blastp command on the server: the command goes through but the output file stays at 0 B size
0
0
Entering edit mode
4.1 years ago

Hi all

I am trying to run a blastp search on the university server.

The command I typed in was similar to this:

blastp -db nr -outfmt 5 -query (my query file) -out (my output file name) -num_threads 4

Upon pressing enter, the output file gets created. However, after an hour, the output file was still at 0 B size.

I'm really stuck as to what the issue could be. Any suggestions or help?

Kind regards

Kayleigh

blastp server command line • 1.2k views
ADD COMMENT
0
Entering edit mode

Is the program still running ? The nr database is quite big and and 4 threads are not much. Also check you're not running out of memory.

ADD REPLY
0
Entering edit mode

Thank you. I increased the num_threads to 8, and it is running smoothly.

ADD REPLY

Login before adding your answer.

Traffic: 1818 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