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comparison flexbar_dsc.xml @ 24:a3395297458b draft

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update flexbar dsc description
author rnateam
date Thu, 17 Dec 2015 10:35:59 -0500
parents 84d743632f5a
children e157f49e0720
comparison
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23:84d743632f5a 24:a3395297458b
4 <!-- Modified by Daniel Maticzka --> 4 <!-- Modified by Daniel Maticzka -->
5 <!-- * changed dependency to use separate flexbar package --> 5 <!-- * changed dependency to use separate flexbar package -->
6 6
7 <tool id="flexbar_dsc" name="Flexbar" version="2.5"> 7 <tool id="flexbar_dsc" name="Flexbar" version="2.5">
8 8
9 <description>flexible barcode and adapter removal</description> 9 <description>flexible barcode and adapter removal (data set collections)</description>
10 10
11 <requirements> 11 <requirements>
12 <requirement type="package" version="2.5">flexbar</requirement> 12 <requirement type="package" version="2.5">flexbar</requirement>
13 </requirements> 13 </requirements>
14 14
135 $cLogging.numTags 135 $cLogging.numTags
136 $cLogging.remTags 136 $cLogging.remTags
137 $cLogging.rndTags 137 $cLogging.rndTags
138 #end if 138 #end if
139 139
140 --target FlexbarOutput 140 --target FlexbarOutput
141 && 141 &&
142 for f in *_1.fastq; do mv "\$f" "`basename \$f _1.fastq`_forward.fastq"; done && 142 for f in *_1.fastq; do mv "\$f" "`basename \$f _1.fastq`_forward.fastq"; done &&
143 for f in *_2.fastq; do mv "\$f" "`basename \$f _2.fastq`_reverse.fastq"; done 143 for f in *_2.fastq; do mv "\$f" "`basename \$f _2.fastq`_reverse.fastq"; done
144 144
145 145
146 146
147 </command> 147 </command>