Mercurial > repos > iuc > bedtools

annotate expandBed.xml @ 35:b28e0cfa7ba1 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit fe3f54a0d3edb83fcf6752e3b1524c582b4febd5"
author iuc
date Fri, 06 Sep 2019 14:29:59 -0400
parents dde39ba9c031
children 3e38c9b3214f
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dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
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1 <tool id="bedtools_expandbed" name="bedtools ExpandBed" version="@TOOL_VERSION@">
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2 <description>replicate lines based on lists of values in columns</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="requirements" />
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7 <expand macro="stdio" />
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dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
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8 <command><![CDATA[
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
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9 bedtools expand
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10 -c '${cols}'
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
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11 -i '${input}'
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
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12 > '${output}'
dde39ba9c031 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b68002321ade5e160c556517a98ffb70f068be95
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13 ]]></command>
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14 <inputs>
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15 <param name="input" argument="-i" type="data" format="@STD_BEDTOOLS_INPUTS@" label="@STD_BEDTOOLS_INPUT_LABEL@ file"/>
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16 <expand macro="choose_columns" />
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17 </inputs>
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18 <outputs>
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19 <data name="output" format_source="input" metadata_source="input" />
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20 </outputs>
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21 <tests>
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22 <test>
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23 <param name="input" value="expandBed1.bed" ftype="bed" />
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24 <param name="cols" value="5"/>
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25 <output name="output" file="expandBed_result1.bed" ftype="bed" />
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26 </test>
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27 <test>
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28 <param name="input" value="expandBed1.bed" ftype="bed" />
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29 <param name="cols" value="4,5"/>
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30 <output name="output" file="expandBed_result2.bed" ftype="bed" />
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31 </test>
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32 </tests>
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33 <help><![CDATA[
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34 **What it does**
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35
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36 Replicate lines in a file based on columns of comma-separated values.
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37
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38 @REFERENCES@
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39 ]]></help>
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40 <expand macro="citations" />
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41 </tool>