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

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Module Version: 687   Source  

NAME ^

Bio::Das::ProServer::SourceAdaptor::simple

VERSION ^

$Revision: 687 $

SYNOPSIS ^

Builds das from parser genesat tab-delimited flat files of the form:

 gene.name      gene.id

DESCRIPTION ^

SUBROUTINES/METHODS ^

init - Initialise capabilities for this source

  $oSourceAdaptor->init();

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
                                                  });
  my @aFeatures = $oSourceAdaptor->build_features({
                                                   'feature_id' => $sFeatureId,
                                                  });

das_stylesheet - Return a DAS XML stylesheet

  Overrides the superclass method to return a hardcoded XML DAS stylesheet.

known_segments - Return a list of known entry point segment IDs

  Returns a list of all segment identifiers in the file.

DIAGNOSTICS ^

CONFIGURATION AND ENVIRONMENT ^

DEPENDENCIES ^

 Bio::Das::ProServer::SourceAdaptor
 Carp
 POSIX

INCOMPATIBILITIES ^

BUGS AND LIMITATIONS ^

AUTHOR ^

Andy Jenkinson <andy.jenkinson@ebi.ac.uk>

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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