Bio::Das::ProServer::SourceAdaptor::edgeexpress - Bio::Das::ProServer::SourceAdaptor::edgeexpress documentation


EdgeExpressDB documentation  | view source Contained in the EdgeExpressDB distribution.

Index


NAME

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 Bio::Das::ProServer::SourceAdaptor::edgeexpress
 Auto-config ProServer that talks with an EdgeExpress database

VERSION

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$LastChangedRevision: 2 $

SYNOPSIS

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 An auto-config ProServer that talks with an EdgeExpress database
  - auto-configs segments and sources from the database
  - Builds simple DAS features from the EdgeExpress database
  - uses EdgeExpress perl API for enhanced speed and smart caching

DESCRIPTION

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capabilities

DIAGNOSTICS

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CONFIGURATION AND ENVIRONMENT

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  [my_eedb]
  state          = on
  adaptor        = edgeexpress
  transport      = edgeexpress
  eedb_url       = mysql://<user>:<pass>@<host>:<port optional>/<database_name>
  assembly       = <assembly name as used in the eeDB>  #eeDB is multi_species, each DAS source is not
  description    = description of the EdgeExpressDB this is configured for

DEPENDENCIES

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 ProServer
   Bio::Das::ProServer::SourceAdaptor

 EdgeExpress
   EEDB::FeatureSource;
   EEDB::Feature;
   EEDB::Assembly;
   EEDB::Chrom;

INCOMPATIBILITIES

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BUGS AND LIMITATIONS

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AUTHOR

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 Jessica Severin <severin@gsc.riken.jp>.

LICENSE AND COPYRIGHT

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APPENDIX

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 The rest of the documentation details each of the object methods. 
 Internal methods are usually preceded with a _

SUBROUTINES/METHODS

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EdgeExpressDB documentation  | view source Contained in the EdgeExpressDB distribution.