comparison galaxy-conf/FastqIlluminaToSanger.xml @ 13:eb53be9a09f4 draft

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author timpalpant
date Sat, 19 May 2012 10:36:45 -0400
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12:81d5b81fb3c2 13:eb53be9a09f4
1 <tool id="FastqIlluminaToSanger" name="Convert Fastq qualities" version="1.0.0">
2 <description>from Illumina to Sanger</description>
3 <command interpreter="sh">galaxyToolRunner.sh converters.FastqIlluminaToSanger -i $input -o $output</command>
4 <inputs>
5 <param name="input" type="data" format="fastqillumina" label="FASTQ, Illumina qualities" />
6 </inputs>
7 <outputs>
8 <data name="output" format="fastqsanger" metadata_source="input" />
9 </outputs>
10 <tests>
11 <test>
12 <param name="input" value="test.fastqillumina" ftype="fastqillumina"/>
13 <output name="output" file="test.fastqsanger"/>
14 </test>
15 </tests>
16 <help>
17
18 This tool will convert a FASTQ file with ASCII quality scores encoded in Illumina 1.3 format (Phred+64) to Sanger format (Phred+33). It is a simpler, faster version of the FASTQ Groomer.
19
20 .. class:: warningmark
21
22 This tool requires fastqillumina formatted data. If you have tabular data that was not correctly autodetected, change the metadata by clicking on the pencil icon for the dataset.
23
24 </help>
25 </tool>