Question: erro when I run the GlimmerHMM
0
gravatar for fanyucai1
15 months ago by
fanyucai10
fanyucai10 wrote:

when I use GlimmerHMM to predict gene, I get erro message as follows:

sh: line 1: 20291 Segmentation fault (core dumped) /home/fanyucai/software/GlimmerHMM/GlimmerHMM/train/score train.acc train.facc train.don train.fdon score.acc score.don 1 1 1 > res.temp ERROR 69: /home/fanyucai/software/GlimmerHMM/GlimmerHMM/train/score exited funny: 35584 at /home/fanyucai/software/GlimmerHMM/GlimmerHMM/train/trainGlimmerHMM line 445.

how should I fix this erro?

And I find SEQanswers tell me to need change score.c file,but I don't know which line should I change?

gene software error • 562 views
ADD COMMENTlink modified 15 months ago • written 15 months ago by fanyucai10

What is the link to the SEQanswers thread? Are you using the pre-compiled binaries, or did you compile them yourself? What is the command you are running?

ADD REPLYlink modified 15 months ago • written 15 months ago by h.mon26k
0
gravatar for fanyucai1
15 months ago by
fanyucai10
fanyucai10 wrote:

Thank you for your reply. The SEQanswers link as follows: http://seqanswers.com/forums/showthread.php?t=4643

And my command as follows:

trainGlimmerHMM scaffold.fna exon.txt -i 0,40,100 -d out/

scaffold.fna is my assembly genome

exon.txt is exon coordinates from PASA output

I both use the pre-compiled binaries and compile your own system for my unix platform, but all get the same erro message.

ADD COMMENTlink written 15 months ago by fanyucai10
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