Mercurial > repos > iuc > poretools_squiggle

comparison poretools_squiggle.xml @ 1:1ac861671d76 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 14:03:54 +0000
parents 092fbeab151e
children 29b192ad312f
comparison
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0:092fbeab151e 1:1ac861671d76
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="poretools_squiggle" name="Plot signals" version="@VERSION@.0"> 2 <tool id="poretools_squiggle" name="Plot signals" version="@VERSION@.1" profile="@profile@">
3 <description>for nanopore reads</description> 3 <description>for nanopore reads</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 squiggle '$input' --saveas $extension --num-facets $num_facets 10 @MPLBACKEND@
11 $theme_bw 11 poretools squiggle '$input' --saveas $extension --num-facets $num_facets $theme_bw
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" />
24 <tests> 24 <tests>
25 <test> 25 <test>
26 <expand macro="test_input" /> 26 <expand macro="test_input" />
27 <param name="extension" value="png" /> 27 <param name="extension" value="png" />
28 <output name="output"> 28 <output name="output">
29 <discovered_dataset designation="2016_3_4_3507_1_ch128_read430_strand.fast5" file="poretools-squiggle-out1-1.png" lines_diff="986" /> 29 <discovered_dataset designation="2016_3_4_3507_1_ch128_read430_strand.fast5" file="poretools-squiggle-out1-1.png" compare="sim_size" />
30 <discovered_dataset designation="2016_3_4_3507_1_ch128_read95_strand.fast5" file="poretools-squiggle-out1-2.png" lines_diff="883" /> 30 <discovered_dataset designation="2016_3_4_3507_1_ch128_read95_strand.fast5" file="poretools-squiggle-out1-2.png" compare="sim_size" />
31 </output> 31 </output>
32 </test> 32 </test>
33 <test> 33 <test>
34 <expand macro="test_input" /> 34 <expand macro="test_input" />
35 <param name="extension" value="pdf" /> 35 <param name="extension" value="pdf" />
36 <output name="output"> 36 <output name="output">
37 <discovered_dataset designation="2016_3_4_3507_1_ch128_read430_strand.fast5" file="poretools-squiggle-out1-1.pdf" lines_diff="35" /> 37 <discovered_dataset designation="2016_3_4_3507_1_ch128_read430_strand.fast5" file="poretools-squiggle-out1-1.pdf" compare="sim_size" />
38 <discovered_dataset designation="2016_3_4_3507_1_ch128_read95_strand.fast5" file="poretools-squiggle-out1-2.pdf" lines_diff="35" /> 38 <discovered_dataset designation="2016_3_4_3507_1_ch128_read95_strand.fast5" file="poretools-squiggle-out1-2.pdf" compare="sim_size" />
39 </output> 39 </output>
40 </test> 40 </test>
41 </tests> 41 </tests>
42 <help> 42 <help>
43 Plot the observed signals for FAST5 reads. 43 Plot the observed signals for FAST5 reads.