Mercurial > repos > cpt > cpt_cluster_lcbs

annotate cluster_lcbs.xml @ 2:c9e004668d6c draft default tip

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author cpt
date Fri, 05 Jan 2024 05:49:57 +0000
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1 <tool id="edu.tamu.cpt.cluster_lcbs" name="Merge LCBs within a given threshold distance" version="@WRAPPER_VERSION@.0">
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2 <description/>
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3 <macros>
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4 <import>macros.xml</import>
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6 </macros>
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7 <expand macro="requirements"/>
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8 <command detect_errors="aggressive"><![CDATA[
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9 'python $__tool_directory__/cluster_lcbs.py'
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10 @XMFA_INPUT@
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11 '$threshold'
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12 > '$output'
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13 ]]></command>
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14 <inputs>
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15 <expand macro="xmfa_input"/>
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16 <param type="integer" name="threshold" value="50" label="maximum number of nucleotides between LCBs in a cluster"/>
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17 </inputs>
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18 <outputs>
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19 <data format="xmfa" name="output"/>
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20 </outputs>
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21 <help><![CDATA[
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22 **What it does**
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24 Merges LCBs near each other into one LCB. Helps with cluttered-looking data due to multiple LCBs.
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26 **WARNING**
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28 Might not work if you have - strand genes. Need to test.
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30 ]]></help>
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31 <!-- TODO -->
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32 <expand macro="citations"/>
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33 </tool>