Hi I'm trying to run a remote blastn search from linux command line.
Here's my working syntax for doing this with blastcl3, which is now deprecated:
blastcl3 -p blastn -i seqs.fasta -p blastn -d nr -o blast.out -T -K 1
I'm trying to translate this to the new blast+ syntax.
This is what I thought should work:
blastn -task blastn -remote -db nr -query suspected.seqs.fasta -evalue 0.00001 -dust no -max_target_seqs 1 -html -out output.blastn.html
but what happens is that the computer hangs for about 20 min and then spews the following error about 100 times:
Error: Error: internal_error: (Severe Error) Blast search error: Details: search failed. # Informational Message: [blastsrv4.REAL]: Error: CPU usage limit was exceeded, resulting in SIGXCPU (24).
any suggestions?
Thanks
Roey
Here's my working syntax for doing this with blastcl3, which is now deprecated:
blastcl3 -p blastn -i seqs.fasta -p blastn -d nr -o blast.out -T -K 1
I'm trying to translate this to the new blast+ syntax.
This is what I thought should work:
blastn -task blastn -remote -db nr -query suspected.seqs.fasta -evalue 0.00001 -dust no -max_target_seqs 1 -html -out output.blastn.html
but what happens is that the computer hangs for about 20 min and then spews the following error about 100 times:
Error: Error: internal_error: (Severe Error) Blast search error: Details: search failed. # Informational Message: [blastsrv4.REAL]: Error: CPU usage limit was exceeded, resulting in SIGXCPU (24).
any suggestions?
Thanks
Roey
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