basic::options::OptionKeys::run Namespace Reference

Namespaces
	PyMOLMover

Variables
BooleanOptionKey const	run
FileVectorOptionKey const	batches
BooleanOptionKey const	no_prof_info_in_silentout
BooleanOptionKey const	archive
IntegerOptionKey const	n_replica
BooleanOptionKey const	shuffle
IntegerOptionKey const	n_cycles
IntegerOptionKey const	repeat
IntegerOptionKey const	max_min_iter
IntegerOptionKey const	maxruntime
RealOptionKey const	maxruntime_bufferfactor
BooleanOptionKey const	write_failures
BooleanOptionKey const	benchmark
BooleanOptionKey const	test_cycles
BooleanOptionKey const	memory_test_cycles
BooleanOptionKey const	dry_run
BooleanOptionKey const	debug
BooleanOptionKey const	profile
IntegerOptionKey const	max_retry_job
BooleanOptionKey const	version
BooleanOptionKey const	nodelay
IntegerOptionKey const	delay
IntegerOptionKey const	random_delay
BooleanOptionKey const	timer
StringOptionKey const	chain
BooleanOptionKey const	score_only
BooleanOptionKey const	decoystats
BooleanOptionKey const	output_hbond_info
RealOptionKey const	wide_nblist_extension
BooleanOptionKey const	constant_seed
IntegerOptionKey const	jran
BooleanOptionKey const	use_time_as_seed
StringOptionKey const	rng_seed_device
IntegerOptionKey const	seed_offset
StringOptionKey const	rng
BooleanOptionKey const	rebuild_disulf
BooleanOptionKey const	preserve_header
BooleanOptionKey const	suppress_checkpoints
BooleanOptionKey const	checkpoint
BooleanOptionKey const	delete_checkpoints
IntegerOptionKey const	checkpoint_interval
StringOptionKey const	protocol
BooleanOptionKey const	remove_ss_length_screen
StringOptionKey const	min_type
RealOptionKey const	min_tolerance
BooleanOptionKey const	nblist_autoupdate
RealOptionKey const	nblist_autoupdate_narrow
RealOptionKey const	nblist_autoupdate_wide
BooleanOptionKey const	skip_set_reasonable_fold_tree
BooleanOptionKey const	randomize_missing_coords
BooleanOptionKey const	ignore_zero_occupancy
IntegerOptionKey const	cycles_outer
IntegerOptionKey const	cycles_inner
IntegerOptionKey const	repack_rate
BooleanOptionKey const	reinitialize_mover_for_each_job
BooleanOptionKey const	reinitialize_mover_for_new_input
BooleanOptionKey const	multiple_processes_writing_to_one_directory
StringOptionKey const	jobdist_miscfile_ext
BooleanOptionKey const	no_scorefile
BooleanOptionKey const	other_pose_to_scorefile
FileOptionKey const	other_pose_scorefile
BooleanOptionKey const	intermediate_scorefiles
BooleanOptionKey const	intermediate_structures
BooleanOptionKey const	idealize_before_protocol
BooleanOptionKey const	interactive
BooleanOptionKey const	nosignal
BooleanOptionKey const	crash_to_console
BooleanOptionKey const	condor
IntegerOptionKey const	nproc
IntegerOptionKey const	proc_id
BooleanOptionKey const	exit_if_missing_heavy_atoms
RealOptionKey const	show_simulation_in_pymol
BooleanOptionKey const	update_pymol_on_energy_changes_only
BooleanOptionKey const	update_pymol_on_conformation_changes_only
BooleanOptionKey const	keep_pymol_simulation_history

Variable Documentation

archive

BooleanOptionKey const basic::options::OptionKeys::run::archive

extern

batches

FileVectorOptionKey const basic::options::OptionKeys::run::batches

extern

Referenced by add_rosetta_options_0(), and main().

benchmark

BooleanOptionKey const basic::options::OptionKeys::run::benchmark

extern

chain

StringOptionKey const basic::options::OptionKeys::run::chain

extern

Referenced by main().

checkpoint

BooleanOptionKey const basic::options::OptionKeys::run::checkpoint

extern

Referenced by main().

checkpoint_interval

IntegerOptionKey const basic::options::OptionKeys::run::checkpoint_interval

extern

Referenced by main(), and run().

condor

BooleanOptionKey const basic::options::OptionKeys::run::condor

extern

Referenced by protocols::abinitio::JumpSpecificAbrelax::do_distributed_rerun(), and protocols::abinitio::JumpSpecificAbrelax::register_options().

