I’m unable to suggest a reason as to why this has happened, other than some
sort of corruption whilst the job was running, but I would point out two things
1. I don’t think you need to run the fastq groomer on your data anyway as it’s
in Illumina 1.8+ format, which should already be in fastqsanger format.
2. It appears that the fastq groomer hasn’t worked as the quality scores
haven’t changed format. (A general question to anyone here – will fastq
groomer change the quality format of reads that are already in fastqsanger
Dr. Graham Etherington
Bioinformatics Support Officer,
The Sainsbury Laboratory,
Norwich Research Park,
Norwich NR4 7UH.
Tel: +44 (0)1603 450601
From: Philippe Moncuquet
Date: Monday, 10 February 2014 03:50
To: Galaxy Dev <firstname.lastname@example.org<mailto:email@example.com>>
Subject: [galaxy-dev] Error introduced with Fastq Groomer
Some unexpected symbols were introduced while grooming my fastq file
I relaunch this step without being able to reproduce the bug. Any ideas about
this problem ? Have you guys came across the same problem before ?
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