Mercurial > repos > rmarenco > hubarchivecreator

comparison hubArchiveCreator.xml @ 11:d05236b15f81 draft

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planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit 3760d0c8353b924ecf994131a5c2eb381aa81fb2
author rmarenco
date Wed, 27 Jul 2016 10:10:49 -0400
parents acc233161f50
children 25809f699cb3
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10:acc233161f50 11:d05236b15f81
1 <tool id="hubArchiveCreator" name="Hub Archive Creator" version="2.0.2"> 1 <tool id="hubArchiveCreator" name="Hub Archive Creator" version="2.3.0">
2 <description> 2 <description>
3 This Galaxy tool permits to prepare your files to be ready for 3 This Galaxy tool permits to prepare your files to be ready for
4 Assembly Hub visualization. 4 Assembly Hub visualization.
5 </description> 5 </description>
6 6
9 <requirement type="package" version="0.0.1">gff3ToGenePred</requirement> 9 <requirement type="package" version="0.0.1">gff3ToGenePred</requirement>
10 <requirement type="package" version="0.0.1">gtfToGenePred</requirement> 10 <requirement type="package" version="0.0.1">gtfToGenePred</requirement>
11 <requirement type="package" version="0.0.1">genePredToBed</requirement> 11 <requirement type="package" version="0.0.1">genePredToBed</requirement>
12 <requirement type="package" version="1.2">samtools</requirement> 12 <requirement type="package" version="1.2">samtools</requirement>
13 <!-- Conda dependencies --> 13 <!-- Conda dependencies -->
14 <requirement type="package" version="332">ucsc-bedtobigbed</requirement>
15 <requirement type="package" version="332">ucsc-fatotwobit</requirement>
16 <requirement type="package" version="324">ucsc-genepredtobed</requirement>
14 <requirement type="package" version="324">ucsc-gff3togenepred</requirement> 17 <requirement type="package" version="324">ucsc-gff3togenepred</requirement>
15 <requirement type="package" version="324">ucsc-gtftogenepred</requirement> 18 <requirement type="package" version="324">ucsc-gtftogenepred</requirement>
16 <requirement type="package" version="324">ucsc-genepredtobed</requirement> 19 <requirement type="package" version="324">ucsc-twobitinfo</requirement>
17 <requirement type="package" version="1.3.1">samtools</requirement> 20 <requirement type="package" version="1.3.1">samtools</requirement>
18 </requirements> 21 </requirements>
19 22
20 <stdio> 23 <stdio>
21 <regex match="^pass1" 24 <regex match="^pass1"
156 /> 159 />
157 </when> 160 </when>
158 <when value="bed"> 161 <when value="bed">
159 <conditional name="bedChoice"> 162 <conditional name="bedChoice">
160 <param name="bed_select" type="select" label="Bed Choice"> 163 <param name="bed_select" type="select" label="Bed Choice">
161 <option value="bed" selected="true">Generic BED</option> 164 <option value="bed" selected="true">BED Generic (bed3+)</option>
162 <option value="bed_simple_repeats_option">BED simple repeats</option> 165 <option value="bed_simple_repeats_option">BED Simple repeat (bed4+12 / simpleRepeat.as)</option>
163 </param> 166 </param>
164 <when value="bed"> 167 <when value="bed">
165 <param 168 <param
166 format="bed" 169 format="bed"
167 name="BED" 170 name="BED"