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comparison flexbar_no_split.xml @ 58:bbbae1ee87e0 draft default tip

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fix for flexbar with small data issue
author rnateam
date Tue, 16 Feb 2016 10:08:58 -0500
parents 55b539a509f0
children
comparison
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57:537657678b2b 58:bbbae1ee87e0
14 <requirement type="package" version="2.5">flexbar</requirement> 14 <requirement type="package" version="2.5">flexbar</requirement>
15 </requirements> 15 </requirements>
16 16
17 <version_command>flexbar --version</version_command> 17 <version_command>flexbar --version</version_command>
18 18
19 <command> 19 <command><![CDATA[
20 20
21 flexbar 21 flexbar
22 22
23 --threads \${GALAXY_SLOTS:-1} 23 --threads \${GALAXY_SLOTS:-1}
24 24
100 $cLogging.numTags 100 $cLogging.numTags
101 $cLogging.remTags 101 $cLogging.remTags
102 $cLogging.rndTags 102 $cLogging.rndTags
103 #end if 103 #end if
104 104
105 > $output; 105 && mv flexbar_1.fastq $output_1
106 106 && mv flexbar_2.fastq $output_2
107 mv flexbar_1.fastq $output_1; 107
108 mv flexbar_2.fastq $output_2; 108 && sleep 20
109 109
110 </command> 110 ]]></command>
111 111
112 112
113 <inputs> 113 <inputs>
114 114
115 <param format="fasta,fastq,fastqsanger,fastqsolexa,fastqillumina,csfasta,fastqcssanger" name="reads" type="data" label="Sequencing reads" optional="false"/> 115 <param format="fasta,fastq,fastqsanger,fastqsolexa,fastqillumina,csfasta,fastqcssanger" name="reads" type="data" label="Sequencing reads" optional="false"/>