Mercurial > repos > iuc > poretools_events

annotate poretools_events.xml @ 3:0e62759b5e56 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 07:45:18 +0000
parents 8621d14fa100
children
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0e62759b5e56 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/poretools commit 506782d1e671505617ff539e6811fcdcc2c02cd5
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1 <tool id="poretools_events" name="Extract nanopore events" version="@VERSION@.1" profile="@PROFILE@">
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2 <description>from a set of sequencing reads</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
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6 <expand macro="bio_tools"/>
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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 poretools events $precalled '$input' > '$output'
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11 ]]>
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12 </command>
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13 <inputs>
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14 <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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15 <param name="precalled" argument="--pre-basecalled" type="boolean" truevalue="--pre-basecalled" falsevalue="" label="Report pre-basecalled events" />
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16 </inputs>
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17 <outputs>
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18 <data name="output" format="tabular" />
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19 </outputs>
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20 <tests>
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21 <test>
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22 <expand macro="test_input" />
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23 <param name="precalled" value="false" />
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24 <output name="output" ftype="tabular">
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25 <assert_contents>
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26 <has_n_lines n="2901"/>
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27 <has_text text="template"/>
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28 <has_text text="complement"/>
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29 <not_has_text text="pre_basecalled"/>
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30 </assert_contents>
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31 </output>
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32 </test>
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33 <test>
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34 <expand macro="test_input" />
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35 <param name="precalled" value="true" />
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36 <output name="output" ftype="tabular">
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37 <assert_contents>
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38 <has_n_lines n="3083"/>
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39 <not_has_text text="template"/>
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40 <not_has_text text="complement"/>
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41 <has_text text="pre_basecalled"/>
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42 </assert_contents>
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43 </output>
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44 </test>
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45 </tests>
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46 <help>
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47 Extract the raw nanopore events from each FAST5 file.
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48 </help>
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49 <expand macro="citations" />
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50 </tool>