Roger Pettett > Bio-Das-ProServer > Bio::Das::ProServer::SourceAdaptor::simpledb

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Module Version: 687   Source  

NAME ^

Bio::Das::ProServer::SourceAdaptor::simpledb - Builds simple DAS features from a database

VERSION ^

$LastChangedRevision: 687 $

SYNOPSIS ^

  Build simple segment:start:stop features from a basic database table structure:

  segmentid,featureid,start,end,type,note,link

DESCRIPTION ^

SUBROUTINES/METHODS ^

capabilities

build_features - Return an array of features based on a query given in the config file

  my @aFeatures = $oSourceAdaptor->build_features({
                                                   segment => $sSegmentId,
                                                   start   => $iSegmentStart, # Optional
                                                   end     => $iSegmentEnd,   # Optional
                                                   dsn     => $sDSN,          # if used as part of a hydra
                                                  });
=head1 DIAGNOSTICS

CONFIGURATION AND ENVIRONMENT ^

  [mysource]
  adaptor   = simpledb
  transport = dbi
  dbhost    = mysql.example.com
  dbport    = 3308
  dbname    = proserver
  dbuser    = proserverro
  dbpass    = topsecret
  dbtable   = mytable

  Or for SourceHydra use:
  [mysimplehydra]
  adaptor   = simpledb           # SourceAdaptor to clone
  hydra     = dbi                # Hydra implementation to use
  transport = dbi
  basename  = hydra              # dbi: basename for db tables containing servable data
  dbname    = proserver
  dbhost    = mysql.example.com
  dbuser    = proserverro
  dbpass    = topscret

DEPENDENCIES ^

 Bio::Das::ProServer::SourceAdaptor

INCOMPATIBILITIES ^

BUGS AND LIMITATIONS ^

AUTHOR ^

$Author: Roger M Pettett$

LICENSE AND COPYRIGHT ^

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.

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