xenial (1) hmmpress.1.gz

Provided by: hmmer_3.1b2-2_amd64 bug

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 (C) 2015 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