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Rosetta
2019.12
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Rosetta
2019.12
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Functions | |
| BooleanOptionKey const | legacy_sewing ("legacy_sewing") |
| FileOptionKey const | model_file_name ("legacy_sewing:model_file_name") |
| FileOptionKey const | score_file_name ("legacy_sewing:score_file_name") |
| FileOptionKey const | new_model_file_name ("legacy_sewing:new_model_file_name") |
| StringOptionKey const | remove_any_dssp ("legacy_sewing:remove_any_dssp") |
| StringOptionKey const | remove_all_dssp ("legacy_sewing:remove_all_dssp") |
| IntegerOptionKey const | min_helix_length ("legacy_sewing:min_helix_length") |
| IntegerOptionKey const | max_helix_length ("legacy_sewing:max_helix_length") |
| IntegerOptionKey const | min_loop_length ("legacy_sewing:min_loop_length") |
| IntegerOptionKey const | max_loop_length ("legacy_sewing:max_loop_length") |
| IntegerOptionKey const | min_strand_length ("legacy_sewing:min_strand_length") |
| IntegerOptionKey const | max_strand_length ("legacy_sewing:max_strand_length") |
| BooleanOptionKey const | leave_models_by_ss_num ("legacy_sewing:leave_models_by_ss_num") |
| IntegerOptionKey const | model_should_have_this_num_of_ss ("legacy_sewing:model_should_have_this_num_of_ss") |
| BooleanOptionKey const | model_should_have_at_least_1_E_at_terminal_segment ("legacy_sewing:model_should_have_at_least_1_E_at_terminal_segment") |
| BooleanOptionKey const | model_should_have_at_least_1_E ("legacy_sewing:model_should_have_at_least_1_E") |
| BooleanOptionKey const | model_should_have_at_least_1_H ("legacy_sewing:model_should_have_at_least_1_H") |
| BooleanOptionKey const | leave_models_with_E_terminal_ss ("legacy_sewing:leave_models_with_E_terminal_ss") |
| BooleanOptionKey const | leave_models_with_H_terminal_ss ("legacy_sewing:leave_models_with_H_terminal_ss") |
| BooleanOptionKey const | leave_antiparallel_way_H_bonded_models_by_terminal_strands ("legacy_sewing:leave_antiparallel_way_H_bonded_models_by_terminal_strands") |
| BooleanOptionKey const | leave_parallel_way_H_bonded_models_by_terminal_strands ("legacy_sewing:leave_parallel_way_H_bonded_models_by_terminal_strands") |
| BooleanOptionKey const | leave_certain_model_ids ("legacy_sewing:leave_certain_model_ids") |
| StringOptionKey const | leave_these_model_ids ("legacy_sewing:leave_these_model_ids") |
| IntegerOptionKey const | box_length ("legacy_sewing:box_length") |
| StringOptionKey const | mode ("legacy_sewing:mode") |
| BooleanOptionKey const | disregard_num_segment_matches ("legacy_sewing:disregard_num_segment_matches") |
| BooleanOptionKey const | do_not_remove_connection_inconsistencies ("legacy_sewing:do_not_remove_connection_inconsistencies") |
| BooleanOptionKey const | score_between_opposite_terminal_segments ("legacy_sewing:score_between_opposite_terminal_segments") |
| IntegerOptionKey const | num_models_to_dump ("legacy_sewing:num_models_to_dump") |
| IntegerVectorOptionKey const | models_to_dump ("legacy_sewing:models_to_dump") |
| IntegerOptionKey const | min_hash_score ("legacy_sewing:min_hash_score") |
| IntegerOptionKey const | max_clash_score ("legacy_sewing:max_clash_score") |
| IntegerOptionKey const | num_segments_to_match ("legacy_sewing:num_segments_to_match") |
| IntegerVectorOptionKey const | match_segments ("legacy_sewing:match_segments") |
| IntegerOptionKey const | max_models ("legacy_sewing:max_models") |
| IntegerOptionKey const | starting_model ("legacy_sewing:starting_model") |
| IntegerOptionKey const | num_procs ("legacy_sewing:num_procs") |
| IntegerOptionKey const | rank ("legacy_sewing:rank") |
| BooleanOptionKey const | hash_tag_only_terminal_Es ("legacy_sewing:hash_tag_only_terminal_Es") |
| StringOptionKey const | assembly_type ("legacy_sewing:assembly_type") |
| IntegerOptionKey const | num_edges_to_follow ("legacy_sewing:num_edges_to_follow") |
| RealOptionKey const | base_native_bonus ("legacy_sewing:base_native_bonus") |
| IntegerOptionKey const | neighbor_cutoff ("legacy_sewing:neighbor_cutoff") |
