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comparison poretools_hist.xml @ 1:5deb028db68e draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit d50758dbe64462ba3cdcb7f1df0bcc57a310deab"
author iuc
date Sun, 19 Jan 2020 14:00:43 +0000
parents e3671d61f0a0
children de8ffa29391f
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0:e3671d61f0a0 1:5deb028db68e
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="poretools_hist" name="Generate histogram" version="@VERSION@.0"> 2 <tool id="poretools_hist" name="Generate histogram" version="@VERSION@.1">
3 <description>of nanopore read lengths</description> 3 <description>of nanopore read lengths</description>
4 <macros> 4 <macros>
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements" /> 7 <expand macro="requirements" />
8 <command detect_errors="aggressive"> 8 <command detect_errors="aggressive">
9 <![CDATA[ 9 <![CDATA[
10 poretools hist '$input' --saveas histogram.$extension --min-length $min_length 10 @MPLBACKEND@
11 --max-length $max_length --num-bins $num_bins $theme_bw && mv histogram.$extension '$output' 11 poretools hist '$input' --saveas histogram.$extension --min-length $min_length --max-length $max_length --num-bins $num_bins $theme_bw && mv histogram.$extension '$output'
12 ]]> 12 ]]>
13 </command> 13 </command>
14 <inputs> 14 <inputs>
15 <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="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" />
16 <expand macro="plot_options" /> 16 <expand macro="plot_options" />
22 </outputs> 22 </outputs>
23 <tests> 23 <tests>
24 <test> 24 <test>
25 <expand macro="test_input" /> 25 <expand macro="test_input" />
26 <param name="extension" value="png" /> 26 <param name="extension" value="png" />
27 <output name="output" file="poretools-hist-out1.png" ftype="png" lines_diff="73" /> 27 <output name="output" file="poretools-hist-out1.png" ftype="png" compare="sim_size" />
28 </test> 28 </test>
29 <test> 29 <test>
30 <expand macro="test_input" /> 30 <expand macro="test_input" />
31 <param name="extension" value="pdf" /> 31 <param name="extension" value="pdf" />
32 <output name="output" file="poretools-hist-out1.pdf" ftype="pdf" lines_diff="36" /> 32 <output name="output" file="poretools-hist-out1.pdf" ftype="pdf" lines_diff="272" />
33 </test> 33 </test>
34 <test> 34 <test>
35 <expand macro="test_input" /> 35 <expand macro="test_input" />
36 <param name="extension" value="svg" /> 36 <param name="extension" value="svg" />
37 <output name="output" file="poretools-hist-out1.svg" ftype="svg" lines_diff="138" /> 37 <output name="output" file="poretools-hist-out1.svg" ftype="svg" lines_diff="140" />
38 </test> 38 </test>
39 </tests> 39 </tests>
40 <help> 40 <help>
41 Draw a histogram of read lengths in one or more nanopore reads. 41 Draw a histogram of read lengths in one or more nanopore reads.
42 </help> 42 </help>