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6
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1 <tool id="ConvertTranscriptFile_SamToGff2" name="Sam -> Gff2">
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2 <description>Convert Sam File to Gff2 File.</description>
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3 <command interpreter="python"> ../Java/Python/convertTranscriptFile.py -i $inputFile -f sam -o $outputFile -g gff2 yes 2>$logFile </command>
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4 <inputs>
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5 <param name="inputFile" type="data" label="Input File" format="sam"/>
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6 </inputs>
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7
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8 <outputs>
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9 <data format="gff" name="outputFile" label="[sam -> gff2] Output File"/>
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10 <data format="txt" name="logFile" label="[sam -> gff2] Log File"/>
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11 </outputs>
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12
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13 <help>
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14 </help>
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15 </tool>
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