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protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters Member List

This is the complete list of members for protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters, including all inherited members.

actually_moving_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersvirtual
add_virt_res_as_root() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
add_virt_res_as_root_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
apply_full_to_sub_mapping(utility::vector1< core::Size > const &res_vector)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
apply_full_to_sub_mapping(core::Size const res) const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
block_stack_above_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
block_stack_above_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
block_stack_below_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
block_stack_below_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
calc_rms_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
calc_rms_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
chain_boundaries() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
chain_boundaries_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
const_full_to_sub() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
const_sub_to_full() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
create_sub_to_full_map(std::map< core::Size, core::Size > const &full_to_sub) const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
cutpoint_closed_list() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
cutpoint_closed_list_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
cutpoint_open_list() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
cutpoint_open_list_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
five_prime_chain_break_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
five_prime_chain_break_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
fixed_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
fixed_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
floating_base() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
floating_base_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
floating_base_anchor_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
floating_base_anchor_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
fold_tree() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
fold_tree_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
force_anti_chi_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
force_anti_chi_res_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
force_north_sugar_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
force_north_sugar_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
force_south_sugar_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
force_south_sugar_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
force_syn_chi_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
force_syn_chi_res_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
full_sequence() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
full_sequence_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
full_to_sub()protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
full_to_sub(core::Size const i) const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
full_to_sub_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
gap_size() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
gap_size_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
gap_size_to_anchor() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
global_sample_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
global_sample_res_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
input_res_vectors() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
input_res_vectors_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
is_internal() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
is_internal_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
is_moving_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
is_moving_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
is_pre_proline() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
is_prepend() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
is_prepend_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
is_prepend_map() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
is_prepend_map_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
is_simple_full_length_job_params() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
is_simple_full_length_job_params_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
is_working_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
is_working_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
moving_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
moving_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
native_alignment() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
native_alignment_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
output_extra_RMSDs() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
output_extra_RMSDs_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
partition_definition() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
partition_definition_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
protonated_H1_adenosine_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
protonated_H1_adenosine_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
rebuild_bulge_mode() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
rebuild_bulge_mode_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
sample_both_sugar_base_rotamer() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
sample_both_sugar_base_rotamer_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
sequence() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_add_virt_res_as_root(bool const setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_block_stack_above_res(utility::vector1< core::Size > const &block_stack_above_res)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_block_stack_below_res(utility::vector1< core::Size > const &block_stack_below_res)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_calc_rms_res(utility::vector1< core::Size > const &calc_rms_res)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_chain_boundaries(utility::vector1< std::pair< core::Size, core::Size > > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_cutpoint_closed_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_cutpoint_open_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_five_prime_chain_break_res(core::Size const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_fixed_res(utility::vector1< core::Size > const &fixed_res)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_floating_base(bool const setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_floating_base_anchor_res(core::Size const setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_fold_tree(core::kinematics::FoldTree const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_force_anti_chi_res_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_force_north_sugar_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_force_south_sugar_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_force_syn_chi_res_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_full_sequence(std::string const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_full_to_sub(std::map< core::Size, core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
set_gap_size(core::Size const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_global_sample_res_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_input_res_vectors(utility::vector1< utility::vector1< core::Size > > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_is_internal(bool const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_is_moving_res(ObjexxFCL::FArray1D< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_is_prepend(bool const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_is_prepend_map(std::map< core::Size, bool > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_is_simple_full_length_job_params(bool const setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_is_working_res(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_moving_res(core::Size const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_native_alignment(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_output_extra_RMSDs(bool const setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_partition_definition(ObjexxFCL::FArray1D< bool > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_partition_definition(utility::vector1< core::Size > const &partition_definition_vector)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
set_protonated_H1_adenosine_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_rebuild_bulge_mode(bool const setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_sample_both_sugar_base_rotamer(bool const setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_sequence(std::string const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_terminal_res(utility::vector1< core::Size > const &terminal_res)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
set_working_best_alignment(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_working_bridge_res(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_working_calc_rms_res(utility::vector1< core::Size > const &working_calc_rms_res)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_working_fixed_res(utility::vector1< core::Size > const &working_fixed_res)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_working_moving_partition_res(utility::vector1< core::Size > const &working_moving_partition_res)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
set_working_moving_res_list(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
set_working_native_alignment(utility::vector1< core::Size > const &setting)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
set_working_native_pose(core::pose::PoseOP &pose)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
set_working_native_pose(core::pose::PoseCOP pose)protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
set_working_superimpose_res(utility::vector1< core::Size > const &working_superimpose_res)protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
StepWiseBasicWorkingParameters()protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
StepWiseWorkingParameters()protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
sub_to_full()protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
sub_to_full(core::Size const i) const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
sub_to_full_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
terminal_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
terminal_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_best_alignment() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_best_alignment_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_block_stack_above_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_block_stack_above_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_block_stack_below_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_block_stack_below_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_bridge_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_bridge_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_calc_rms_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_calc_rms_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_fixed_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_fixed_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_floating_base_anchor_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
working_force_anti_chi_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_force_anti_chi_res_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_force_north_sugar_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_force_north_sugar_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_force_south_sugar_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_force_south_sugar_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_force_syn_chi_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_force_syn_chi_res_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_global_sample_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_global_sample_res_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_moving_partition_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_moving_partition_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_moving_res() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_moving_res_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_moving_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_moving_res_list_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_moving_suite() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_moving_suite_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_moving_suite_list() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_moving_suite_list_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_native_alignment() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_native_alignment_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_native_pose() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
working_native_pose_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_protonated_H1_adenosine_list() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_protonated_H1_adenosine_list_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_reference_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
working_res_list() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
working_sequence() const protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersinline
working_sequence_protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParametersprotected
working_superimpose_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_superimpose_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
working_terminal_res() const protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersinline
working_terminal_res_protocols::stepwise::modeler::working_parameters::StepWiseWorkingParametersprivate
~StepWiseBasicWorkingParameters() overrideprotocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters
~StepWiseWorkingParameters() overrideprotocols::stepwise::modeler::working_parameters::StepWiseWorkingParameters
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