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comparison dereplication.xml @ 2:f29e21388219 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/vsearch commit 64c1c4c664c6a131d897f574dc849f5668fa97d2
author iuc
date Thu, 17 Dec 2015 12:53:39 -0500
parents 8c4e2933a17a
children 4258854759ba
comparison
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1:8c4e2933a17a 2:f29e21388219
1 <tool id="vsearch_dereplication" name="VSearch dereplication" version="@VERSION@.1"> 1 <tool id="vsearch_dereplication" name="VSearch dereplication" version="@VERSION@.2">
2 <description></description> 2 <description></description>
3 <macros> 3 <macros>
4 <import>vsearch_macros.xml</import> 4 <import>vsearch_macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
8 <expand macro="version_command" /> 8 <expand macro="version_command" />
9 <command> 9 <command>
10 <![CDATA[ 10 <![CDATA[
11 vsearch 11 vsearch
12 @GENERAL@ 12 @GENERAL@
13 --derep_fulllength $infile 13 --derep_fulllength "$infile"
14 #if $maxuniquesize: 14 #if str($maxuniquesize):
15 --maxuniquesize $maxuniquesize 15 --maxuniquesize "$maxuniquesize"
16 #end if 16 #end if
17 #if $minuniquesize: 17 #if str($minuniquesize):
18 --minuniquesize $minuniquesize 18 --minuniquesize "$minuniquesize"
19 #end if 19 #end if
20 --output $outfile 20 --output "$outfile"
21 $sizein 21 $sizein
22 $sizeout 22 $sizeout
23 --strand $strand 23 --strand "$strand"
24 #if $topn: 24 #if str($topn):
25 --topn $topn 25 --topn "$topn"
26 #end if 26 #end if
27 #if $uc: 27 #if $uc:
28 --uc $uc_outfile 28 --uc "$uc_outfile"
29 #end if 29 #end if
30 ]]> 30 ]]>
31 </command> 31 </command>
32 <inputs> 32 <inputs>
33 <param name="infile" type="data" format="fasta" label="Select your FASTA file" help="(--derep_fulllength)" /> 33 <param name="infile" type="data" format="fasta" label="Select your FASTA file" help="(--derep_fulllength)" />
97 --uc FILENAME filename for UCLUST-like output 97 --uc FILENAME filename for UCLUST-like output
98 98
99 99
100 @EXTERNAL_DOCUMENTATION@ 100 @EXTERNAL_DOCUMENTATION@
101 101
102 -------
103
104 @REFERENCES@
105
106 102
107 ]]> 103 ]]>
108 </help> 104 </help>
109 <expand macro="citations" /> 105 <expand macro="citations" />
110 </tool> 106 </tool>