Go Back   SEQanswers > Applications Forums > RNA Sequencing

Similar Threads
Thread Thread Starter Forum Replies Last Post
problem while using sra tool kit vinila86 Bioinformatics 13 04-02-2014 04:06 PM
my problem with agilent Sureselect methy-seq kit ycding Epigenetics 5 09-03-2012 10:22 PM
TruSeq RNA kit adaptor problem yhuang1 Sample Prep / Library Generation 8 06-26-2012 11:29 PM
Use Capture Library in Human all exon 50MB kit and other Reagents 38MB kit? shinne Sample Prep / Library Generation 2 09-25-2011 07:00 PM
Problem with 454 emPCR kit - lot 93839560 RPiddock 454 Pyrosequencing 0 08-26-2011 05:57 AM

Thread Tools
Old 10-08-2012, 06:45 PM   #1
Location: Michigan

Join Date: Jul 2011
Posts: 10
Default Problem with FastXtool kit

I'm a complete newbie to bioinformatics and have just started analyzing my RNA-seq data (illumina HiSeq2000 100 bp reads) and have hit a snag. I'm trying to run the fastx_quality_stats and I keep getting this error message:

fastx_quality_stats: failed to open input file '/home/vallejov/stevia_R1.fastq': Value too large for defined data type

I get the same message if I try to run fastx_trimmer. Does this mean that my file is too large? my file is 48G. Do I need to parse it? If I parse it, when do I need to merge the output files again?

vallejov is offline   Reply With Quote
Old 10-09-2012, 03:18 AM   #2
Senior Member
Location: East Coast USA

Join Date: Feb 2008
Posts: 7,060

Did you compile the fastx toolkit yourself or get the pre-compiled binaries?

It is possible that you are either using a 32-bit operating system or you downloaded the 32-bit fastx toolkit binaries and thus running into the error above.
GenoMax is offline   Reply With Quote

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 10:30 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO