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comparison poretools_stats.xml @ 0:8473974565ec 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 14:19:48 -0500
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children 288c1b94485e
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-1:000000000000 0:8473974565ec
1 <?xml version="1.0"?>
2 <tool id="poretools_stats" name="Read length statistics" version="@VERSION@.0">
3 <description>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 stats --type $type $detailed '$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 <param name="detailed" argument="--full-tsv" type="boolean" truevalue="--full-tsv" falsevalue="" label="Output detailed statistics" />
16 <expand macro="stat_options" />
17 </inputs>
18 <outputs>
19 <data name="output" format="tabular" />
20 </outputs>
21 <tests>
22 <test>
23 <expand macro="test_input" />
24 <param name="type" value="fwd" />
25 <param name="detailed" value="true" />
26 <output name="output" file="poretools-stats-out1.tabular" ftype="tabular" />
27 </test>
28 <test>
29 <expand macro="test_input" />
30 <param name="type" value="rev" />
31 <param name="detailed" value="false" />
32 <output name="output" file="poretools-stats-out2.tabular" ftype="tabular" />
33 </test>
34 <test>
35 <expand macro="test_input" />
36 <param name="type" value="2D" />
37 <param name="detailed" value="true" />
38 <output name="output" file="poretools-stats-out3.tabular" ftype="tabular" />
39 </test>
40 <test>
41 <expand macro="test_input" />
42 <param name="type" value="best" />
43 <param name="detailed" value="false" />
44 <output name="output" file="poretools-stats-out4.tabular" ftype="tabular" />
45 </test>
46 <test>
47 <expand macro="test_input" />
48 <param name="type" value="all" />
49 <param name="detailed" value="true" />
50 <output name="output" file="poretools-stats-out5.tabular" ftype="tabular" />
51 </test>
52 </tests>
53 <help>
54 Collect read size statistics from a set of FAST5 files.
55 </help>
56 <expand macro="citations" />
57 </tool>