Mercurial > repos > iuc > poretools_tabular

comparison poretools_tabular.xml @ 0:7f0b324de883 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
author iuc
date Tue, 19 Dec 2017 14:56:23 -0500
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children 5f5f1da94d7f
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1 <?xml version="1.0"?>
2 <tool id="poretools_tabular" name="Extract FASTQ" version="@VERSION@.0">
3 <description>in tabular format from a set of FAST5 files</description>
4 <macros>
5 <import>macros.xml</import>
6 </macros>
7 <expand macro="requirements" />
8 <command detect_errors="aggressive">
9 <![CDATA[
10 poretools tabular --type $type '$input' > '$output'
11 ]]>
12 </command>
13 <inputs>
14 <param name="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" />
15 <expand macro="stat_options" />
16 </inputs>
17 <outputs>
18 <data name="output" format="tabular" />
19 </outputs>
20 <tests>
21 <test>
22 <expand macro="test_input" />
23 <param name="types" value="fwd" />
24 <param name="detailed" value="true" />
25 <output name="output" file="poretools-tabular-out1.tabular" ftype="tabular" />
26 </test>
27 <test>
28 <expand macro="test_input" />
29 <param name="types" value="rev" />
30 <param name="detailed" value="false" />
31 <output name="output" file="poretools-tabular-out2.tabular" ftype="tabular" />
32 </test>
33 <test>
34 <expand macro="test_input" />
35 <param name="types" value="2D" />
36 <param name="detailed" value="true" />
37 <output name="output" file="poretools-tabular-out3.tabular" ftype="tabular" />
38 </test>
39 <test>
40 <expand macro="test_input" />
41 <param name="types" value="best" />
42 <param name="detailed" value="false" />
43 <output name="output" file="poretools-tabular-out4.tabular" ftype="tabular" />
44 </test>
45 <test>
46 <expand macro="test_input" />
47 <param name="types" value="all" />
48 <param name="detailed" value="true" />
49 <output name="output" file="poretools-tabular-out5.tabular" ftype="tabular" />
50 </test>
51 </tests>
52 <help>
53 Dump the length, name, sequence, and quality scores of the sequence in one or a set of FAST5 files.
54 </help>
55 <expand macro="citations" />
56 </tool>