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protocols::jd3::standard::StandardJobQueen Member List

This is the complete list of members for protocols::jd3::standard::StandardJobQueen, including all inherited members.

add_option(utility::options::OptionKey const &key)protocols::jd3::standard::StandardJobQueenprotected
add_options(utility::options::OptionKeyList const &opts)protocols::jd3::standard::StandardJobQueenprotected
allow_pose_inputter(pose_inputters::PoseInputterCreatorOP creator)protocols::jd3::standard::StandardJobQueenprotected
allow_pose_outputter(pose_outputters::PoseOutputterCreatorOP creator)protocols::jd3::standard::StandardJobQueenprotected
append_common_tag_subelements(utility::tag::XMLSchemaDefinition &xsd, utility::tag::XMLSchemaComplexTypeGenerator &ct_gen) constprotocols::jd3::standard::StandardJobQueenprotectedvirtual
append_job_tag_subelements(utility::tag::XMLSchemaDefinition &job_definition_xsd, utility::tag::XMLSchemaComplexTypeGenerator &ct_gen) constprotocols::jd3::standard::StandardJobQueenprotectedvirtual
assign_output_index(protocols::jd3::LarvalJobCOP larval_job, ResultIndex result_index_for_job, core::Size n_results_for_job, JobOutputIndex &output_index)protocols::jd3::standard::StandardJobQueenprotectedvirtual
build_output_index(protocols::jd3::LarvalJobCOP larval_job, ResultIndex result_index_for_job, core::Size n_results_for_job)protocols::jd3::standard::StandardJobQueenprotected
cl_outputters_protocols::jd3::standard::StandardJobQueenprivate
common_block_precedes_job_blocks_protocols::jd3::standard::StandardJobQueenprivate
common_block_tags() constprotocols::jd3::standard::StandardJobQueenprotected
common_block_tags_protocols::jd3::standard::StandardJobQueenprivate
complete_larval_job_maturation(protocols::jd3::LarvalJobCOP larval_job, utility::options::OptionCollectionCOP job_options, utility::vector1< JobResultCOP > const &input_job_results)=0protocols::jd3::standard::StandardJobQueenprotectedpure virtual
completed_job_summary(LarvalJobCOP job, ResultIndex result_index, JobSummaryOP summary) overrideprotocols::jd3::standard::StandardJobQueenvirtual
concatenate_all_options() constprotocols::jd3::standard::StandardJobQueenprivate
create_and_init_inner_larval_job_from_preliminary(core::Size nstruct, PrelimJobNodeID prelim_job_node, JobDAGNodeID job_node) constprotocols::jd3::standard::StandardJobQueenprotected
create_and_set_initial_job_dag()protocols::jd3::JobQueen
create_and_store_output_specification_for_job_result(LarvalJobCOP job, ResultIndex result_index, core::Size nresults)protocols::jd3::standard::StandardJobQueenprotected
create_and_store_output_specification_for_job_result(LarvalJobCOP job, utility::options::OptionCollection const &job_options, ResultIndex result_index, core::Size nresults)protocols::jd3::standard::StandardJobQueenprotected
create_initial_job_dag() overrideprotocols::jd3::standard::StandardJobQueenprotectedvirtual
create_inner_larval_job(core::Size nstruct, JobDAGNodeID job_node, PrelimJobNodeID preliminary_job_node) constprotocols::jd3::standard::StandardJobQueenprotectedvirtual
create_larval_job(InnerLarvalJobOP job, NStructIndex nstruct_index, core::Size larval_job_index)protocols::jd3::standard::StandardJobQueenprotectedvirtual
create_output_specification_for_job_result(LarvalJobCOP job, utility::options::OptionCollection const &job_options, ResultIndex result_index, core::Size nresults)protocols::jd3::standard::StandardJobQueenprotectedvirtual
curr_inner_larval_job_index_protocols::jd3::standard::StandardJobQueenprivate
current_job_index() constprotocols::jd3::standard::StandardJobQueenprotected
deallocation_messages() overrideprotocols::jd3::standard::StandardJobQueenvirtual
default_outputter_creator_protocols::jd3::standard::StandardJobQueenprivate
derived_process_deallocation_message(deallocation::DeallocationMessageOP message)protocols::jd3::standard::StandardJobQueenprotectedvirtual
determine_job_list(JobDAGNodeID job_dag_node_index, core::Size max_njobs) overrideprotocols::jd3::standard::StandardJobQueenvirtual
