Question: segmentation fault with SIFT standalone
gravatar for arronslacey
6.0 years ago by
United Kingdom
arronslacey280 wrote:

Hi everyone - I am trying to decipher why I am getting a segmentation fault when trying to use SIFT.


I am using the test fasta file, and substituion file they provide. I am using the swissport database which I can successfully BLAST against on my system.


Here is what I get when trying to use SIFT:


arron@arron-Ideapad-Z570 ~/Phd/programs/sift4.0.3b $ bin/SIFT_for_submitting_fasta_seq.csh test/lacI.fasta db/swissprot.fa test/lacI.subst 2.75
tail is lacI.fasta
query is /home/arron/Phd/programs/sift4.0.3b/tmp/lacI.fasta.query
query length 360
entered read_psiblastuntillat
Segmentation fault
tell me i've entered
cannot open file /home/arron/Phd/programs/sift4.0.3b/tmp/lacI.alignedfasta 
Output in /home/arron/Phd/programs/sift4.0.3b/tmp/lacI.SIFTprediction


I've been trying for the last two hours to find some source code where the error is handled, but I have been unsuccessful. Does anybody have any experience with SIFT segmentation faults, or are able to point me to the source code so that I can see what is going wrong?


Thanks very much.


blast sift • 1.6k views
ADD COMMENTlink modified 6.0 years ago • written 6.0 years ago by arronslacey280
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 910 users visited in the last hour