Question: hmmsearch error: Failed to open sequence file
gravatar for zoepklein
9 weeks ago by
zoepklein0 wrote:

Hi, I'm trying to run hmmsearch against the Pfam database.

hmmsearch Pfam-A.hmm isoform_AA_0.fa gives me an error "Error: Failed to open sequence file isoform_AA_0.fa for reading"

There's nothing wrong with the file, any ideas why?

pfam hmmsearch hmmer • 204 views
ADD COMMENTlink written 9 weeks ago by zoepklein0

How do you know that there is nothing wrong with the file? An error that you showed clearly indicates that the file is not present in that directory, or is not available for reading. It may help if you show us the output of the following two commands:

ls -al Pfam-A.hmm isoform_AA_0.fa
head -n 2 Pfam-A.hmm isoform_AA_0.fa
ADD REPLYlink written 9 weeks ago by Mensur Dlakic8.2k
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: 1688 users visited in the last hour