determine_job_list_and_track(JobDAGNodeID job_dag_node_index, core::Size max_njobs)protocols::jd3::JobQueen
determine_preliminary_job_list()protocols::jd3::standard::StandardJobQueenprotectedvirtual
determine_preliminary_job_list_from_command_line()protocols::jd3::standard::StandardJobQueenprivate
determine_preliminary_job_list_from_xml_file(std::string const &job_def_string)protocols::jd3::standard::StandardJobQueen
determine_preliminary_job_list_from_xml_file(std::string const &job_def_string, std::string const &job_def_schema)protocols::jd3::standard::StandardJobQueenprivate
do_not_accept_all_pose_inputters_from_factory()protocols::jd3::standard::StandardJobQueenprotected
do_not_accept_all_pose_outputters_from_factory()protocols::jd3::standard::StandardJobQueenprotected
expand_job_list(InnerLarvalJobOP inner_job, core::Size max_larval_jobs_to_create)protocols::jd3::standard::StandardJobQueenprotectedvirtual
flush() overrideprotocols::jd3::standard::StandardJobQueenvirtual
get_job_graph() constprotocols::jd3::JobQueenprotected
get_job_tracker()protocols::jd3::JobQueenprotected
get_job_tracker() constprotocols::jd3::JobQueenprotected
get_outputter_from_job_tag(utility::tag::TagCOP tag) constprotocols::jd3::standard::StandardJobQueenprivate
get_prelim_larval_job_tracker()protocols::jd3::standard::StandardJobQueenprotected
get_prelim_larval_job_tracker() constprotocols::jd3::standard::StandardJobQueenprotected
get_preliminary_larval_jobs() constprotocols::jd3::standard::StandardJobQueenprotected
get_preliminary_larval_jobs_determined() constprotocols::jd3::standard::StandardJobQueenprotected
has_job_previously_been_output(protocols::jd3::LarvalJobCOP job) overrideprotocols::jd3::standard::StandardJobQueenvirtual
inner_larval_jobs_for_curr_prelim_job_protocols::jd3::standard::StandardJobQueenprivate
input_pose_counter_protocols::jd3::standard::StandardJobQueenprivate
input_pose_index_map_protocols::jd3::standard::StandardJobQueenprivate
inputter_creator_list_protocols::jd3::standard::StandardJobQueenprivate
inputter_creators_protocols::jd3::standard::StandardJobQueenprivate
inputter_options_protocols::jd3::standard::StandardJobQueenprivate
job_def_complex_type_name(std::string const &type)protocols::jd3::standard::StandardJobQueenstatic
job_definition_file_tags_protocols::jd3::standard::StandardJobQueenprivate
job_definition_xsd() const overrideprotocols::jd3::standard::StandardJobQueenvirtual
job_graph_protocols::jd3::JobQueenprivate
job_results_that_should_be_discarded() overrideprotocols::jd3::standard::StandardJobQueenvirtual
job_tracker_protocols::jd3::JobQueenprivate
JobQueen()protocols::jd3::JobQueen
jobs_that_should_be_output() overrideprotocols::jd3::standard::StandardJobQueenvirtual
load_job_definition_file(std::string const &job_def_string, std::string const &job_def_schema)protocols::jd3::standard::StandardJobQueenprivate
load_starting_poses_only_once_protocols::jd3::standard::StandardJobQueenprivate
mature_larval_job(protocols::jd3::LarvalJobCOP job, utility::vector1< JobResultCOP > const &input_job_results) overrideprotocols::jd3::standard::StandardJobQueenvirtual
next_batch_of_larval_jobs_for_job_node(JobDAGNodeID job_dag_node_index, core::Size max_njobs)protocols::jd3::standard::StandardJobQueenprotectedvirtual
next_batch_of_larval_jobs_from_prelim(PrelimJobNodeID job_node_index, core::Size max_njobs)protocols::jd3::standard::StandardJobQueenprivate
njobs_made_for_curr_inner_larval_job_protocols::jd3::standard::StandardJobQueenprivate
note_job_completed(LarvalJobCOP job, JobStatus status, core::Size nresults) overrideprotocols::jd3::standard::StandardJobQueenvirtual
note_job_completed_and_track(LarvalJobCOP job, JobStatus status, core::Size nresults)protocols::jd3::JobQueen
note_job_result_discarded(LarvalJobCOP job, ResultIndex result_index)protocols::jd3::standard::StandardJobQueenprivate
note_preliminary_job_node_is_complete(PrelimJobNodeID pjn_index)protocols::jd3::standard::StandardJobQueenprotectedvirtual
options_protocols::jd3::standard::StandardJobQueenprivate
options_for_job(InnerLarvalJob const &inner_job) constprotocols::jd3::standard::StandardJobQueenprotected
