Rosetta 3.3
Functions
run Namespace Reference

Functions

BooleanOptionKey const run ("run")
FileVectorOptionKey const batches ("run:batches")
BooleanOptionKey const no_prof_info_in_silentout ("run:no_prof_info_in_silentout")
BooleanOptionKey const archive ("run:archive")
BooleanOptionKey const shuffle ("run:shuffle")
IntegerOptionKey const n_cycles ("run:n_cycles")
IntegerOptionKey const repeat ("run:repeat")
IntegerOptionKey const max_min_iter ("run:max_min_iter")
IntegerOptionKey const maxruntime ("run:maxruntime")
BooleanOptionKey const write_failures ("run:write_failures")
BooleanOptionKey const clean ("run:clean")
BooleanOptionKey const benchmark ("run:benchmark")
BooleanOptionKey const test_cycles ("run:test_cycles")
BooleanOptionKey const memory_test_cycles ("run:memory_test_cycles")
IntegerOptionKey const benchmark_scale ("run:benchmark_scale")
BooleanOptionKey const dry_run ("run:dry_run")
BooleanOptionKey const debug ("run:debug")
BooleanOptionKey const profile ("run:profile")
IntegerOptionKey const max_retry_job ("run:max_retry_job")
IntegerOptionKey const verbosity ("run:verbosity")
BooleanOptionKey const version ("run:version")
BooleanOptionKey const nodelay ("run:nodelay")
IntegerOptionKey const delay ("run:delay")
IntegerOptionKey const random_delay ("run:random_delay")
BooleanOptionKey const timer ("run:timer")
StringOptionKey const series ("run:series")
StringOptionKey const protein ("run:protein")
StringOptionKey const chain ("run:chain")
BooleanOptionKey const score_only ("run:score_only")
BooleanOptionKey const silent_input ("run:silent_input")
BooleanOptionKey const decoystats ("run:decoystats")
BooleanOptionKey const output_hbond_info ("run:output_hbond_info")
RealOptionKey const wide_nblist_extension ("run:wide_nblist_extension")
BooleanOptionKey const status ("run:status")
BooleanOptionKey const constant_seed ("run:constant_seed")
IntegerOptionKey const jran ("run:jran")
BooleanOptionKey const use_time_as_seed ("run:use_time_as_seed")
StringOptionKey const rng_seed_device ("run:rng_seed_device")
IntegerOptionKey const seed_offset ("run:seed_offset")
StringOptionKey const rng ("run:rng")
IntegerOptionKey const run_level ("run:run_level")
StringOptionKey const verbose ("run:verbose")
BooleanOptionKey const silent ("run:silent")
BooleanOptionKey const regions ("run:regions")
BooleanOptionKey const find_disulf ("run:find_disulf")
BooleanOptionKey const rebuild_disulf ("run:rebuild_disulf")
BooleanOptionKey const movie ("run:movie")
BooleanOptionKey const trajectory ("run:trajectory")
BooleanOptionKey const IUPAC ("run:IUPAC")
BooleanOptionKey const preserve_header ("run:preserve_header")
BooleanOptionKey const evolution ("run:evolution")
BooleanOptionKey const suppress_checkpoints ("run:suppress_checkpoints")
BooleanOptionKey const checkpoint ("run:checkpoint")
BooleanOptionKey const delete_checkpoints ("run:delete_checkpoints")
IntegerOptionKey const checkpoint_interval ("run:checkpoint_interval")
StringOptionKey const protocol ("run:protocol")
BooleanOptionKey const remove_ss_length_screen ("run:remove_ss_length_screen")
StringOptionKey const min_type ("run:min_type")
RealOptionKey const min_tolerance ("run:min_tolerance")
BooleanOptionKey const nblist_autoupdate ("run:nblist_autoupdate")
RealOptionKey const nblist_autoupdate_narrow ("run:nblist_autoupdate_narrow")
RealOptionKey const nblist_autoupdate_wide ("run:nblist_autoupdate_wide")
BooleanOptionKey const skip_set_reasonable_fold_tree ("run:skip_set_reasonable_fold_tree")
BooleanOptionKey const randomize_missing_coords ("run:randomize_missing_coords")
BooleanOptionKey const trust_missing_coords ("run:trust_missing_coords")
IntegerOptionKey const cycles_outer ("run:cycles_outer")
IntegerOptionKey const cycles_inner ("run:cycles_inner")
IntegerOptionKey const repack_rate ("run:repack_rate")
BooleanOptionKey const reinitialize_mover_for_each_job ("run:reinitialize_mover_for_each_job")
BooleanOptionKey const reinitialize_mover_for_new_input ("run:reinitialize_mover_for_new_input")
BooleanOptionKey const multiple_processes_writing_to_one_directory ("run:multiple_processes_writing_to_one_directory")
StringOptionKey const jobdist_miscfile_ext ("run:jobdist_miscfile_ext")
BooleanOptionKey const no_scorefile ("run:no_scorefile")
BooleanOptionKey const other_pose_to_scorefile ("run:other_pose_to_scorefile")
FileOptionKey const other_pose_scorefile ("run:other_pose_scorefile")
BooleanOptionKey const intermediate_scorefiles ("run:intermediate_scorefiles")
BooleanOptionKey const intermediate_structures ("run:intermediate_structures")
BooleanOptionKey const idealize_before_protocol ("run:idealize_before_protocol")
BooleanOptionKey const interactive ("run:interactive")
BooleanOptionKey const condor ("run:condor")
IntegerOptionKey const nproc ("run:nproc")
IntegerOptionKey const proc_id ("run:proc_id")
BooleanOptionKey const exit_if_missing_heavy_atoms ("run:exit_if_missing_heavy_atoms")

Function Documentation

BooleanOptionKey const run::archive ( "run:archive"  )
FileVectorOptionKey const run::batches ( "run:batches"  )
BooleanOptionKey const run::benchmark ( "run:benchmark"  )
IntegerOptionKey const run::benchmark_scale ( "run:benchmark_scale"  )

Referenced by main().

StringOptionKey const run::chain ( "run:chain"  )
BooleanOptionKey const run::checkpoint ( "run:checkpoint"  )

Referenced by main().

IntegerOptionKey const run::checkpoint_interval ( "run:checkpoint_interval"  )

Referenced by main().

BooleanOptionKey const run::clean ( "run:clean"  )
BooleanOptionKey const run::condor ( "run:condor"  )
BooleanOptionKey const run::constant_seed ( "run:constant_seed"  )
IntegerOptionKey const run::cycles_inner ( "run:cycles_inner"  )
IntegerOptionKey const run::cycles_outer ( "run:cycles_outer"  )
BooleanOptionKey const run::debug ( "run:debug"  )

Referenced by main().

BooleanOptionKey const run::decoystats ( "run:decoystats"  )
IntegerOptionKey const run::delay ( "run:delay"  )
BooleanOptionKey const run::delete_checkpoints ( "run:delete_checkpoints"  )
BooleanOptionKey const run::dry_run ( "run:dry_run"  )
BooleanOptionKey const run::evolution ( "run:evolution"  )
BooleanOptionKey const run::exit_if_missing_heavy_atoms ( "run:exit_if_missing_heavy_atoms"  )
BooleanOptionKey const run::find_disulf ( "run:find_disulf"  )
BooleanOptionKey const run::idealize_before_protocol ( "run:idealize_before_protocol"  )
BooleanOptionKey const run::interactive ( "run:interactive"  )
BooleanOptionKey const run::intermediate_scorefiles ( "run:intermediate_scorefiles"  )
BooleanOptionKey const run::intermediate_structures ( "run:intermediate_structures"  )
BooleanOptionKey const run::IUPAC ( "run:IUPAC"  )
StringOptionKey const run::jobdist_miscfile_ext ( "run:jobdist_miscfile_ext"  )
IntegerOptionKey const run::jran ( "run:jran"  )
IntegerOptionKey const run::max_min_iter ( "run:max_min_iter"  )
IntegerOptionKey const run::max_retry_job ( "run:max_retry_job"  )
IntegerOptionKey const run::maxruntime ( "run:maxruntime"  )
BooleanOptionKey const run::memory_test_cycles ( "run:memory_test_cycles"  )
RealOptionKey const run::min_tolerance ( "run:min_tolerance"  )
StringOptionKey const run::min_type ( "run:min_type"  )
BooleanOptionKey const run::movie ( "run:movie"  )
BooleanOptionKey const run::multiple_processes_writing_to_one_directory ( "run:multiple_processes_writing_to_one_directory"  )
IntegerOptionKey const run::n_cycles ( "run:n_cycles"  )
BooleanOptionKey const run::nblist_autoupdate ( "run:nblist_autoupdate"  )
RealOptionKey const run::nblist_autoupdate_narrow ( "run:nblist_autoupdate_narrow"  )
RealOptionKey const run::nblist_autoupdate_wide ( "run:nblist_autoupdate_wide"  )
BooleanOptionKey const run::no_prof_info_in_silentout ( "run:no_prof_info_in_silentout"  )
BooleanOptionKey const run::no_scorefile ( "run:no_scorefile"  )
BooleanOptionKey const run::nodelay ( "run:nodelay"  )
IntegerOptionKey const run::nproc ( "run:nproc"  )
FileOptionKey const run::other_pose_scorefile ( "run:other_pose_scorefile"  )
BooleanOptionKey const run::other_pose_to_scorefile ( "run:other_pose_to_scorefile"  )
BooleanOptionKey const run::output_hbond_info ( "run:output_hbond_info"  )
BooleanOptionKey const run::preserve_header ( "run:preserve_header"  )
IntegerOptionKey const run::proc_id ( "run:proc_id"  )
BooleanOptionKey const run::profile ( "run:profile"  )
StringOptionKey const run::protein ( "run:protein"  )
StringOptionKey const run::protocol ( "run:protocol"  )

