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comparison macros.xml @ 1:ab2cf85b9ae8 draft

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planemo upload commit f86fb54b98f0dbed260735675219e64882f08efe
author nml
date Mon, 13 Mar 2017 15:36:43 -0400
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0:699eef7398c1 1:ab2cf85b9ae8
1 <macros>
2 <token name="@VERSION@">2.3</token>
3 <xml name="requirements">
4 <requirements>
5 <requirement type="package" version="2.3.1">kat</requirement>
6 </requirements>
7 </xml>
8 <xml name="stdio">
9 <stdio>
10 <exit_code range="1:" />
11 <exit_code range=":-1" />
12 <regex match="Error:" />
13 <regex match="Exception:" />
14 </stdio>
15 </xml>
16 <xml name="version_command">
17 <version_command>kat --version</version_command>
18 </xml>
19 <xml name="citations">
20 <citations>
21 <citation type="doi">10.1101/064733</citation>
22 <yield />
23 </citations>
24 </xml>
25 <token name="@THREADS@">
26 --threads \${GALAXY_SLOTS:-4}
27 </token>
28 <xml name="macro_input">
29 <conditional name="single_or_paired">
30 <param name="type" type="select" label="Read type">
31 <option value="single">Single-end</option>
32 <option value="paired">Paired-end</option>
33 <option value="collection">Collection Paired-end</option>
34 </param>
35 <when value="single">
36 <param name="input_se" type="data" format="fastqsanger" label="Single end read file(s)"/>
37 </when>
38 <when value="paired">
39 <param name="forward_pe" type="data" format="fastqsanger" label="Forward paired-end read file"/>
40 <param name="reverse_pe" type="data" format="fastqsanger" label="Reverse paired-end read file"/>
41 </when>
42 <when value="collection">
43 <param name="fastq_collection" type="data_collection" label="Paired-end reads collection" optional="false" format="fastqsanger" collection_type="paired" />
44 </when>
45 </conditional>
46 </xml>
47 <xml name="macro_kmers">
48 <param name="kmer" type="integer" value='27' label="Kmer size" help="The kmer length to use in the kmer hashes. Larger values will provide more discriminating power between kmers but at the expense of additional memory and lower coverage."/>
49 </xml>
50 </macros>