options_from_tag(utility::tag::TagCOP job_options_tags) constprotocols::jd3::standard::StandardJobQueenprotected
outputter_creator_list_protocols::jd3::standard::StandardJobQueenprivate
outputter_creators_protocols::jd3::standard::StandardJobQueenprivate
outputter_options_protocols::jd3::standard::StandardJobQueenprivate
override_default_outputter_protocols::jd3::standard::StandardJobQueenprivate
parse_job_definition_tags(utility::tag::TagCOP, utility::vector1< PreliminaryLarvalJob > const &)protocols::jd3::standard::StandardJobQueeninlineprotectedvirtual
pose_for_inner_job(InnerLarvalJobCOP inner_job)protocols::jd3::standard::StandardJobQueenprotected
pose_for_inner_job(InnerLarvalJobCOP inner_job, utility::options::OptionCollection const &options)protocols::jd3::standard::StandardJobQueenprotected
pose_for_job(LarvalJobCOP job, utility::options::OptionCollection const &options)protocols::jd3::standard::StandardJobQueenprotected
pose_inputter_for_job(InnerLarvalJob const &inner_job) constprotocols::jd3::standard::StandardJobQueenprotected
pose_outputter_for_job(InnerLarvalJob const &innerJob)protocols::jd3::standard::StandardJobQueenprotected
pose_outputter_for_job(InnerLarvalJob const &innerJob, utility::options::OptionCollection const &job_options)protocols::jd3::standard::StandardJobQueenprotected
pose_outputter_for_job(pose_outputters::PoseOutputSpecification const &spec)protocols::jd3::standard::StandardJobQueenprotected
pose_outputter_map_protocols::jd3::standard::StandardJobQueenprivate
pose_outputters_protocols::jd3::standard::StandardJobQueenprivate
prelim_job_tracker_protocols::jd3::standard::StandardJobQueenprivate
preliminary_larval_jobs_protocols::jd3::standard::StandardJobQueenprivate
preliminary_larval_jobs_determined_protocols::jd3::standard::StandardJobQueenprivate
process_deallocation_message(deallocation::DeallocationMessageOP message) overrideprotocols::jd3::standard::StandardJobQueenvirtual
read_input_poses_from_command_line()protocols::jd3::standard::StandardJobQueenprivate
recent_successes_protocols::jd3::standard::StandardJobQueenprivate
refine_preliminary_job(PreliminaryLarvalJob const &prelim_job)protocols::jd3::standard::StandardJobQueenprotectedvirtual
remove_default_input_element()protocols::jd3::standard::StandardJobQueenprotected
representative_pose_outputter_map_protocols::jd3::standard::StandardJobQueenprivate
representative_secondary_outputter_map_protocols::jd3::standard::StandardJobQueenprivate
required_initialization_performed_protocols::jd3::standard::StandardJobQueenprivate
resource_definition_xsd() const overrideprotocols::jd3::standard::StandardJobQueenvirtual
result_outputter(output::OutputSpecification const &spec) overrideprotocols::jd3::standard::StandardJobQueenvirtual
secondary_outputter_for_job(InnerLarvalJob const &inner_job, utility::options::OptionCollection const &job_options, std::string const &secondary_outputter_type, utility::tag::TagCOP outputter_tag)protocols::jd3::standard::StandardJobQueenprivate
secondary_outputter_for_job(pose_outputters::PoseOutputSpecification const &)protocols::jd3::standard::StandardJobQueenprivate
secondary_outputter_map_protocols::jd3::standard::StandardJobQueenprivate
secondary_outputter_options_protocols::jd3::standard::StandardJobQueenprivate
secondary_outputters_for_job(InnerLarvalJob const &innerJob, utility::options::OptionCollection const &job_options)protocols::jd3::standard::StandardJobQueenprotected
set_common_block_precedes_job_blocks(bool setting)protocols::jd3::standard::StandardJobQueeninlineprotected
set_default_outputter(pose_outputters::PoseOutputterCreatorOP creator)protocols::jd3::standard::StandardJobQueenprotected
StandardJobQueen()protocols::jd3::standard::StandardJobQueen
update_job_dag(JobDigraphUpdater &updater) overrideprotocols::jd3::standard::StandardJobQueenvirtual
use_factory_provided_pose_inputters_protocols::jd3::standard::StandardJobQueenprivate
use_factory_provided_pose_outputters_protocols::jd3::standard::StandardJobQueenprivate
~JobQueen() overrideprotocols::jd3::JobQueen
~StandardJobQueen() overrideprotocols::jd3::standard::StandardJobQueen