| BooleanOptionKey const | dump_pdbs ("legacy_sewing:dump_pdbs") |
| BooleanOptionKey const | skip_refinement ("legacy_sewing:skip_refinement") |
| BooleanOptionKey const | skip_filters ("legacy_sewing:skip_filters") |
| RealOptionKey const | min_motif_score ("legacy_sewing:min_motif_score") |
| BooleanOptionKey const | may_add_already_added_model ("legacy_sewing:may_add_already_added_model") |
| RealOptionKey const | offset_bump_dsq ("legacy_sewing:offset_bump_dsq") |
| IntegerOptionKey const | num_repeats ("legacy_sewing:num_repeats") |
| BooleanOptionKey const | repeat ("legacy_sewing:repeat") |
| IntegerVectorOptionKey const | pose_segment_starts ("legacy_sewing:pose_segment_starts") |
| IntegerVectorOptionKey const | pose_segment_ends ("legacy_sewing:pose_segment_ends") |
| BooleanOptionKey const | keep_source_segments ("legacy_sewing:keep_source_segments") |
| FileOptionKey const | partner_pdb ("legacy_sewing:partner_pdb") |
| IntegerVectorOptionKey const | keep_model_residues ("legacy_sewing:keep_model_residues") |
| BooleanOptionKey const | output_alignments_to_file ("legacy_sewing:output_alignments_to_file") |
| IntegerOptionKey const | min_lh_fragments ("legacy_sewing:min_lh_fragments") |
| BooleanOptionKey const | skip_loop_generation ("legacy_sewing:skip_loop_generation") |
| RealOptionKey const | calcium_motif_score_weight ("legacy_sewing:calcium_motif_score_weight") |
| IntegerOptionKey const | max_ss_num ("legacy_sewing:max_ss_num") |
| BooleanOptionKey const | dump_every_model ("legacy_sewing:dump_every_model") |
| StringOptionKey const legacy_sewing::assembly_type | ( | "legacy_sewing:assembly_type" | ) |
| RealOptionKey const legacy_sewing::base_native_bonus | ( | "legacy_sewing:base_native_bonus" | ) |
| IntegerOptionKey const legacy_sewing::box_length | ( | "legacy_sewing:box_length" | ) |
| RealOptionKey const legacy_sewing::calcium_motif_score_weight | ( | "legacy_sewing:calcium_motif_score_weight" | ) |
| BooleanOptionKey const legacy_sewing::disregard_num_segment_matches | ( | "legacy_sewing:disregard_num_segment_matches" | ) |
| BooleanOptionKey const legacy_sewing::do_not_remove_connection_inconsistencies | ( | "legacy_sewing:do_not_remove_connection_inconsistencies" | ) |
| BooleanOptionKey const legacy_sewing::dump_every_model | ( | "legacy_sewing:dump_every_model" | ) |
| BooleanOptionKey const legacy_sewing::dump_pdbs | ( | "legacy_sewing:dump_pdbs" | ) |
| BooleanOptionKey const legacy_sewing::hash_tag_only_terminal_Es | ( | "legacy_sewing:hash_tag_only_terminal_Es" | ) |
| IntegerVectorOptionKey const legacy_sewing::keep_model_residues | ( | "legacy_sewing:keep_model_residues" | ) |
| BooleanOptionKey const legacy_sewing::keep_source_segments | ( | "legacy_sewing:keep_source_segments" | ) |
| BooleanOptionKey const legacy_sewing::leave_antiparallel_way_H_bonded_models_by_terminal_strands | ( | "legacy_sewing:leave_antiparallel_way_H_bonded_models_by_terminal_strands" | ) |
| BooleanOptionKey const legacy_sewing::leave_certain_model_ids | ( | "legacy_sewing:leave_certain_model_ids" | ) |
| BooleanOptionKey const legacy_sewing::leave_models_by_ss_num | ( | "legacy_sewing:leave_models_by_ss_num" | ) |
| BooleanOptionKey const legacy_sewing::leave_models_with_E_terminal_ss | ( | "legacy_sewing:leave_models_with_E_terminal_ss" | ) |
| BooleanOptionKey const legacy_sewing::leave_models_with_H_terminal_ss | ( | "legacy_sewing:leave_models_with_H_terminal_ss" | ) |
| BooleanOptionKey const legacy_sewing::leave_parallel_way_H_bonded_models_by_terminal_strands | ( | "legacy_sewing:leave_parallel_way_H_bonded_models_by_terminal_strands" | ) |
| StringOptionKey const legacy_sewing::leave_these_model_ids | ( | "legacy_sewing:leave_these_model_ids" | ) |
| BooleanOptionKey const legacy_sewing::legacy_sewing | ( | "legacy_sewing" | ) |
| IntegerVectorOptionKey const legacy_sewing::match_segments | ( | "legacy_sewing:match_segments" | ) |
| IntegerOptionKey const legacy_sewing::max_clash_score | ( | "legacy_sewing:max_clash_score" | ) |
| IntegerOptionKey const legacy_sewing::max_helix_length | ( | "legacy_sewing:max_helix_length" | ) |
| IntegerOptionKey const legacy_sewing::max_loop_length | ( | "legacy_sewing:max_loop_length" | ) |