Referenced by main().

IntegerOptionKey const run::random_delay ( "run:random_delay"  )
BooleanOptionKey const run::randomize_missing_coords ( "run:randomize_missing_coords"  )
BooleanOptionKey const run::rebuild_disulf ( "run:rebuild_disulf"  )
BooleanOptionKey const run::regions ( "run:regions"  )
BooleanOptionKey const run::reinitialize_mover_for_each_job ( "run:reinitialize_mover_for_each_job"  )
BooleanOptionKey const run::reinitialize_mover_for_new_input ( "run:reinitialize_mover_for_new_input"  )
BooleanOptionKey const run::remove_ss_length_screen ( "run:remove_ss_length_screen"  )
IntegerOptionKey const run::repack_rate ( "run:repack_rate"  )
IntegerOptionKey const run::repeat ( "run:repeat"  )
StringOptionKey const run::rng ( "run:rng"  )
StringOptionKey const run::rng_seed_device ( "run:rng_seed_device"  )
BooleanOptionKey const run::run ( "run"  )
IntegerOptionKey const run::run_level ( "run:run_level"  )
BooleanOptionKey const run::score_only ( "run:score_only"  )
IntegerOptionKey const run::seed_offset ( "run:seed_offset"  )
StringOptionKey const run::series ( "run:series"  )
BooleanOptionKey const run::shuffle ( "run:shuffle"  )
BooleanOptionKey const run::silent ( "run:silent"  )
BooleanOptionKey const run::silent_input ( "run:silent_input"  )
BooleanOptionKey const run::skip_set_reasonable_fold_tree ( "run:skip_set_reasonable_fold_tree"  )
BooleanOptionKey const run::status ( "run:status"  )
BooleanOptionKey const run::suppress_checkpoints ( "run:suppress_checkpoints"  )
BooleanOptionKey const run::test_cycles ( "run:test_cycles"  )
BooleanOptionKey const run::timer ( "run:timer"  )

Referenced by distribute_jobs().

BooleanOptionKey const run::trajectory ( "run:trajectory"  )
BooleanOptionKey const run::trust_missing_coords ( "run:trust_missing_coords"  )
BooleanOptionKey const run::use_time_as_seed ( "run:use_time_as_seed"  )
StringOptionKey const run::verbose ( "run:verbose"  )
IntegerOptionKey const run::verbosity ( "run:verbosity"  )
BooleanOptionKey const run::version ( "run:version"  )
RealOptionKey const run::wide_nblist_extension ( "run:wide_nblist_extension"  )
BooleanOptionKey const run::write_failures ( "run:write_failures"  )
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