<tool id="ConvertTranscriptFile_FastqToFasta" name="Fastq -> Fasta">
  <description>Convert Fastq File to Fasta File.</description>
  <command interpreter="python"> ../Java/Python/fastqToFasta.py -i $inputFile -o $outputFile 2>$logFile </command>
  <inputs>
    <param name="inputFile" type="data" label="Input File" format="fastq"/>
  </inputs>

  <outputs>
    <data format="fasta" name="outputFile" label="[fastq -> fasta] Output File"/>
    <data format="txt" name="logFile" label="[fastq -> fasta] Log File"/>
  </outputs>

  <help>
  </help>
</tool>