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included_runnables.rst

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Standard library of Runnables

Several Runnables are included in the standard eHive distribution, providing a library of components that can be helpful when creating pipelines. All of these are located in the directory modules/Bio/EnsEMBL/Hive/RunnableDB/. In addition, there are Runnables included with the examples under modules/Bio/EnsEMBL/Hive/Examples/. Although those are written to fit into specific example pipelines to illustrate specific eHive concepts, you may find them useful in your own pipelines.

The included examples are:

  • Bio::EnsEMBL::Hive::RunnableDB::DatabaseDumper
  • Bio::EnsEMBL::Hive::RunnableDB::DbCmd
  • Bio::EnsEMBL::Hive::RunnableDB::Dummy
  • Bio::EnsEMBL::Hive::RunnableDB::FastaFactory
  • Bio::EnsEMBL::Hive::RunnableDB::JobFactory
  • Bio::EnsEMBL::Hive::RunnableDB::MySQLTransfer
  • Bio::EnsEMBL::Hive::RunnableDB::NotifyByEmail
  • Bio::EnsEMBL::Hive::RunnableDB::SlackNotification
  • Bio::EnsEMBL::Hive::RunnableDB::SqlCmd
  • Bio::EnsEMBL::Hive::RunnableDB::SqlHealthcheck
  • Bio::EnsEMBL::Hive::RunnableDB::SystemCmd