Blastn stopped finishing commands it previously finished
0
0
Entering edit mode
7.0 years ago
Jacob ▴ 10

I was running blastn on the command line queries like this one

blastn -query Acan -db nr -out "blastOutput/AcanHomo sapiens_blast.txt" -evalue 0.00001 -outfmt 6 -entrez_query "Homo sapiens[Organism] AND refseq[filter]" -remote

Were working fine. After I tried to run some commands like

nohup ./script.sh

screen ./script.sh

./script.sh ^Z bg disown %1

The query's no longer finished I also ran about 60 or so queries in a loop. Does blast have some sort of limit for people?

Thank-you

blast blastn screen nohup command-line • 1.5k views
ADD COMMENT
1
Entering edit mode

Are you running more than one -remote instance at the same time? This may be the problem:

The BLAST+ remote service uses a shared resource (the computers at the NCBI), so only one BLAST+ application should run remote searches at a time.

ADD REPLY

Login before adding your answer.

Traffic: 1933 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6