Mercurial > repos > iuc > poretools_yield_plot
diff poretools_yield_plot.xml @ 0:64a83664b814 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 14:54:20 -0500 |
parents | |
children | ca22d8497db5 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/poretools_yield_plot.xml Tue Dec 19 14:54:20 2017 -0500 @@ -0,0 +1,48 @@ +<?xml version="1.0"?> +<tool id="poretools_yield_plot" name="Collector’s curve" version="@VERSION@.0"> + <description>of sequencing yield over time</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="aggressive"> + <![CDATA[ + poretools yield_plot '$input' --saveas plot.$extension --plot-type $plot_type + $theme_bw + #if $skip != '0': + --skip $skip + #end if + && mv plot.$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" /> + <param name="plot_type" argument="--plot-type" type="select" label="Plot reads or base pairs"> + <option value="reads">Reads</option> + <option value="basepairs">Base pairs</option> + </param> + <param argument="--skip" type="integer" value="0" label="Plot only every nth point" help="Increases performance at the cost of resolution." /> + <expand macro="plot_options" /> + </inputs> + <outputs> + <expand macro="image_output" /> + </outputs> + <tests> + <test> + <expand macro="test_input" /> + <param name="extension" value="png" /> + <param name="plot_type" value="reads" /> + <output name="output" file="poretools-yield-plot-out1.png" ftype="png" lines_diff="301" /> + </test> + <test> + <expand macro="test_input" /> + <param name="extension" value="svg" /> + <param name="plot_type" value="basepairs" /> + <output name="output" file="poretools-yield-plot-out2.svg" ftype="svg" lines_diff="40" /> + </test> + </tests> + <help> + Create a collector’s curve reflecting the sequencing yield over time. + </help> + <expand macro="citations" /> +</tool>