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1 <tool id="CSAW" name="CSAW" version="0.1.0">
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2 <command detect_errors="exit_code"><![CDATA[
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3 Rscript $__tool_directory__/csaw.R $inputs --output $output
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4 ]]></command>
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5 <inputs>
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6 <param type="data" name="inputs" format="bam" multiple="True" />
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7 </inputs>
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8 <outputs>
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9 <data name="output" format="txt" />
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10 </outputs>
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11 <tests>
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12 <test>
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13 <param name="inputs" value="ENCFF027UTM.bam,ENCFF027UTM_1.bam"/>
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14 <output name="output" file="csaw_results"/>
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15 </test>
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16 </tests>
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17 <help><![CDATA[
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18 Write the tool help section here.
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19 ]]></help>
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20 <citations>
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21 <citation type="bibtex">
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22 @misc{github01_mismatch_removal,
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23 author = {LastTODO, FirstTODO},
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24 year = {TODO},
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25 title = {01_mismatch_removal},
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26 publisher = {GitHub},
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27 journal = {GitHub repository},
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28 url = {https://github.com/dktanwar/Galaxy_Tools/tree/master/01_mismatch_removal},
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29 }</citation>
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30 </citations>
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31 </tool>
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