized.wig"/> 97 <output name="output" file="twist.normalized.wig"/>
96 </test> 98 </test>
97 </tests> 99 </tests>
98 100