Mercurial > repos > iuc > mothur_reverse_seqs

comparison reverse.seqs.xml @ 1:24279ccecac5 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit a9d1e0debcd357d8080a1c6c5f1d206dd45a7a4d
author iuc
date Fri, 19 May 2017 04:26:23 -0400
parents 34812b0dc74f
children 8b91c609f0c0
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0:34812b0dc74f 1:24279ccecac5
2 <description>Reverse complement the sequences</description> 2 <description>Reverse complement the sequences</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements"/> 6 <expand macro="requirements"/>
7 <expand macro="stdio"/>
7 <expand macro="version_command"/> 8 <expand macro="version_command"/>
8 <command detect_errors="aggressive"><![CDATA[ 9 <command><![CDATA[
10 @SHELL_OPTIONS@
11
9 ## create symlinks to input datasets 12 ## create symlinks to input datasets
10 ln -s "$fasta" fasta.dat && 13 ln -s "$fasta" fasta.dat &&
11 14
12 echo 'reverse.seqs( 15 echo 'reverse.seqs(
13 fasta=fasta.dat 16 fasta=fasta.dat
14 )' 17 )'
15 | sed 's/ //g' ## mothur trips over whitespace 18 | sed 's/ //g' ## mothur trips over whitespace
16 | mothur 19 | mothur
20 | tee mothur.out.log
17 ]]></command> 21 ]]></command>
18 <inputs> 22 <inputs>
19 <param name="fasta" type="data" format="fasta,mothur.align" label="fasta - Sequences to reverse complement"/> 23 <param name="fasta" type="data" format="fasta,mothur.align" label="fasta - Sequences to reverse complement"/>
20 </inputs> 24 </inputs>
21 <outputs> 25 <outputs>
32 <help> 36 <help>
33 <![CDATA[ 37 <![CDATA[
34 38
35 @MOTHUR_OVERVIEW@ 39 @MOTHUR_OVERVIEW@
36 40
37 **Command Documenation** 41 **Command Documentation**
38 42
39 The reverse.seqs_ command will generate a fasta containing the reverse complement of each sequence in the input fasta. 43 The reverse.seqs_ command will generate a fasta containing the reverse complement of each sequence in the input fasta.
40 44
41 .. _reverse.seqs: http://www.mothur.org/wiki/Reverse.seqs 45 .. _reverse.seqs: https://www.mothur.org/wiki/Reverse.seqs
42 ]]> 46 ]]>
43 </help> 47 </help>
44 <expand macro="citations"/> 48 <expand macro="citations"/>
45 </tool> 49 </tool>