Mercurial > repos > iuc > poretools_hist
diff poretools_hist.xml @ 0:47936349f3e9 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
author | iuc |
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date | Tue, 19 Dec 2017 14:57:21 -0500 |
parents | |
children | 5a82eb9e1b89 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/poretools_hist.xml Tue Dec 19 14:57:21 2017 -0500 @@ -0,0 +1,44 @@ +<?xml version="1.0"?> +<tool id="poretools_hist" name="Generate histogram" version="@VERSION@.0"> + <description>of nanopore read lengths</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="aggressive"> + <![CDATA[ + poretools hist '$input' --saveas histogram.$extension --min-length $min_length + --max-length $max_length --num-bins $num_bins $theme_bw && mv histogram.$extension '$output' + ]]> + </command> + <inputs> + <param name="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" /> + <expand macro="plot_options" /> + <expand macro="length_options" /> + <param name="num_bins" argument="--num-bins" type="integer" value="50" label="Number of bins in the histogram" /> + </inputs> + <outputs> + <expand macro="image_output" /> + </outputs> + <tests> + <test> + <expand macro="test_input" /> + <param name="extension" value="png" /> + <output name="output" file="poretools-hist-out1.png" ftype="png" lines_diff="73" /> + </test> + <test> + <expand macro="test_input" /> + <param name="extension" value="pdf" /> + <output name="output" file="poretools-hist-out1.pdf" ftype="pdf" lines_diff="36" /> + </test> + <test> + <expand macro="test_input" /> + <param name="extension" value="svg" /> + <output name="output" file="poretools-hist-out1.svg" ftype="svg" lines_diff="138" /> + </test> + </tests> + <help> + Draw a histogram of read lengths in one or more nanopore reads. + </help> + <expand macro="citations" /> +</tool>