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15
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1 <tool id="PrepareFastqLight" name="PrepareFastqLight" version="1.02">
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2 <description>Fastq preparation</description>
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3 <command interpreter="perl">
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4 PrepareFastqLight.pl -read1_file $input_read1_file -read2_file $input_read2_file -output1 $output_read1_file -output2 $output_read2_file -log_file $log_file -type $quality_type -min_quality $min_quality -min_length $min_length
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5 </command>
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6 <inputs>
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7 <param name="input_read1_file" type="data" format="txt,fastq" label="Select a suitable FASTQ READ 1 file from your history"/>
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8 <param name="input_read2_file" type="data" format="txt,fastq" label="Select a suitable FASTQ READ 2 file from your history"/>
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9 <param name="quality_type" type="select" label="Select input quality format">
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10 <option value="auto" selected="true">Auto-detect</option>
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11 <option value="sanger">Sanger</option>
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12 <option value="illumina">Illumina 1.3-1.7</option>
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13 </param>
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14 <param name="min_quality" type="integer" value="30" label="Minimum quality for 5' and 3' trimming "/>
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15 <param name="min_length" type="integer" value="30" label="Minimum sequence length after trimming"/>
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16 </inputs>
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17 <outputs>
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18 <data name="output_read1_file" format="fastqsanger" label="${tool.name} on ${on_string}"/>
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19 <data name="output_read2_file" format="fastqsanger" label="${tool.name} on ${on_string}"/>
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20 <data name="log_file" format="txt" label="${tool.name} LOG on ${on_string}"/>
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21 </outputs>
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22
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23 <help>
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24
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25
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26
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27 </help>
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28 </tool>
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