1hmmpress(1)                      HMMER Manual                      hmmpress(1)
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NAME

6       hmmpress - prepare an HMM database for hmmscan
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SYNOPSIS

10       hmmpress [options] <hmmfile>
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DESCRIPTION

15       Starting  from  a profile database <hmmfile> in standard HMMER3 format,
16       construct binary compressed datafiles for hmmscan.  The  hmmpress  step
17       is required for hmmscan to work.
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20       Four  files  are  created: <hmmfile>.h3m, <hmmfile>.h3i, <hmmfile>.h3f,
21       and <hmmfile>.h3p.  The <hmmfile>.h3m file contains  the  profile  HMMs
22       and  their annotation in a binary format.  The <hmmfile>.h3i file is an
23       SSI index for the <hmmfile>.h3m file.  The <hmmfile>.h3f file  contains
24       precomputed data structures for the fast heuristic filter (the MSV fil‐
25       ter).  The <hmmfile>.h3p file contains precomputed data structures  for
26       the rest of each profile.
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OPTIONS

32       -h     Help;  print  a  brief  reminder  of  command line usage and all
33              available options.
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36       -f     Force;  overwrites  any  previous  hmmpress'ed  datafiles.   The
37              default  is  to  bitch  about  any existing files and ask you to
38              delete them first.
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SEE ALSO

45       See hmmer(1) for a master man page with a list of  all  the  individual
46       man pages for programs in the HMMER package.
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49       For  complete  documentation,  see  the  user guide that came with your
50       HMMER  distribution  (Userguide.pdf);  or  see  the  HMMER   web   page
51       (@HMMER_URL@).
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57       @HMMER_COPYRIGHT@
58       @HMMER_LICENSE@
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60       For  additional  information  on  copyright and licensing, see the file
61       called COPYRIGHT in your HMMER source distribution, or  see  the  HMMER
62       web page (@HMMER_URL@).
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AUTHOR

67       Eddy/Rivas Laboratory
68       Janelia Farm Research Campus
69       19700 Helix Drive
70       Ashburn VA 20147 USA
71       http://eddylab.org
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75HMMER @HMMER_VERSION@            @HMMER_DATE@                      hmmpress(1)
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