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1 <tool id="merge" name="Merge Collections" version="1.0.0">
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2 <description>
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3 Merge a Collection of Files
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4 </description>
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5 <command>
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6
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7 touch list_of_files.txt;
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8 #for $f in $data_collection:
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9 echo $f >> list_of_files.txt;
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10 #end for
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11
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12 Rscript $__tool_directory__/merge.R list_of_files.txt $order $output $header 2>&1;
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13
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14 </command>
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15 <inputs>
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16 <param type="data_collection" format="txt" collection_type="list" name="data_collection"/>
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17 <param type="data" format="txt" name="order" label="Contig Order File"/>
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18 <param type="boolean" name="header" label="Do Files Contain Headers?" checked="True" truevalue="TRUE" falsevalue="FALSE"/>
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19 </inputs>
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20 <outputs>
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21 <data format="txt" name="output"/>
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22 </outputs>
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23 </tool>
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