1. Where you are using Galaxy (Main, local or cloud instance, etc.). Site http://main.g2.bx.psu.edu/, on-line.
# The date/time the bug was detected 11-12.03.2012
# Exact steps to reproduce the issue FASTQ Quality Trimmer (version 1.0.0). No posiibility to upload fastq file for treat. Pulldone for uploading does not work. Used browsers -Mozilla Firefox 3.6.6 and IE. OS - Linux Mandiva.
# What troubleshooting steps (if any) you have tested out Using of Windows and Debian browsers. Uploading fastq file to Galaxy witn another application and using FASTQ Groomer on uploading file.
# Request for private communication/discussion (as needed) If problem on my side.
I have a guess:
In the history (right hand column) entry for your FASTQ file, click on the pencil icon to edit the attributes. Try explicitly setting the type of FASTQ, e.g. for Sanger FASTQ Galaxy uses the filetype 'fastqsanger'. This controls how the quality string is interpreted (which is important for quality trimming).
You can also specify this explicitly when you upload a file.
For more about the different FASTQ quality encoding, see: http://dx.doi.org/10.1093/nar/gkp1137 http://en.wikipedia.org/wiki/FASTQ_format
Peter
galaxy-dev@lists.galaxyproject.org
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"Штратникова Виктория" -
Peter Cock