Mercurial > repos > rnateam > bctools
comparison flexbar_no_split.xml @ 58:bbbae1ee87e0 draft default tip
fix for flexbar with small data issue
author | rnateam |
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date | Tue, 16 Feb 2016 10:08:58 -0500 |
parents | 55b539a509f0 |
children |
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57:537657678b2b | 58:bbbae1ee87e0 |
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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"/> |