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.

       <hmmfile> may not be '-' (dash); running hmmpress on a standard input stream rather than a
       file is not allowed.

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 ().

COPYRIGHT

       Copyright (C) 2013 Howard Hughes Medical Institute.
       Freely distributed under the GNU General Public License (GPLv3).

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

AUTHOR

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