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soedinglab / MMseqs2

MMseqs2: ultra fast and sensitive search and clustering suite
https://mmseqs.com
MIT License
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Question - HHblits db - cstranslate_mpi command not found #83

Closed adimil closed 6 years ago

adimil commented 6 years ago

I am trying to run hhpred on my clustering results. I have MMseqs2 Version: 9f344f3d6765a1131f22794d9a6fd9fcd8ca2cdf and hhsuite 3.0 installed. But I cant find the last command (cstranslate_mpi) from https://github.com/soedinglab/MMseqs2/wiki#how-to-create-a-hhblits-database

Is it part of mmseqs or hhsuite? Does it need to be installed separately? can I use cstranslate instead?

Thanks, Adi

martin-steinegger commented 6 years ago

cstranslate is part of hhsuite3.0. You can use cstranslate instead but it does not provide MPI support.

milot-mirdita commented 6 years ago

Careful about the parameters though, they are not quite the same for the two tools, if I remember correctly.

I would recommend to install libopenmpi-dev (or your OS equivalent) and rebuild the HH-suite, it will detect the presence of MPI and build cstranslate_mpi, ffindex_apply_mpi, hhblits_mpi etc.

adimil commented 6 years ago

Thanks!

wangyb97 commented 1 year ago

Where to install cstranslate_mpi? I can not find it anywhere. Can someone give me advice? Thanks!