constant_seed

BooleanOptionKey const basic::options::OptionKeys::run::constant_seed

extern

crash_to_console

BooleanOptionKey const basic::options::OptionKeys::run::crash_to_console

extern

cycles_inner

IntegerOptionKey const basic::options::OptionKeys::run::cycles_inner

extern

cycles_outer

IntegerOptionKey const basic::options::OptionKeys::run::cycles_outer

extern

debug

BooleanOptionKey const basic::options::OptionKeys::run::debug

extern

Referenced by main().

decoystats

BooleanOptionKey const basic::options::OptionKeys::run::decoystats

extern

delay

IntegerOptionKey const basic::options::OptionKeys::run::delay

extern

delete_checkpoints

BooleanOptionKey const basic::options::OptionKeys::run::delete_checkpoints

extern

dry_run

BooleanOptionKey const basic::options::OptionKeys::run::dry_run

extern

exit_if_missing_heavy_atoms

BooleanOptionKey const basic::options::OptionKeys::run::exit_if_missing_heavy_atoms

extern

idealize_before_protocol

BooleanOptionKey const basic::options::OptionKeys::run::idealize_before_protocol

extern

ignore_zero_occupancy

BooleanOptionKey const basic::options::OptionKeys::run::ignore_zero_occupancy

extern

interactive

BooleanOptionKey const basic::options::OptionKeys::run::interactive

extern

intermediate_scorefiles

BooleanOptionKey const basic::options::OptionKeys::run::intermediate_scorefiles

extern

intermediate_structures

BooleanOptionKey const basic::options::OptionKeys::run::intermediate_structures

extern

jobdist_miscfile_ext

StringOptionKey const basic::options::OptionKeys::run::jobdist_miscfile_ext

extern

jran

IntegerOptionKey const basic::options::OptionKeys::run::jran

extern

keep_pymol_simulation_history

BooleanOptionKey const basic::options::OptionKeys::run::keep_pymol_simulation_history

extern

Referenced by main().

max_min_iter

IntegerOptionKey const basic::options::OptionKeys::run::max_min_iter

extern

max_retry_job

IntegerOptionKey const basic::options::OptionKeys::run::max_retry_job

extern

Referenced by check_option_conflicts(), and fill_required_options().

maxruntime

IntegerOptionKey const basic::options::OptionKeys::run::maxruntime

extern

maxruntime_bufferfactor

RealOptionKey const basic::options::OptionKeys::run::maxruntime_bufferfactor

extern

memory_test_cycles

BooleanOptionKey const basic::options::OptionKeys::run::memory_test_cycles

extern

min_tolerance

RealOptionKey const basic::options::OptionKeys::run::min_tolerance

extern

Referenced by place_waters_and_minimize().

min_type

StringOptionKey const basic::options::OptionKeys::run::min_type

extern

Referenced by FloppyTailMover::apply(), HECTMover::apply(), UBQ_E2Mover::apply(), HotspotPlacementMover::apply(), UBQ_GTPase_disulfide_Mover::apply(), FixbbJobQueen::complete_larval_job_maturation(), main(), and place_waters_and_minimize().

multiple_processes_writing_to_one_directory

BooleanOptionKey const basic::options::OptionKeys::run::multiple_processes_writing_to_one_directory

extern

n_cycles

IntegerOptionKey const basic::options::OptionKeys::run::n_cycles

extern

Referenced by main(), DockGlycansProtocol::register_options(), GlycomutagenesisProtocol::set_commandline_options(), and DockGlycansProtocol::set_commandline_options().

n_replica

IntegerOptionKey const basic::options::OptionKeys::run::n_replica

extern

nblist_autoupdate

BooleanOptionKey const basic::options::OptionKeys::run::nblist_autoupdate

extern

nblist_autoupdate_narrow

RealOptionKey const basic::options::OptionKeys::run::nblist_autoupdate_narrow

extern

nblist_autoupdate_wide

RealOptionKey const basic::options::OptionKeys::run::nblist_autoupdate_wide

extern

no_prof_info_in_silentout

BooleanOptionKey const basic::options::OptionKeys::run::no_prof_info_in_silentout

extern

Referenced by protocols::abinitio::JumpSpecificAbrelax::do_distributed_rerun(), protocols::abinitio::JumpSpecificAbrelax::fold(), and protocols::abinitio::JumpSpecificAbrelax::register_options().

