Mercurial > repos > bgruening > deeptools_bam_coverage

comparison deepTools_macros.xml @ 16:77e1664d66cd draft

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planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit 4abb1e731efdaa32fadb32c9e23883f7c17fb85c
author bgruening
date Mon, 05 Feb 2018 11:45:28 -0500
parents 5d11599b8a7d
children f024daeffbed
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15:5d11599b8a7d 16:77e1664d66cd
1 <macros> 1 <macros>
2 2
3 <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token> 3 <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token>
4 <token name="@WRAPPER_VERSION@">2.5.1.1</token> 4 <token name="@WRAPPER_VERSION@">2.5.7</token>
5 <xml name="requirements"> 5 <xml name="requirements">
6 <requirements> 6 <requirements>
7 <requirement type="package" version="2.5.1">deeptools</requirement> 7 <requirement type="package" version="2.5.7">deeptools</requirement>
8 <yield /> 8 <yield />
9 </requirements> 9 </requirements>
10 <expand macro="stdio" /> 10 <expand macro="stdio" />
11 <version_command>@BINARY@ --version</version_command> 11 <version_command>@BINARY@ --version</version_command>
12 </xml> 12 </xml>
209 <expand macro="samFlags" /> 209 <expand macro="samFlags" />
210 <expand macro="fragLength" /> 210 <expand macro="fragLength" />
211 </xml> 211 </xml>
212 212
213 <xml name="gtf_options"> 213 <xml name="gtf_options">
214 <param argument="--metagene" type="boolean" truevalue="--boolean" falsevalue="" 214 <param argument="--metagene" type="boolean" truevalue="--metagene" falsevalue=""
215 label="Use a metagene model" 215 label="Use a metagene model"
216 help="If set and a BED12 or GTF file or files is used to provide regions, only exons will be used. This is convenient for looking at coverage over mature mRNA transcripts or similar uses where introns should be ignored." /> 216 help="If set and a BED12 or GTF file or files is used to provide regions, only exons will be used. This is convenient for looking at coverage over mature mRNA transcripts or similar uses where introns should be ignored." />
217 <param argument="--transcriptID" optional="True" value="transcript" type="text" 217 <param argument="--transcriptID" optional="True" value="transcript" type="text"
218 label="trascript designator" 218 label="trascript designator"
219 help="When a GTF file is used to provide regions, only entries with this value as their feature (column 2) will be processed as transcripts. Default: transcript" /> 219 help="When a GTF file is used to provide regions, only entries with this value as their feature (column 2) will be processed as transcripts. Default: transcript" />