SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
featureCounts Error: SAM_pairer_osr_next_name: Assertion `rlen < 1024' failed nachocab Bioinformatics 5 12-01-2015 12:41 PM
featureCounts SylvainL Bioinformatics 4 03-16-2015 03:35 AM
featureCounts error heso Bioinformatics 8 11-14-2014 12:14 PM
Bug in featureCounts? brinda Bioinformatics 1 01-23-2014 06:35 PM
Bug in featureCounts? brinda Bioinformatics 1 01-19-2014 04:22 PM

Reply
 
Thread Tools
Old 03-19-2017, 05:08 PM   #1
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 6,190
Default featureCounts error

I am running into a featureCounts error that has been referred to in prior reports (https://www.biostars.org/p/213666/ and http://seqanswers.com/forums/showthread.php?t=64587 etc).
Code:
featureCounts: readSummary.c:1578: process_pairer_header: Assertion `l_name < 100' failed.
It does not appear to have been addressed as far as I can tell. I am using data from a regular Illumina HiSeq 4000 run mapped using BBMap.

@Wei Shi: I will send you a PM in case you don't happen to see this thread.

Last edited by GenoMax; 03-19-2017 at 05:11 PM.
GenoMax is offline   Reply With Quote
Old 03-19-2017, 06:00 PM   #2
shi
Wei Shi
 
Location: Australia

Join Date: Feb 2010
Posts: 234
Default

Sorry about this. Could you please try out the latest version we released a couple of days ago? If the problem persists, we will need to take a look at the data.
shi is offline   Reply With Quote
Old 03-20-2017, 04:12 AM   #3
GenoMax
Senior Member
 
Location: East Coast USA

Join Date: Feb 2008
Posts: 6,190
Default

Hi Wei: New version of subread still has the same error. I just emailed you with a sample of the data.

Last edited by GenoMax; 03-20-2017 at 04:20 AM.
GenoMax is offline   Reply With Quote
Reply

Tags
featurecounts, subread

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 02:00 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2017, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO