Provided by: ruby-bio_1.4.2-2_all bug

NAME

       br_bioflat.rb — OBDA flat file indexer

SYNOPSIS

       Search:

       br_bioflat.rb [--search]  [options...]

       br_bioflat.rb [--search]  [--location DIR]  [--dbname DBNAME]  [options...]  [KEYWORDS]

       Create index:

       br_bioflat.rb    [--create]     [--location    DIR]     [--dbname    DBNAME]     [--format
       genbank|embl|fasta]  [options...]  [--files FILES...]

       Update index:

       br_bioflat.rb [--update]  [--location  DIR]   [--dbname  DBNAME]   [options...]   [--files
       FILES...]

       Show namespaces:

       br_bioflat.rb [--show-namespaces]  [--location DIR]  [--dbname DBNAME]  [DIR/DBNAME]

       br_bioflat.rb [--show-namespaces]  [--format=CLASS]

       br_bioflat.rb [--show-namespaces]  [--files file]

DESCRIPTION

       This manual page documents briefly the br_bioflat.rb.

       br_bioflat.rb is an OBDA flat file indexer.

OPTIONS

       --search  Search a database for keywords.

       --namespace         --name
                 Only valid with the --search option. Set the search namespace.  You can set this
                 option multiple times to specify more than one namespace.

       --create  Create an index.

       --location
                 Specify the directory.

       --dbname  Specify the name of the database.

       --primary           --secondary
                 Set the primary and secondarynamespace of the index.  Default  primary/secondary
                 namespaces  depend on the format of the flatfiles.  Only valid with the --create
                 option.

       --add-secondary
                 Add secondary namespaces to the default specification. You can use  this  option
                 many times. Only valid with the --create option.

       --update  Update an index

       --sort    Sort  an  index.  You  can set this to a path to an external sorting program, or
                 BUILTIN to use the builtin sort module. This option is only valid with  --create
                 (or --update) and --type flat options.

       --renew   Re-read all flatfiles and update whole index. This option is only valid with the
                 --update option.

       --show-namespaces
                 Display the namespaces for an index file.

AUTHOR

       This manual page was written by David Nusinow dnusinow@debian.org for  the  Debian  system
       (but may be used by others).  Permission is granted to copy, distribute and/or modify this
       document under the terms of the GNU General Public License, Version 2  any  later  version
       published by the Free Software Foundation.

       On  Debian  systems,  the  complete text of the GNU General Public License can be found in
       /usr/share/common-licenses/GPL.

                                                                                       BIORUBY(1)