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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 07:43:49 +0000
parents de8ffa29391f
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06748ab33ee4 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
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1 <tool id="poretools_hist" name="Generate histogram" version="@VERSION@.1" profile="@PROFILE@">
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2 <description>of nanopore read lengths</description>
e3671d61f0a0 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>
e3671d61f0a0 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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06748ab33ee4 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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e3671d61f0a0 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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5deb028db68e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit d50758dbe64462ba3cdcb7f1df0bcc57a310deab"
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10 @MPLBACKEND@
5deb028db68e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit d50758dbe64462ba3cdcb7f1df0bcc57a310deab"
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11 poretools hist '$input' --saveas histogram.$extension --min-length $min_length --max-length $max_length --num-bins $num_bins $theme_bw && mv histogram.$extension '$output'
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12 ]]>
e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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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" />
e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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16 <expand macro="plot_options" />
e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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17 <expand macro="length_options" />
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06748ab33ee4 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
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18 <param argument="--num-bins" type="integer" value="50" label="Number of bins in the histogram" />
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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 </outputs>
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23 <tests>
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24 <test>
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25 <expand macro="test_input" />
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26 <param name="extension" value="png" />
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27 <output name="output" file="poretools-hist-out1.png" ftype="png" compare="sim_size" />
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28 </test>
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29 <test>
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30 <expand macro="test_input" />
e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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31 <param name="extension" value="pdf" />
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32 <output name="output" file="poretools-hist-out1.pdf" ftype="pdf" lines_diff="272" />
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e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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33 </test>
e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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34 <test>
e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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35 <expand macro="test_input" />
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36 <param name="extension" value="svg" />
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37 <output name="output" file="poretools-hist-out1.svg" ftype="svg" lines_diff="140" />
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e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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38 </test>
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39 </tests>
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40 <help>
e3671d61f0a0 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit aee00b3755588862ab34c199c28578706c004a34
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41 Draw a histogram of read lengths in one or more nanopore reads.
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42 </help>
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43 <expand macro="citations" />
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44 </tool>