Mercurial > repos > bgruening > bismark

comparison bismark_bowtie2_wrapper.xml @ 10:7bffcb6fc81d draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/bismark commit 23685f742f0b5cd5de871c285d247d560485b11b
author bgruening
date Tue, 26 Feb 2019 18:42:28 -0500
parents 1a88b0f2669f
children 1f15ad5ca867
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9:1a88b0f2669f 10:7bffcb6fc81d
1 <tool id="bismark_bowtie2" name="Bismark Mapper" version="0.20.0.1" profile="18.01"> 1 <tool id="bismark_bowtie2" name="Bismark Mapper" version="0.20.0.2" profile="18.01">
2 <description>Bisulfite reads mapper</description> 2 <description>Bisulfite reads mapper</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.20.0">bismark</requirement> 4 <requirement type="package" version="0.20.0">bismark</requirement>
5 <requirement type="package" version="1.8">samtools</requirement> 5 <requirement type="package" version="1.8">samtools</requirement>
6 <requirement type="package" version="2.3.4.2">bowtie2</requirement> 6 <requirement type="package" version="2.3.4.2">bowtie2</requirement>
250 <!-- output Options --> 250 <!-- output Options -->
251 <param name="bismark_stdout" type="boolean" truevalue="true" falsevalue="false" checked="false" 251 <param name="bismark_stdout" type="boolean" truevalue="true" falsevalue="false" checked="false"
252 label="Write the bismark output and summary information to an extra file"/> 252 label="Write the bismark output and summary information to an extra file"/>
253 <param name="isReportOutput" type="boolean" truevalue="true" falsevalue="false" checked="true" 253 <param name="isReportOutput" type="boolean" truevalue="true" falsevalue="false" checked="true"
254 label="Offer all report files concatenated in one file (Mapping Report)"/> 254 label="Offer all report files concatenated in one file (Mapping Report)"/>
255 <param argument="--non_directional" type="boolean" truevalue="--non_directional" falsevalue="" checked="false" 255 <param argument="--non-directional" name="non_directional" type="boolean"
256 truevalue="--non-directional" falsevalue="" checked="false"
256 label="The sequencing library was constructed in a non strand-specific manner, alignments to all four bisulfite strands will be reported."/> 257 label="The sequencing library was constructed in a non strand-specific manner, alignments to all four bisulfite strands will be reported."/>
257 258
258 <!--end output options --> 259 <!--end output options -->
259 </when> <!-- full --> 260 </when> <!-- full -->
260 </conditional> <!-- params --> 261 </conditional> <!-- params -->