Mercurial > repos > iuc > poretools_tabular

comparison poretools_tabular.xml @ 2:5f5f1da94d7f draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
author iuc
date Fri, 27 Sep 2024 07:48:17 +0000
parents 7f0b324de883
children
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1:2cb2feb94f0e 2:5f5f1da94d7f
1 <?xml version="1.0"?> 1 <tool id="poretools_tabular" name="Extract FASTQ" version="@VERSION@.0" profile="@PROFILE@">
2 <tool id="poretools_tabular" name="Extract FASTQ" version="@VERSION@.0">
3 <description>in tabular format from a set of FAST5 files</description> 2 <description>in tabular format from a set of FAST5 files</description>
4 <macros> 3 <macros>
5 <import>macros.xml</import> 4 <import>macros.xml</import>
6 </macros> 5 </macros>
6 <expand macro="bio_tools"/>
7 <expand macro="requirements" /> 7 <expand macro="requirements" />
8 <command detect_errors="aggressive"> 8 <command detect_errors="aggressive">
9 <![CDATA[ 9 <![CDATA[
10 poretools tabular --type $type '$input' > '$output' 10 poretools tabular --type $type '$input' > '$output'
11 ]]> 11 ]]>
18 <data name="output" format="tabular" /> 18 <data name="output" format="tabular" />
19 </outputs> 19 </outputs>
20 <tests> 20 <tests>
21 <test> 21 <test>
22 <expand macro="test_input" /> 22 <expand macro="test_input" />
23 <param name="types" value="fwd" /> 23 <param name="type" value="fwd" />
24 <param name="detailed" value="true" />
25 <output name="output" file="poretools-tabular-out1.tabular" ftype="tabular" /> 24 <output name="output" file="poretools-tabular-out1.tabular" ftype="tabular" />
26 </test> 25 </test>
27 <test> 26 <test>
28 <expand macro="test_input" /> 27 <expand macro="test_input" />
29 <param name="types" value="rev" /> 28 <param name="type" value="rev" />
30 <param name="detailed" value="false" />
31 <output name="output" file="poretools-tabular-out2.tabular" ftype="tabular" /> 29 <output name="output" file="poretools-tabular-out2.tabular" ftype="tabular" />
32 </test> 30 </test>
33 <test> 31 <test>
34 <expand macro="test_input" /> 32 <expand macro="test_input" />
35 <param name="types" value="2D" /> 33 <param name="type" value="2D" />
36 <param name="detailed" value="true" />
37 <output name="output" file="poretools-tabular-out3.tabular" ftype="tabular" /> 34 <output name="output" file="poretools-tabular-out3.tabular" ftype="tabular" />
38 </test> 35 </test>
39 <test> 36 <test>
40 <expand macro="test_input" /> 37 <expand macro="test_input" />
41 <param name="types" value="best" /> 38 <param name="type" value="best" />
42 <param name="detailed" value="false" />
43 <output name="output" file="poretools-tabular-out4.tabular" ftype="tabular" /> 39 <output name="output" file="poretools-tabular-out4.tabular" ftype="tabular" />
44 </test> 40 </test>
45 <test> 41 <test>
46 <expand macro="test_input" /> 42 <expand macro="test_input" />
47 <param name="types" value="all" /> 43 <param name="type" value="all" />
48 <param name="detailed" value="true" />
49 <output name="output" file="poretools-tabular-out5.tabular" ftype="tabular" /> 44 <output name="output" file="poretools-tabular-out5.tabular" ftype="tabular" />
50 </test> 45 </test>
51 </tests> 46 </tests>
52 <help> 47 <help>
53 Dump the length, name, sequence, and quality scores of the sequence in one or a set of FAST5 files. 48 Dump the length, name, sequence, and quality scores of the sequence in one or a set of FAST5 files.