Hi Chris,

Are you able to share a copy of the offending file? Perhaps by uploading to the 
public Galaxy server, possibly trying the Grooming step there, and then sharing 
the history with me or by using the bug report option on the Grooming step if 
it fails?

If not, you could look at the output created (the error dataset) and use e.g. 
tail to find out the last few fastq blocks that were successfully processed or 
wc -l to find out the number of lines written, and then use grep -C or a 
combination of head/tail to look at the original file and see if anything is 
amiss.


Thanks for using Galaxy,

Dan


On Oct 10, 2012, at 6:28 PM, Chris Merrikh wrote:

> Hi, I'm trying to solve an issue I'm having with my local installation of 
> Galaxy (installed on my own computer, rather than on a server). I'm using 
> data in the form of fastq files from an Illumina Hi-seq and I want Galaxy to 
> parse the bar coded sequences out into individual files for me. I've been 
> using the public server in the past, and I'm able to use the Groomer, Joiner, 
> Reverse-Complement, Trimmer, and Barcode Splitter tools just fine. Now I'm 
> trying to do the same thing locally on the same files. Both the large file 
> (38 GB) and a smaller file consisting of the first 10k lines will upload just 
> fine. However, I can only get the Groomer to work on the small file. When I 
> use it on the large file I get an error: "Error executing tool: maximum 
> recursion depth exceeded while calling a Python object." 
> 
> Any help on this would be greatly appreciated!
> 
> - Chris M.
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