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hmmpress(1)                      HMMER Manual                      hmmpress(1)


NAME

       hmmpress - prepare an HMM database for hmmscan


SYNOPSIS

       hmmpress [options] <hmmfile>


DESCRIPTION

       Starting from a profile database <hmmfile> in standard HMMER3 format,
       construct binary compressed datafiles for hmmscan.  The hmmpress step
       is required for hmmscan to work.

       Four files are created: <hmmfile>.h3m, <hmmfile>.h3i, <hmmfile>.h3f,
       and <hmmfile>.h3p.  The <hmmfile>.h3m file contains the profile HMMs
       and their annotation in a binary format.  The <hmmfile>.h3i file is an
       SSI index for the <hmmfile>.h3m file.  The <hmmfile>.h3f file contains
       precomputed data structures for the fast heuristic filter (the MSV
       filter).  The <hmmfile>.h3p file contains precomputed data structures
       for the rest of each profile.


OPTIONS

       -h     Help; print a brief reminder of command line usage and all
              available options.

       -f     Force; overwrites any previous hmmpress'ed datafiles. The
              default is to bitch about any existing files and ask you to
              delete them first.


SEE ALSO

       See hmmer(1) for a master man page with a list of all the individual
       man pages for programs in the HMMER package.

       For complete documentation, see the user guide that came with your
       HMMER distribution (Userguide.pdf); or see the HMMER web page
       (@HMMER_URL@).


COPYRIGHT

       @HMMER_COPYRIGHT@
       @HMMER_LICENSE@

       For additional information on copyright and licensing, see the file
       called COPYRIGHT in your HMMER source distribution, or see the HMMER
       web page (@HMMER_URL@).


AUTHOR

       Eddy/Rivas Laboratory
       Janelia Farm Research Campus
       19700 Helix Drive
       Ashburn VA 20147 USA
       http://eddylab.org

HMMER @HMMER_VERSION@            @HMMER_DATE@                      hmmpress(1)

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