Mercurial > repos > mcharles > rapsosnp
comparison rapsodyn/PrepareFastqLight.xml~ @ 7:3f7b0788a1c4 draft
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| author | mcharles |
|---|---|
| date | Tue, 07 Oct 2014 10:34:34 -0400 |
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| 6:1776b8ddd87e | 7:3f7b0788a1c4 |
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| 1 <tool id="PrepareFastqLight" name="PrepareFastqLight" version="1.01"> | |
| 2 <description>Fastq preparation</description> | |
| 3 <command interpreter="perl"> | |
| 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 $min_length | |
| 5 </command> | |
| 6 <inputs> | |
| 7 <param name="input_read1_file" type="data" format="txt,fastq" label="Select a suitable FASTQ READ 1 file from your history"/> | |
| 8 <param name="input_read2_file" type="data" format="txt,fastq" label="Select a suitable FASTQ READ 2 file from your history"/> | |
| 9 <param name="quality_type" type="select" label="Select input quality format"> | |
| 10 <option value="sanger">Sanger</option> | |
| 11 <option value="illumina">Illumina 1.3-1.7</option> | |
| 12 </param> | |
| 13 <param name="min_quality" type="integer" value="30" label="Minimum quality for 5' and 3' trimming "/> | |
| 14 <param name="min_length" type="integer" value="30" label="Minimum sequence length after trimming"/> | |
| 15 </inputs> | |
| 16 <outputs> | |
| 17 <data name="output_read1_file" format="fastqsanger" label="${tool.name} on ${on_string}"/> | |
| 18 <data name="output_read2_file" format="fastqsanger" label="${tool.name} on ${on_string}"/> | |
| 19 <data name="log_file" format="txt" label="${tool.name} LOG on ${on_string}"/> | |
| 20 </outputs> | |
| 21 | |
| 22 <help> | |
| 23 | |
| 24 | |
| 25 | |
| 26 </help> | |
| 27 </tool> |