I have had the same problem, and am also a newbie to NGS with Illumina. The work-around I found was to download bowtie directly from the website, run it on your local computer, then upload the resulting SAM file for subsequent Galaxy-driven analysis. Not optimal, I know, but if you are in a hurry...
On Tue, Apr 6, 2010 at 1:20 PM, Weng Khong Lim email@example.com wrote:
I'm new to next-gen sequencing, so please be gentle. I've just received a pair of Illumina FASTQ files from the sequencing facility and intend to map them to the hg19 reference genome. I first used the FASTQ Groomer utility to convert the reads into Sanger reads. However, when running Bowtie for Illumina on the resulting dataset under default settings, I received the following error:
An error occurred running this job: *Error aligning sequence. requested number of bytes is more than a Python string can hold*
Can someone help point out my mistake? My history is accessible at http://main.g2.bx.psu.edu/u/wengkhong_lim/h/chip-seq-pilot-batch
Appreciate the help!
Weng Khong, LIM Department of Genetics University of Cambridge E-mail: firstname.lastname@example.org Tel: +447503225832
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