no_scorefile

BooleanOptionKey const basic::options::OptionKeys::run::no_scorefile

extern

nodelay

BooleanOptionKey const basic::options::OptionKeys::run::nodelay

extern

nosignal

BooleanOptionKey const basic::options::OptionKeys::run::nosignal

extern

nproc

IntegerOptionKey const basic::options::OptionKeys::run::nproc

extern

other_pose_scorefile

FileOptionKey const basic::options::OptionKeys::run::other_pose_scorefile

extern

other_pose_to_scorefile

BooleanOptionKey const basic::options::OptionKeys::run::other_pose_to_scorefile

extern

output_hbond_info

BooleanOptionKey const basic::options::OptionKeys::run::output_hbond_info

extern

preserve_header

BooleanOptionKey const basic::options::OptionKeys::run::preserve_header

extern

Referenced by ligand_dock_main_jd1(), main(), match_main(), and register_options().

proc_id

IntegerOptionKey const basic::options::OptionKeys::run::proc_id

extern

Referenced by protocols::abinitio::JumpSpecificAbrelax::do_distributed_rerun(), and protocols::abinitio::JumpSpecificAbrelax::register_options().

profile

BooleanOptionKey const basic::options::OptionKeys::run::profile

extern

Referenced by basic::DynamicProfileThis::DynamicProfileThis(), main(), VallReader::make_nmer_profile(), MSA_design(), basic::prof_reset(), basic::prof_show(), basic::prof_start_function_body(), basic::prof_stop_function_body(), and basic::DynamicProfileThis::~DynamicProfileThis().

protocol

StringOptionKey const basic::options::OptionKeys::run::protocol

extern

Referenced by main().

random_delay

IntegerOptionKey const basic::options::OptionKeys::run::random_delay

extern

randomize_missing_coords

BooleanOptionKey const basic::options::OptionKeys::run::randomize_missing_coords

extern

rebuild_disulf

BooleanOptionKey const basic::options::OptionKeys::run::rebuild_disulf

extern

reinitialize_mover_for_each_job

BooleanOptionKey const basic::options::OptionKeys::run::reinitialize_mover_for_each_job

extern

reinitialize_mover_for_new_input

BooleanOptionKey const basic::options::OptionKeys::run::reinitialize_mover_for_new_input

extern

remove_ss_length_screen

BooleanOptionKey const basic::options::OptionKeys::run::remove_ss_length_screen

extern

repack_rate

IntegerOptionKey const basic::options::OptionKeys::run::repack_rate

extern

repeat

IntegerOptionKey const basic::options::OptionKeys::run::repeat

extern

rng

StringOptionKey const basic::options::OptionKeys::run::rng

extern

Referenced by main().

rng_seed_device

StringOptionKey const basic::options::OptionKeys::run::rng_seed_device

extern

run

BooleanOptionKey const basic::options::OptionKeys::run::run

extern

Referenced by add_rosetta_options_0(), PerformanceBenchmark::execute(), gmtime(), localtime(), main(), relax_cenrot_pose(), and detail::safe_strerror().

score_only

BooleanOptionKey const basic::options::OptionKeys::run::score_only

extern

seed_offset

IntegerOptionKey const basic::options::OptionKeys::run::seed_offset

extern

show_simulation_in_pymol

RealOptionKey const basic::options::OptionKeys::run::show_simulation_in_pymol

extern

Referenced by main().

shuffle

BooleanOptionKey const basic::options::OptionKeys::run::shuffle

extern

skip_set_reasonable_fold_tree

BooleanOptionKey const basic::options::OptionKeys::run::skip_set_reasonable_fold_tree

extern

suppress_checkpoints

BooleanOptionKey const basic::options::OptionKeys::run::suppress_checkpoints

extern

test_cycles

BooleanOptionKey const basic::options::OptionKeys::run::test_cycles

extern

Referenced by main().

timer

BooleanOptionKey const basic::options::OptionKeys::run::timer

extern

update_pymol_on_conformation_changes_only

BooleanOptionKey const basic::options::OptionKeys::run::update_pymol_on_conformation_changes_only

extern

update_pymol_on_energy_changes_only

BooleanOptionKey const basic::options::OptionKeys::run::update_pymol_on_energy_changes_only

extern

use_time_as_seed

BooleanOptionKey const basic::options::OptionKeys::run::use_time_as_seed

extern

version

BooleanOptionKey const basic::options::OptionKeys::run::version

extern

Referenced by ui::task::operator>>(), and ScoreFunctionFingerprintMover::sfxn().

wide_nblist_extension

RealOptionKey const basic::options::OptionKeys::run::wide_nblist_extension

extern

write_failures

BooleanOptionKey const basic::options::OptionKeys::run::write_failures

extern