Mercurial > repos > devteam > fastx_barcode_splitter

comparison fastx_barcode_splitter.xml @ 1:c5300ff2aa1e

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Removed excess version attributes.
author Dave Bouvier <dave@bx.psu.edu>
date Tue, 03 Dec 2013 12:36:13 -0500
parents a12850d0559b
children c46a5807f2b6
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0:a12850d0559b 1:c5300ff2aa1e
4 <requirement type="package" version="0.0.13">fastx_toolkit</requirement> 4 <requirement type="package" version="0.0.13">fastx_toolkit</requirement>
5 </requirements> 5 </requirements>
6 <command interpreter="bash">fastx_barcode_splitter_galaxy_wrapper.sh $BARCODE $input "$input.name" "$output.files_path" --mismatches $mismatches --partial $partial $EOL > $output </command> 6 <command interpreter="bash">fastx_barcode_splitter_galaxy_wrapper.sh $BARCODE $input "$input.name" "$output.files_path" --mismatches $mismatches --partial $partial $EOL > $output </command>
7 7
8 <inputs> 8 <inputs>
9 <param format="txt" version="1.0.0" name="BARCODE" type="data" label="Barcodes to use" /> 9 <param format="txt" name="BARCODE" type="data" label="Barcodes to use" />
10 <param format="fasta,fastqsanger,fastqsolexa,fastqillumina" version="1.0.0" name="input" type="data" label="Library to split" /> 10 <param format="fasta,fastqsanger,fastqsolexa,fastqillumina" name="input" type="data" label="Library to split" />
11 11
12 <param version="1.0.0" name="EOL" type="select" label="Barcodes found at"> 12 <param name="EOL" type="select" label="Barcodes found at">
13 <option value="--bol">Start of sequence (5' end)</option> 13 <option value="--bol">Start of sequence (5' end)</option>
14 <option value="--eol">End of sequence (3' end)</option> 14 <option value="--eol">End of sequence (3' end)</option>
15 </param> 15 </param>
16 16
17 <param version="1.0.0" name="mismatches" type="integer" size="3" value="2" label="Number of allowed mismatches" /> 17 <param name="mismatches" type="integer" size="3" value="2" label="Number of allowed mismatches" />
18 18
19 <param version="1.0.0" name="partial" type="integer" size="3" value="0" label="Number of allowed barcodes nucleotide deletions" /> 19 <param name="partial" type="integer" size="3" value="0" label="Number of allowed barcodes nucleotide deletions" />
20 20
21 </inputs> 21 </inputs>
22 22
23 <tests> 23 <tests>
24 <test> 24 <test>
25 <!-- Split a FASTQ file --> 25 <!-- Split a FASTQ file -->
26 <param version="1.0.0" name="BARCODE" value="fastx_barcode_splitter1.txt" /> 26 <param name="BARCODE" value="fastx_barcode_splitter1.txt" />
27 <param version="1.0.0" name="input" value="fastx_barcode_splitter1.fastq" ftype="fastqsolexa" /> 27 <param name="input" value="fastx_barcode_splitter1.fastq" ftype="fastqsolexa" />
28 <param version="1.0.0" name="EOL" value="Start of sequence (5' end)" /> 28 <param name="EOL" value="Start of sequence (5' end)" />
29 <param version="1.0.0" name="mismatches" value="2" /> 29 <param name="mismatches" value="2" />
30 <param version="1.0.0" name="partial" value="0" /> 30 <param name="partial" value="0" />
31 <output version="1.0.0" name="output" file="fastx_barcode_splitter1.out" /> 31 <param name="output" file="fastx_barcode_splitter1.out" />
32 </test> 32 </test>
33 </tests> 33 </tests>
34 34
35 <outputs> 35 <outputs>
36 <data format="html" version="1.0.0" name="output" /> 36 <data format="html" name="output" />
37 </outputs> 37 </outputs>
38 <help> 38 <help>
39 39
40 **What it does** 40 **What it does**
41 41