Error while using hhalign

[ChongLC]

Dear developer,

I am trying to align a query MSA to a template hmm with this command: hhalign -i alignedSeq_1.fasta -t seq.hmm -all -glob -v 0 -opsi hhalign_result_1.psi

Unfortunately, it gave me an error:

13:31:05.495 ERROR: Use of HMMER format as input will result in severe loss of sensitivity!


[1]+  Segmentation fault      (core dumped) hhalign -i alignedSeq_1.fasta -t seq.hmm -all -glob -v 0 -opsi hhalign_result_1.psi

I am using hh-suite 3.3.0 version.

Any suggestion to tackle this issue?

Best regards, Chong

[ToHanwei]

Try building a HMM profile using hhmake, and Instead of the "seq.hmm" file on your command line.

[ChongLC]

@ToHanwei The seq.hmm is an HMM profile file built using hhmake.