Segmentation fault in consed

michaelbarton · 06-11-2010, 01:50 PM

I have assembled sequence data from half a 454 plate. The data was assembled with newbler and appears to have gaps due to problems resolving repeats e.g. repeated rRNA genes. I've heard that consed's autofinish is particularly useful for untangling these areas. I've tried using autofinish on the .ace file generated by newbler, however this returns a segmentation fault error after generating the first set of primers for closing a gap.

I'm pretty sure I've managed to install consed correctly since I used the biolinux package to do this. Has anyone else encountered this problem?

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06-11-2010, 01:50 PM	#1
michaelbarton Junior Member Location: Oakland, CA Join Date: Jan 2010 Posts: 9	Segmentation fault in consed I have assembled sequence data from half a 454 plate. The data was assembled with newbler and appears to have gaps due to problems resolving repeats e.g. repeated rRNA genes. I've heard that consed's autofinish is particularly useful for untangling these areas. I've tried using autofinish on the .ace file generated by newbler, however this returns a segmentation fault error after generating the first set of primers for closing a gap. I'm pretty sure I've managed to install consed correctly since I used the biolinux package to do this. Has anyone else encountered this problem?