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soedinglab / hh-suite

Remote protein homology detection suite.
https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-3019-7
GNU General Public License v3.0
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Error while using hhalign #335

Open ChongLC opened 1 year ago

ChongLC commented 1 year ago

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 commented 1 year ago

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

ChongLC commented 1 year ago

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