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1 <tool id="bedtools_bed12tobed6" name="BED12 to BED6" version="@WRAPPER_VERSION@.0">
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2 <description>converter</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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8 <command>
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9 <![CDATA[
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10 bed12ToBed6
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11 -i '$input'
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12 > '$output'
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13 ]]>
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14 </command>
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15 <inputs>
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16 <param format="bed" name="input" type="data" label="Convert the following BED12 file to BED6"/>
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17 </inputs>
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18 <outputs>
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19 <data format="bed" name="output" metadata_source="input" label="${input.name} (as BED6)"/>
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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="bed12.bed" ftype="bed" />
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24 <output name="output" file="bed12ToBed6_result1.bed" ftype="bed" />
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25 </test>
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26 </tests>
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27 <help>
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28 <![CDATA[
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29 **What it does**
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30
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31 bed12ToBed6 is a convenience tool that converts BED features in BED12 (a.k.a. “blocked” BED features such as genes) to discrete BED6 features. For example, in the case of a gene with six exons, bed12ToBed6 would create six separate BED6 features (i.e., one for each exon).
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32
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33 @REFERENCES@
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34 ]]>
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35 </help>
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36 <expand macro="citations" />
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37 </tool>
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