Mercurial > repos > iuc > poretools_yield_plot
comparison poretools_yield_plot.xml @ 0:a8c8a7354ab7 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
| author | iuc |
|---|---|
| date | Tue, 19 Dec 2017 14:22:25 -0500 |
| parents | |
| children | b17593289ad0 |
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| -1:000000000000 | 0:a8c8a7354ab7 |
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| 1 <?xml version="1.0"?> | |
| 2 <tool id="poretools_yield_plot" name="Collector’s curve" version="@VERSION@.0"> | |
| 3 <description>of sequencing yield over time</description> | |
| 4 <macros> | |
| 5 <import>macros.xml</import> | |
| 6 </macros> | |
| 7 <expand macro="requirements" /> | |
| 8 <command detect_errors="aggressive"> | |
| 9 <![CDATA[ | |
| 10 poretools yield_plot '$input' --saveas plot.$extension --plot-type $plot_type | |
| 11 $theme_bw | |
| 12 #if $skip != '0': | |
| 13 --skip $skip | |
| 14 #end if | |
| 15 && mv plot.$extension '$output' | |
| 16 ]]> | |
| 17 </command> | |
| 18 <inputs> | |
| 19 <param name="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" /> | |
| 20 <param name="plot_type" argument="--plot-type" type="select" label="Plot reads or base pairs"> | |
| 21 <option value="reads">Reads</option> | |
| 22 <option value="basepairs">Base pairs</option> | |
| 23 </param> | |
| 24 <param argument="--skip" type="integer" value="0" label="Plot only every nth point" help="Increases performance at the cost of resolution." /> | |
| 25 <expand macro="plot_options" /> | |
| 26 </inputs> | |
| 27 <outputs> | |
| 28 <expand macro="image_output" /> | |
| 29 </outputs> | |
| 30 <tests> | |
| 31 <test> | |
| 32 <expand macro="test_input" /> | |
| 33 <param name="extension" value="png" /> | |
| 34 <param name="plot_type" value="reads" /> | |
| 35 <output name="output" file="poretools-yield-plot-out1.png" ftype="png" lines_diff="301" /> | |
| 36 </test> | |
| 37 <test> | |
| 38 <expand macro="test_input" /> | |
| 39 <param name="extension" value="svg" /> | |
| 40 <param name="plot_type" value="basepairs" /> | |
| 41 <output name="output" file="poretools-yield-plot-out2.svg" ftype="svg" lines_diff="40" /> | |
| 42 </test> | |
| 43 </tests> | |
| 44 <help> | |
| 45 Create a collector’s curve reflecting the sequencing yield over time. | |
| 46 </help> | |
| 47 <expand macro="citations" /> | |
| 48 </tool> |