- r -

• reached() : Bio::EnsEMBL::Hive::Limiter
• read_message() : Bio::EnsEMBL::Hive::GuestProcess
• ready_job_count() : Bio::EnsEMBL::Hive::AnalysisStats
• recalculate_from_job_counts() : Bio::EnsEMBL::Hive::AnalysisStats
• reconnect() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• reconnect_when_lost() : Bio::EnsEMBL::Hive::DBSQL::CoreDBConnection
• refresh() : Bio::EnsEMBL::Hive::AnalysisStats , Bio::EnsEMBL::Hive::DBSQL::ObjectAdaptor
• register_all_workers_dead() : Bio::EnsEMBL::Hive::Queen
• register_attempt() : Bio::EnsEMBL::Hive::Role
• register_worker_death() : Bio::EnsEMBL::Hive::Queen
• release_and_age_job() : Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor
• release_claimed_jobs_from_role() : Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor
• release_undone_jobs_from_role() : Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor
• remove() : Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor
• remove_all() : Bio::EnsEMBL::Hive::DBSQL::BaseAdaptor
• reset_job_by_dbID_and_sync() : Bio::EnsEMBL::Hive::Queen
• reset_jobs_for_analysis_id() : Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor
• reset_or_grab_job_by_dbID() : Bio::EnsEMBL::Hive::DBSQL::AnalysisJobAdaptor
• resource_classes() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf , Bio::EnsEMBL::Hive::PipeConfig::MemlimitTest_conf
• responsible_for_worker() : Bio::EnsEMBL::Hive::Meadow
• restart() : Bio::EnsEMBL::Hive::Utils::Stopwatch
• retry_count() : Bio::EnsEMBL::Hive::AnalysisJob
• retry_throwing_jobs() : Bio::EnsEMBL::Hive::Worker
• role_id() : Bio::EnsEMBL::Hive::AnalysisJob
• root() : Bio::EnsEMBL::Hive::DependentOptions
• run() : Bio::EnsEMBL::Hive::Process , Bio::EnsEMBL::Hive::RunnableDB::DatabaseDumper , Bio::EnsEMBL::Hive::RunnableDB::Dummy , Bio::EnsEMBL::Hive::RunnableDB::FailureTest , Bio::EnsEMBL::Hive::RunnableDB::FastaFactory , Bio::EnsEMBL::Hive::RunnableDB::JobFactory , Bio::EnsEMBL::Hive::RunnableDB::LongMult::AddTogether , Bio::EnsEMBL::Hive::RunnableDB::LongMult::DigitFactory , Bio::EnsEMBL::Hive::RunnableDB::LongMult::PartMultiply , Bio::EnsEMBL::Hive::RunnableDB::MySQLTransfer , Bio::EnsEMBL::Hive::RunnableDB::NotifyByEmail , Bio::EnsEMBL::Hive::RunnableDB::SqlCmd , Bio::EnsEMBL::Hive::RunnableDB::SqlHealthcheck , Bio::EnsEMBL::Hive::RunnableDB::SystemCmd , Bio::EnsEMBL::Hive::Worker
• run_one_batch() : Bio::EnsEMBL::Hive::Worker
• run_pipeline_create_commands() : Bio::EnsEMBL::Hive::PipeConfig::HiveGeneric_conf
• runnable_object() : Bio::EnsEMBL::Hive::Worker
• runtime_msec() : Bio::EnsEMBL::Hive::AnalysisJob
• runWorker() : Bio::EnsEMBL::Hive::Scripts::RunWorker , Bio::EnsEMBL::Hive::Utils::Test