Mercurial > repos > iuc > poretools_qualpos

annotate poretools_qualpos.xml @ 3:6dfcd712294c draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
author iuc
date Fri, 27 Sep 2024 07:42:44 +0000
parents 01a6b18b0a77
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6dfcd712294c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
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1 <tool id="poretools_qualpos" name="Generate box-whisker" version="@VERSION@.1" profile="@PROFILE@">
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2 <description>plot of quality score distribution over positions in nanopore reads</description>
a4d55649f809 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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3 <macros>
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4 <import>macros.xml</import>
a4d55649f809 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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5 </macros>
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6dfcd712294c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
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6 <expand macro="bio_tools"/>
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a4d55649f809 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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7 <expand macro="requirements" />
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8 <command detect_errors="aggressive">
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9 <![CDATA[
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10 @MPLBACKEND@
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11 poretools qualpos '$input' --saveas qualpos.$extension --min-length $min_length --max-length $max_length --bin-width $bin_width $theme_bw && mv qualpos.$extension '$output'
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12 ]]>
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13 </command>
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14 <inputs>
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15 <param name="input" type="data" format="h5,fast5.tar,fast5.tar.gz,fast5.tar.bz2" label="Input fast5 or archive of fast5 files" />
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6dfcd712294c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
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16 <expand macro="plot_options"/>
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17 <expand macro="length_options" />
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6dfcd712294c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
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18 <param argument="--bin-width" type="integer" value="1000" label="The width of bins" />
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19 </inputs>
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20 <outputs>
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21 <expand macro="image_output">
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22 <when input="extension" value="svg" format="svg" />
a4d55649f809 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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23 </expand>
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24 </outputs>
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25 <tests>
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26 <test>
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27 <expand macro="test_input" />
a4d55649f809 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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28 <param name="extension" value="png" />
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29 <output name="output" file="poretools-qualpos-out1.png" ftype="png" compare="sim_size" />
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30 </test>
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31 <test>
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32 <expand macro="test_input" />
a4d55649f809 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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33 <param name="extension" value="pdf" />
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34 <output name="output" file="poretools-qualpos-out1.pdf" ftype="pdf" lines_diff="36" />
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35 </test>
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36 </tests>
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37 <help>
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38 Produce a box-whisker plot of quality score distribution over positions in nanopore reads
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39 </help>
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40 <expand macro="citations" />
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41 </tool>