| IntegerOptionKey const legacy_sewing::max_models | ( | "legacy_sewing:max_models" | ) |
| IntegerOptionKey const legacy_sewing::max_ss_num | ( | "legacy_sewing:max_ss_num" | ) |
| IntegerOptionKey const legacy_sewing::max_strand_length | ( | "legacy_sewing:max_strand_length" | ) |
| BooleanOptionKey const legacy_sewing::may_add_already_added_model | ( | "legacy_sewing:may_add_already_added_model" | ) |
| IntegerOptionKey const legacy_sewing::min_hash_score | ( | "legacy_sewing:min_hash_score" | ) |
| IntegerOptionKey const legacy_sewing::min_helix_length | ( | "legacy_sewing:min_helix_length" | ) |
| IntegerOptionKey const legacy_sewing::min_lh_fragments | ( | "legacy_sewing:min_lh_fragments" | ) |
| IntegerOptionKey const legacy_sewing::min_loop_length | ( | "legacy_sewing:min_loop_length" | ) |
| RealOptionKey const legacy_sewing::min_motif_score | ( | "legacy_sewing:min_motif_score" | ) |
| IntegerOptionKey const legacy_sewing::min_strand_length | ( | "legacy_sewing:min_strand_length" | ) |
| StringOptionKey const legacy_sewing::mode | ( | "legacy_sewing:mode" | ) |
| FileOptionKey const legacy_sewing::model_file_name | ( | "legacy_sewing:model_file_name" | ) |
| BooleanOptionKey const legacy_sewing::model_should_have_at_least_1_E | ( | "legacy_sewing:model_should_have_at_least_1_E" | ) |
| BooleanOptionKey const legacy_sewing::model_should_have_at_least_1_E_at_terminal_segment | ( | "legacy_sewing:model_should_have_at_least_1_E_at_terminal_segment" | ) |
| BooleanOptionKey const legacy_sewing::model_should_have_at_least_1_H | ( | "legacy_sewing:model_should_have_at_least_1_H" | ) |
| IntegerOptionKey const legacy_sewing::model_should_have_this_num_of_ss | ( | "legacy_sewing:model_should_have_this_num_of_ss" | ) |
| IntegerVectorOptionKey const legacy_sewing::models_to_dump | ( | "legacy_sewing:models_to_dump" | ) |
| IntegerOptionKey const legacy_sewing::neighbor_cutoff | ( | "legacy_sewing:neighbor_cutoff" | ) |
| FileOptionKey const legacy_sewing::new_model_file_name | ( | "legacy_sewing:new_model_file_name" | ) |
| IntegerOptionKey const legacy_sewing::num_edges_to_follow | ( | "legacy_sewing:num_edges_to_follow" | ) |
| IntegerOptionKey const legacy_sewing::num_models_to_dump | ( | "legacy_sewing:num_models_to_dump" | ) |
| IntegerOptionKey const legacy_sewing::num_procs | ( | "legacy_sewing:num_procs" | ) |
| IntegerOptionKey const legacy_sewing::num_repeats | ( | "legacy_sewing:num_repeats" | ) |
| IntegerOptionKey const legacy_sewing::num_segments_to_match | ( | "legacy_sewing:num_segments_to_match" | ) |
| RealOptionKey const legacy_sewing::offset_bump_dsq | ( | "legacy_sewing:offset_bump_dsq" | ) |
| BooleanOptionKey const legacy_sewing::output_alignments_to_file | ( | "legacy_sewing:output_alignments_to_file" | ) |
| FileOptionKey const legacy_sewing::partner_pdb | ( | "legacy_sewing:partner_pdb" | ) |
| IntegerVectorOptionKey const legacy_sewing::pose_segment_ends | ( | "legacy_sewing:pose_segment_ends" | ) |
| IntegerVectorOptionKey const legacy_sewing::pose_segment_starts | ( | "legacy_sewing:pose_segment_starts" | ) |
| IntegerOptionKey const legacy_sewing::rank | ( | "legacy_sewing:rank" | ) |
| StringOptionKey const legacy_sewing::remove_all_dssp | ( | "legacy_sewing:remove_all_dssp" | ) |
| StringOptionKey const legacy_sewing::remove_any_dssp | ( | "legacy_sewing:remove_any_dssp" | ) |
| BooleanOptionKey const legacy_sewing::repeat | ( | "legacy_sewing:repeat" | ) |
| BooleanOptionKey const legacy_sewing::score_between_opposite_terminal_segments | ( | "legacy_sewing:score_between_opposite_terminal_segments" | ) |
| FileOptionKey const legacy_sewing::score_file_name | ( | "legacy_sewing:score_file_name" | ) |
| BooleanOptionKey const legacy_sewing::skip_filters | ( | "legacy_sewing:skip_filters" | ) |
| BooleanOptionKey const legacy_sewing::skip_loop_generation | ( | "legacy_sewing:skip_loop_generation" | ) |
| BooleanOptionKey const legacy_sewing::skip_refinement | ( | "legacy_sewing:skip_refinement" | ) |
| IntegerOptionKey const legacy_sewing::starting_model | ( | "legacy_sewing:starting_model" | ) |
1.8.7