Mercurial > repos > tiagoantao > barcode_stacks
comparison barcode_sort.xml @ 11:2e309e9cacba draft default tip
planemo upload commit 70654da77972b29181d3b388035836b6fa84d59d-dirty
| author | tiagoantao |
|---|---|
| date | Sun, 03 Apr 2016 09:56:55 -0400 |
| parents | f153f82e6d3a |
| children |
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| 10:f153f82e6d3a | 11:2e309e9cacba |
|---|---|
| 1 <tool id="barcode_sort_stacks" name="Barcode sorting for Stacks" version="2.0.1" force_history_refresh="True"> | 1 <tool id="barcode_sort_stacks" name="Barcode sorting for Stacks" version="2.0.2" force_history_refresh="True"> |
| 2 <description>Barcode Sorting with Paired-End reads for Stacks</description> | 2 <description>Barcode Sorting with Paired-End reads for Stacks</description> |
| 3 | 3 |
| 4 <stdio> | 4 <stdio> |
| 5 <exit_code range="1" level="fatal" description="Error in script execution" /> | 5 <exit_code range="1" level="fatal" description="Error in script execution" /> |
| 6 </stdio> | 6 </stdio> |
| 7 | 7 |
| 8 <command interpreter="perl"> | 8 <command interpreter="perl"> |
| 9 | 9 |
| 10 barcode_sort.pl $barcode $f1 $f2 $barcoded $nonbarcoded $barcode_length $cut_site | 10 barcode_sort.pl $barcode $f1 $f2 $barcoded $nonbarcoded true $barcode_length $cut_site $max_errors |
| 11 | 11 |
| 12 </command> | 12 </command> |
| 13 | 13 |
| 14 <inputs> | 14 <inputs> |
| 15 <param name="barcode" format="text" type="data" label="Barcode file" /> | 15 <param name="barcode" format="text" type="data" label="Barcode file" /> |
| 16 <param name="barcode_length" type="integer" value="6" label="Barcode length" /> | 16 <param name="barcode_length" type="integer" value="6" label="Barcode length" /> |
| 17 <param name="f1" type="data" format="fastq" label="First read FASTQ" /> | 17 <param name="f1" type="data" format="fastq" label="First read FASTQ" /> |
| 18 <param name="f2" type="data" format="fastq" label="Second read FASTQ" /> | 18 <param name="f2" type="data" format="fastq" label="Second read FASTQ" /> |
| 19 <param name="cut_site" type="text" value="TGCA" label="Cut site" /> | 19 <param name="cut_site" type="text" value="TGCA" label="Cut site" /> |
| 20 <param name="max_errors" type="integer" value="2" label="Maximum number of errors" /> | |
| 20 </inputs> | 21 </inputs> |
| 21 <outputs> | 22 <outputs> |
| 22 <data format="fastq" name="barcoded" label="Barcoded sequences"/> | 23 <data format="fastq" name="barcoded" label="Barcoded sequences"/> |
| 23 <data format="fastq" name="nonbarcoded" label="Non barcoded sequences"/> | 24 <data format="fastq" name="nonbarcoded" label="Non barcoded sequences"/> |
| 24 </outputs> | 25 </outputs> |