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

Uploaded
author timpalpant
date Sat, 19 May 2012 10:36:45 -0400
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children 3e477c7e0e73
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/galaxy-conf/FastqIlluminaToSanger.xml	Sat May 19 10:36:45 2012 -0400
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+<tool id="FastqIlluminaToSanger" name="Convert Fastq qualities" version="1.0.0">
+  <description>from Illumina to Sanger</description>
+  <command interpreter="sh">galaxyToolRunner.sh converters.FastqIlluminaToSanger -i $input -o $output</command>
+  <inputs>
+      <param name="input" type="data" format="fastqillumina" label="FASTQ, Illumina qualities" />
+  </inputs>
+  <outputs>
+      <data name="output" format="fastqsanger" metadata_source="input" />
+  </outputs>
+  <tests>
+	  <test>
+	    <param name="input" value="test.fastqillumina" ftype="fastqillumina"/>
+	    <output name="output" file="test.fastqsanger"/>
+      </test>
+  </tests>
+<help>
+
+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.
+
+.. class:: warningmark
+	
+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.
+
+</help>
+</tool>