Hi

I used gsnap (gmap-2014-12-24) to map my RNA-seq data. My PC has 16 Gig RAM and 8 core CPU. my used code was:

gsnap \
  -B 4 \
  -s Oar_v3.1.77.splicesites \
  -n 1 \
  -Q \
  -E 1000 \
  -O \
  --nofails \
  --split-output=outputGsnap \
  -A sam \
  --quality-protocol=illumina \
  -D /home/mrb/Genome/Sheep/Ensemble/gsnap \
  -d Oar_v3.1.77 \
  heart-trim-1.fq heart-trim-2.fq

After running it gave me an error:

366820 splicesites are valid...2 entries with distance > 200000 specified for local splice distance...splicetrie_obs has 479961 entries...splicetrie_max has 49036981 entries...done
GMAP modes: pairsearch, indel_knownsplice, terminal, improvement
Starting alignment
Signal received: Segmentation fault
Unable to retrieve request for thread
Aborted

So I really don't know what the problem is. If possible help me. Thanks a lot in advance.

Best