- d -

• dangerous_math() : Bio::EnsEMBL::Hive::RunnableDB::FailureTest
• data_dbc() : Bio::EnsEMBL::Hive::Process
• dataflow() : Bio::EnsEMBL::Hive::Accumulator , Bio::EnsEMBL::Hive::NakedTable
• dataflow_output_id() : Bio::EnsEMBL::Hive::AnalysisJob , Bio::EnsEMBL::Hive::Process
• dataflow_rules() : Bio::EnsEMBL::Hive::AnalysisJob
• dataflow_rules_collection() : Bio::EnsEMBL::Hive::Analysis
• db() : Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor , Bio::EnsEMBL::Hive::Process
• db_cmd() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf
• db_connect_command() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf
• db_execute_command() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf
• db_handle() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• dbc() : Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor , Bio::EnsEMBL::Hive::DBSQL::DBAdaptor , Bio::EnsEMBL::Hive::DBSQL::StatementHandle , Bio::EnsEMBL::Hive::Process
• dbconn_2_mysql() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf
• dbconn_2_pgsql() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf
• dbconn_2_url() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf
• dbID() : Bio::EnsEMBL::Hive::Storable
• dbname() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• debug() : Bio::EnsEMBL::Hive::Process , Bio::EnsEMBL::Hive::Worker
• decrease_required_workers() : Bio::EnsEMBL::Hive::DBSQL::AnalysisStatsAdaptor
• decrease_running_workers() : Bio::EnsEMBL::Hive::DBSQL::AnalysisStatsAdaptor
• decrease_semaphore_count_for_jobid() : Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor
• default_config_files() : Bio::EnsEMBL::Hive::Utils::Config
• default_input_column_mapping() : Bio::EnsEMBL::Hive::DBSQL::AnalysisStatsAdaptor , Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor
• default_insertion_method() : Bio::EnsEMBL::Hive::DBSQL::AnalysisAdaptor , Bio::EnsEMBL::Hive::DBSQL::AnalysisCtrlRuleAdaptor , Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor , Bio::EnsEMBL::Hive::DBSQL::DataflowRuleAdaptor , Bio::EnsEMBL::Hive::DBSQL::ResourceClassAdaptor , Bio::EnsEMBL::Hive::DBSQL::ResourceDescriptionAdaptor , Bio::EnsEMBL::Hive::DBSQL::RoleAdaptor , Bio::EnsEMBL::Hive::Queen
• default_options() : Bio::EnsEMBL::Hive::PipeConfig::ApplyToDatabases_conf , Bio::EnsEMBL::Hive::PipeConfig::EnsemblGeneric_conf , Bio::EnsEMBL::Hive::PipeConfig::FailureTest_conf , Bio::EnsEMBL::Hive::PipeConfig::FastaSplitter_conf , Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf , Bio::EnsEMBL::Hive::PipeConfig::RunListOfCommandsOnFarm_conf , MiniPecanMulti_conf , MiniPecanSingle2_conf , MiniPecanSingle3_conf , MiniPecanSingle_conf
• default_overflow_limit() : Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor , Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor
• default_table_name() : Bio::EnsEMBL::Hive::DBSQL::AccumulatorAdaptor , Bio::EnsEMBL::Hive::DBSQL::AnalysisAdaptor , Bio::EnsEMBL::Hive::DBSQL::AnalysisCtrlRuleAdaptor , Bio::EnsEMBL::Hive::DBSQL::AnalysisDataAdaptor , Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor , Bio::EnsEMBL::Hive::DBSQL::AnalysisStatsAdaptor , Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor , Bio::EnsEMBL::Hive::DBSQL::DataflowRuleAdaptor , Bio::EnsEMBL::Hive::DBSQL::LogMessageAdaptor , Bio::EnsEMBL::Hive::DBSQL::MetaAdaptor , Bio::EnsEMBL::Hive::DBSQL::PipelineWideParametersAdaptor , Bio::EnsEMBL::Hive::DBSQL::ResourceClassAdaptor , Bio::EnsEMBL::Hive::DBSQL::ResourceDescriptionAdaptor , Bio::EnsEMBL::Hive::DBSQL::RoleAdaptor , Bio::EnsEMBL::Hive::Queen
• description() : Bio::EnsEMBL::Hive::Limiter
• destringify() : Bio::EnsEMBL::Hive::Utils
• DESTROY() : Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor , Bio::EnsEMBL::Hive::DBSQL::DBAdaptor , Bio::EnsEMBL::Hive::DBSQL::StatementHandle , Bio::EnsEMBL::Hive::Storable , Bio::EnsEMBL::Hive::URLFactory , Bio::EnsEMBL::Hive::Utils::Collection
• determine_status() : Bio::EnsEMBL::Hive::AnalysisStats
• died() : Bio::EnsEMBL::Hive::Worker
• died_somewhere() : Bio::EnsEMBL::Hive::AnalysisJob
• dir_revhash() : Bio::EnsEMBL::Hive::Utils
• disconnect_count() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• disconnect_if_idle() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• disconnect_when_inactive() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• display_name() : Bio::EnsEMBL::Hive::Analysis , Bio::EnsEMBL::Hive::NakedTable
• display_subgraph() : Bio::EnsEMBL::Hive::Utils::GraphViz
• do() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• do_not_update_columns() : Bio::EnsEMBL::Hive::DBSQL::AnalysisStatsAdaptor , Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor
• done_job_count() : Bio::EnsEMBL::Hive::AnalysisStats
• done_jobs() : Bio::EnsEMBL::Hive::Role
• driver() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection