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public → basic Relation

File in src/apps/publicIncludes file in src/basic
AbinitioRelax.cccitation_manager / CitationCollection.hh
AbinitioRelax.cccitation_manager / CitationManager.hh
AbinitioRelax.ccoptions / option.hh
AbinitioRelax.ccoptions / keys / run.OptionKeys.gen.hh
rna / util / analyze_base_pairing.ccdatacache / BasicDataCache.hh
rna / util / analyze_base_pairing.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / util / analyze_base_pairing.ccoptions / keys / full_model.OptionKeys.gen.hh
rna / util / analyze_base_pairing.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / analyze_base_pairing.ccdatabase / open.hh
rna / util / analyze_base_pairing.ccoptions / option.hh
rna / util / analyze_base_pairing.ccoptions / option_macros.hh
rna / util / analyze_base_pairing.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / analyze_base_pairing.ccoptions / keys / rna.OptionKeys.gen.hh
rna / util / analyze_base_pairing.ccoptions / keys / score.OptionKeys.gen.hh
rna / util / analyze_base_pairing.ccoptions / keys / stepwise.OptionKeys.gen.hh
interface_design / anchored_design / AnchoredDesign.ccTracer.hh
interface_design / anchored_design / AnchoredPDBCreator.ccoptions / option.hh
interface_design / anchored_design / AnchoredPDBCreator.ccTracer.hh
interface_design / anchored_design / AnchorFinder.ccoptions / option.hh
interface_design / anchored_design / AnchorFinder.ccoptions / keys / pose_metrics.OptionKeys.gen.hh
interface_design / anchored_design / AnchorFinder.ccTracer.hh
antibody / antibody_CR_paratope.ccoptions / keys / in.OptionKeys.gen.hh
antibody / antibody_CR_paratope.ccMetricValue.hh
antibody / antibody_CR_paratope.ccTracer.hh
antibody / antibody_designer.ccoptions / keys / antibody.OptionKeys.gen.hh
antibody / antibody_designer.ccoptions / keys / in.OptionKeys.gen.hh
antibody / antibody_designer.ccoptions / option.hh
antibody / antibody_designer.ccoptions / keys / OptionKeys.hh
antibody / antibody_graft.ccoptions / option.hh
antibody / antibody_graft.ccTracer.hh
antibody / antibody_H3.ccoptions / option.hh
antibody / antibody_H3.ccTracer.hh
antibody / antibody_legacy.ccTracer.hh
antibody / antibody_numbering_converter.ccoptions / keys / in.OptionKeys.gen.hh
antibody / antibody_numbering_converter.ccoptions / option.hh
antibody / antibody_numbering_converter.ccoptions / keys / OptionKeys.hh
antibody / antibody_numbering_converter.ccTracer.hh
comparative_modeling / avrg_silent.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / avrg_silent.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / avrg_silent.ccoptions / option.hh
comparative_modeling / avrg_silent.ccoptions / keys / out.OptionKeys.gen.hh
comparative_modeling / avrg_silent.ccoptions / keys / score.OptionKeys.gen.hh
comparative_modeling / avrg_silent.ccTracer.hh
backrub.ccoptions / keys / backrub.OptionKeys.gen.hh
backrub.ccoptions / keys / constraints.OptionKeys.gen.hh
backrub.ccoptions / keys / in.OptionKeys.gen.hh
backrub.ccoptions / option.hh
backrub.ccoptions / option_macros.hh
backrub.ccoptions / keys / out.OptionKeys.gen.hh
backrub.ccoptions / keys / packing.OptionKeys.gen.hh
backrub.ccTracer.hh
sewing / ligand_sewing_tools / backside_hbond_finder.ccdatacache / BasicDataCache.hh
sewing / ligand_sewing_tools / backside_hbond_finder.ccoptions / option.hh
sewing / ligand_sewing_tools / backside_hbond_finder.ccTracer.hh
analysis / batch_distances.ccoptions / keys / james.OptionKeys.gen.hh
analysis / batch_distances.ccoptions / option.hh
analysis / batch_distances.ccTracer.fwd.hh
design / beta_peptide_modeling.ccoptions / keys / in.OptionKeys.gen.hh
design / beta_peptide_modeling.ccoptions / option.hh
design / beta_peptide_modeling.ccoptions / option_macros.hh
design / beta_peptide_modeling.ccoptions / keys / out.OptionKeys.gen.hh
stepwise / build_full_model.ccoptions / keys / chemical.OptionKeys.gen.hh
stepwise / build_full_model.ccoptions / keys / in.OptionKeys.gen.hh
stepwise / build_full_model.ccoptions / option.hh
stepwise / build_full_model.ccoptions / option_macros.hh
stepwise / build_full_model.ccoptions / keys / OptionKeys.hh
stepwise / build_full_model.ccoptions / keys / out.OptionKeys.gen.hh
stepwise / build_full_model.ccoptions / keys / score.OptionKeys.gen.hh
stepwise / build_full_model.ccoptions / keys / stepwise.OptionKeys.gen.hh
stepwise / build_full_model.ccTracer.hh
flexpep_docking / BuildPeptide.ccoptions / keys / in.OptionKeys.gen.hh
flexpep_docking / BuildPeptide.ccoptions / option.hh
flexpep_docking / BuildPeptide.ccoptions / option_macros.hh
flexpep_docking / BuildPeptide.ccoptions / keys / OptionKeys.hh
flexpep_docking / BuildPeptide.ccoptions / keys / out.OptionKeys.gen.hh
flexpep_docking / BuildPeptide.ccTracer.hh
scenarios / ca_to_allatom.ccoptions / after_opts.hh
scenarios / ca_to_allatom.ccoptions / keys / edensity.OptionKeys.gen.hh
scenarios / ca_to_allatom.ccoptions / keys / in.OptionKeys.gen.hh
scenarios / ca_to_allatom.ccoptions / keys / loops.OptionKeys.gen.hh
scenarios / ca_to_allatom.ccoptions / option.hh
scenarios / ca_to_allatom.ccoptions / option_macros.hh
scenarios / ca_to_allatom.ccoptions / keys / out.OptionKeys.gen.hh
scenarios / ca_to_allatom.ccoptions / keys / RBSegmentRelax.OptionKeys.gen.hh
scenarios / ca_to_allatom.ccTracer.hh
nmr / calc_nmr_tensor.ccoptions / keys / in.OptionKeys.gen.hh
nmr / calc_nmr_tensor.ccoptions / keys / nmr.OptionKeys.gen.hh
nmr / calc_nmr_tensor.ccoptions / option.hh
nmr / calc_nmr_tensor.ccoptions / option_macros.hh
nmr / calc_nmr_tensor.ccoptions / keys / out.OptionKeys.gen.hh
nmr / calc_nmr_tensor.ccTracer.hh
calculate_sasa.ccbasic.hh
calculate_sasa.ccoptions / keys / in.OptionKeys.gen.hh
calculate_sasa.ccdatabase / open.hh
calculate_sasa.ccoptions / option.hh
calculate_sasa.ccoptions / util.hh
clustering / calibur.ccoptions / keys / in.OptionKeys.gen.hh
clustering / calibur.ccoptions / option_macros.hh
ddg / cartesian_ddg.ccoptions / after_opts.hh
ddg / cartesian_ddg.ccoptions / keys / ddg.OptionKeys.gen.hh
ddg / cartesian_ddg.ccoptions / keys / in.OptionKeys.gen.hh
ddg / cartesian_ddg.ccdatabase / open.hh
ddg / cartesian_ddg.ccoptions / option_macros.hh
ddg / cartesian_ddg.ccoptions / keys / OptionKeys.hh
ddg / cartesian_ddg.ccoptions / keys / packing.OptionKeys.gen.hh
ddg / cartesian_ddg.ccoptions / keys / score.OptionKeys.gen.hh
ddg / cartesian_ddg.ccTracer.hh
ddg / cartesian_ddg.ccoptions / util.hh
clustering / cluster.ccoptions / keys / cluster.OptionKeys.gen.hh
clustering / cluster.ccoptions / keys / in.OptionKeys.gen.hh
clustering / cluster.ccoptions / option.hh
clustering / cluster.ccoptions / keys / out.OptionKeys.gen.hh
clustering / cluster.ccoptions / keys / symmetry.OptionKeys.gen.hh
combine_silent.ccoptions / keys / in.OptionKeys.gen.hh
combine_silent.ccoptions / option.hh
combine_silent.ccoptions / option_macros.hh
combine_silent.ccoptions / keys / out.OptionKeys.gen.hh
constel.ccoptions / keys / constel.OptionKeys.gen.hh
constel.ccoptions / keys / in.OptionKeys.gen.hh
constel.ccoptions / option.hh
constel.ccoptions / option_macros.hh
constel.ccoptions / keys / out.OptionKeys.gen.hh
constel.ccoptions / keys / run.OptionKeys.gen.hh
constel.ccTracer.hh
constel.ccoptions / util.hh
analysis / contactMap.ccoptions / keys / contactMap.OptionKeys.gen.hh
analysis / contactMap.ccdatacache / DataMap.hh
analysis / contactMap.ccoptions / keys / in.OptionKeys.gen.hh
analysis / contactMap.ccoptions / option.hh
analysis / contactMap.ccoptions / option_macros.hh
analysis / contactMap.ccTracer.hh
cyclic_peptide / count_cycpep_sequences.ccoptions / keys / in.OptionKeys.gen.hh
cyclic_peptide / count_cycpep_sequences.ccoptions / option.hh
cyclic_peptide / count_cycpep_sequences.ccoptions / option_macros.hh
cyclic_peptide / count_cycpep_sequences.ccoptions / keys / OptionKeys.hh
cyclic_peptide / count_cycpep_sequences.ccTracer.hh
coupled_moves / coupled_moves.ccoptions / keys / backrub.OptionKeys.gen.hh
coupled_moves / coupled_moves.ccoptions / keys / constraints.OptionKeys.gen.hh
coupled_moves / coupled_moves.ccoptions / keys / coupled_moves.OptionKeys.gen.hh
coupled_moves / coupled_moves.ccoptions / keys / in.OptionKeys.gen.hh
coupled_moves / coupled_moves.ccoptions / option.hh
coupled_moves / coupled_moves.ccoptions / option_macros.hh
coupled_moves / coupled_moves.ccoptions / keys / out.OptionKeys.gen.hh
coupled_moves / coupled_moves.ccoptions / keys / packing.OptionKeys.gen.hh
coupled_moves / coupled_moves.ccTracer.hh
design / create_clash-based_repack_shell.ccoptions / keys / in.OptionKeys.gen.hh
design / create_clash-based_repack_shell.ccoptions / option.hh
design / create_clash-based_repack_shell.ccoptions / keys / packing.OptionKeys.gen.hh
design / create_clash-based_repack_shell.ccTracer.hh
rna / util / cs_rosetta_rna.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / cs_rosetta_rna.ccdatabase / open.hh
rna / util / cs_rosetta_rna.ccoptions / option.hh
rna / util / cs_rosetta_rna.ccoptions / option_macros.hh
rna / util / cs_rosetta_rna.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / cs_rosetta_rna.ccoptions / keys / rna.OptionKeys.gen.hh
rna / util / cs_rosetta_rna.ccoptions / keys / score.OptionKeys.gen.hh
analysis / cst_info.ccoptions / keys / constraints.OptionKeys.gen.hh
analysis / cst_info.ccoptions / keys / in.OptionKeys.gen.hh
analysis / cst_info.ccoptions / option.hh
analysis / cst_info.ccoptions / keys / OptionKeys.hh
analysis / cst_info.ccoptions / keys / out.OptionKeys.gen.hh
analysis / cst_info.ccTracer.hh
enzdes / CstfileToTheozymePDB.ccoptions / keys / in.OptionKeys.gen.hh
enzdes / CstfileToTheozymePDB.ccoptions / keys / match.OptionKeys.gen.hh
enzdes / CstfileToTheozymePDB.ccoptions / option.hh
enzdes / CstfileToTheozymePDB.ccTracer.hh
enzdes / CstfileToTheozymePDB.ccoptions / util.hh
darc / DARC.ccoptions / keys / fingerprint.OptionKeys.gen.hh
darc / DARC.ccMetricValue.hh
darc / DARC.ccoptions / option_macros.hh
darc / DARC.ccoptions / keys / out.OptionKeys.gen.hh
ddg / ddg_monomer.ccoptions / after_opts.hh
ddg / ddg_monomer.ccoptions / keys / ddg.OptionKeys.gen.hh
ddg / ddg_monomer.ccoptions / keys / in.OptionKeys.gen.hh
ddg / ddg_monomer.ccdatabase / open.hh
ddg / ddg_monomer.ccoptions / option_macros.hh
ddg / ddg_monomer.ccoptions / keys / OptionKeys.hh
ddg / ddg_monomer.ccoptions / keys / packing.OptionKeys.gen.hh
ddg / ddg_monomer.ccoptions / keys / score.OptionKeys.gen.hh
ddg / ddg_monomer.ccTracer.hh
ddg / ddg_monomer.ccoptions / util.hh
electron_density / denovo_density.ccoptions / keys / edensity.OptionKeys.gen.hh
electron_density / denovo_density.ccoptions / keys / in.OptionKeys.gen.hh
electron_density / denovo_density.ccoptions / option.hh
electron_density / denovo_density.ccoptions / option_macros.hh
electron_density / denovo_density.ccoptions / keys / OptionKeys.hh
electron_density / denovo_density.ccoptions / keys / out.OptionKeys.gen.hh
electron_density / denovo_density.ccTracer.hh
electron_density / density_tools.ccoptions / keys / edensity.OptionKeys.gen.hh
electron_density / density_tools.ccoptions / keys / in.OptionKeys.gen.hh
electron_density / density_tools.ccoptions / option.hh
electron_density / density_tools.ccoptions / option_macros.hh
electron_density / density_tools.ccoptions / keys / OptionKeys.hh
electron_density / density_tools.ccTracer.hh
electron_density / density_tools.ccoptions / util.hh
carbohydrates / dock_glycans.ccoptions / keys / constraints.OptionKeys.gen.hh
carbohydrates / dock_glycans.ccoptions / keys / in.OptionKeys.gen.hh
carbohydrates / dock_glycans.ccoptions / option.hh
carbohydrates / dock_glycans.ccoptions / keys / rings.OptionKeys.gen.hh
carbohydrates / dock_glycans.ccoptions / keys / run.OptionKeys.gen.hh
docking / docking_prepack_protocol.ccoptions / keys / docking.OptionKeys.gen.hh
docking / docking_prepack_protocol.ccoptions / option.hh
docking / docking_protocol.ccoptions / keys / docking.OptionKeys.gen.hh
docking / docking_protocol.ccoptions / option.hh
scenarios / doug_dock_design_min_mod2_cal_cal.ccMetricValue.hh
scenarios / doug_dock_design_min_mod2_cal_cal.ccoptions / option.hh
scenarios / doug_dock_design_min_mod2_cal_cal.ccoptions / keys / OptionKeys.hh
scenarios / doug_dock_design_min_mod2_cal_cal.ccoptions / keys / run.OptionKeys.gen.hh
scenarios / doug_dock_design_min_mod2_cal_cal.ccTracer.hh
DRRAFTER / drrafter_error_estimation.ccoptions / keys / in.OptionKeys.gen.hh
DRRAFTER / drrafter_error_estimation.ccoptions / option.hh
DRRAFTER / drrafter_error_estimation.ccoptions / option_macros.hh
DRRAFTER / drrafter_error_estimation.ccoptions / keys / out.OptionKeys.gen.hh
DRRAFTER / drrafter_error_estimation.ccTracer.hh
dump_capped_residue.ccoptions / option.hh
dump_capped_residue.ccoptions / keys / out.OptionKeys.gen.hh
dump_capped_residue.ccresource_manager / ResourceManager.hh
dump_capped_residue.ccoptions / keys / run.OptionKeys.gen.hh
dump_capped_residue.ccTracer.hh
dump_capped_residue.ccoptions / util.hh
sewing / edge_file_generator.ccoptions / keys / in.OptionKeys.gen.hh
sewing / edge_file_generator.ccoptions / option.hh
sewing / edge_file_generator.ccoptions / keys / OptionKeys.hh
sewing / edge_file_generator.ccTracer.hh
clustering / energy_based_clustering.ccTracer.hh
analysis / ensemble_analysis.ccoptions / keys / in.OptionKeys.gen.hh
analysis / ensemble_analysis.ccoptions / option_macros.hh
analysis / ensemble_analysis.ccoptions / keys / out.OptionKeys.gen.hh
analysis / ensemble_analysis.ccTracer.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / after_opts.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccbasic.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / keys / ddg.OptionKeys.gen.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / keys / in.OptionKeys.gen.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccdatabase / open.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / option.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / keys / OptionKeys.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / keys / out.OptionKeys.gen.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / keys / score.OptionKeys.gen.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccTracer.hh
ddg / ensemble_generator_score12_sidechain_ver2.ccoptions / util.hh
enzdes / enzyme_design.ccdatacache / BasicDataCache.hh
enzdes / enzyme_design.ccdatacache / CacheableString.hh
enzdes / enzyme_design.ccoptions / keys / enzdes.OptionKeys.gen.hh
enzdes / enzyme_design.ccoptions / option.hh
enzdes / enzyme_design.ccoptions / keys / out.OptionKeys.gen.hh
enzdes / enzyme_design.ccoptions / keys / run.OptionKeys.gen.hh
enzdes / enzyme_design.ccTracer.hh
rna / erraser / erraser2.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / erraser / erraser2.ccoptions / keys / in.OptionKeys.gen.hh
rna / erraser / erraser2.ccoptions / option.hh
rna / erraser / erraser2.ccoptions / option_macros.hh
rna / erraser / erraser2.ccoptions / keys / OptionKeys.hh
rna / erraser / erraser2.ccoptions / keys / out.OptionKeys.gen.hh
rna / erraser / erraser2.ccoptions / keys / rna.OptionKeys.gen.hh
rna / erraser / erraser2.ccoptions / keys / score.OptionKeys.gen.hh
rna / erraser / erraser2.ccTracer.hh
rna / erraser / erraser_minimizer.ccoptions / keys / edensity.OptionKeys.gen.hh
rna / erraser / erraser_minimizer.ccoptions / keys / in.OptionKeys.gen.hh
rna / erraser / erraser_minimizer.ccoptions / option.hh
rna / erraser / erraser_minimizer.ccoptions / keys / out.OptionKeys.gen.hh
rna / erraser / erraser_minimizer.ccoptions / keys / rna.OptionKeys.gen.hh
rna / erraser / erraser_minimizer.ccoptions / keys / score.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / exposed_strand_finder.ccoptions / keys / in.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / exposed_strand_finder.ccMetricValue.hh
scenarios / beta_strand_homodimer_design / exposed_strand_finder.ccoptions / option.hh
scenarios / beta_strand_homodimer_design / exposed_strand_finder.ccTracer.hh
ligand_docking / extract_atomtree_diffs.ccoptions / keys / enzdes.OptionKeys.gen.hh
ligand_docking / extract_atomtree_diffs.ccoptions / keys / in.OptionKeys.gen.hh
ligand_docking / extract_atomtree_diffs.ccoptions / option.hh
ligand_docking / extract_atomtree_diffs.ccoptions / keys / out.OptionKeys.gen.hh
ligand_docking / extract_atomtree_diffs.ccoptions / keys / run.OptionKeys.gen.hh
ligand_docking / extract_atomtree_diffs.ccTracer.hh
motif_tools / extract_motifs.ccbasic.hh
motif_tools / extract_motifs.ccoptions / keys / in.OptionKeys.gen.hh
motif_tools / extract_motifs.ccoptions / keys / motifs.OptionKeys.gen.hh
motif_tools / extract_motifs.ccoptions / option.hh
motif_tools / extract_motifs.ccoptions / keys / out.OptionKeys.gen.hh
motif_tools / extract_motifs.ccTracer.hh
motif_tools / extract_motifs.ccoptions / util.hh
extract_pdbs.ccoptions / keys / in.OptionKeys.gen.hh
extract_pdbs.ccoptions / option.hh
extract_pdbs.ccoptions / option_macros.hh
extract_pdbs.ccoptions / keys / out.OptionKeys.gen.hh
extract_pdbs.ccoptions / keys / score.OptionKeys.gen.hh
extract_pdbs.ccTracer.hh
analysis / fast_clustering.ccoptions / keys / cluster.OptionKeys.gen.hh
analysis / fast_clustering.ccoptions / keys / in.OptionKeys.gen.hh
analysis / fast_clustering.ccoptions / option_macros.hh
analysis / fast_clustering.ccTracer.hh
comparative_modeling / fast_gap.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / fast_gap.ccoptions / option.hh
comparative_modeling / fast_gap.ccoptions / keys / relax.OptionKeys.gen.hh
comparative_modeling / fast_gap.ccTracer.hh
fiber_diffraction / FiberDiffractionFreeSet.ccoptions / keys / in.OptionKeys.gen.hh
fiber_diffraction / FiberDiffractionFreeSet.ccoptions / option.hh
fiber_diffraction / FiberDiffractionFreeSet.ccoptions / keys / score.OptionKeys.gen.hh
fiber_diffraction / FiberDiffractionFreeSet.ccoptions / keys / symmetry.OptionKeys.gen.hh
fiber_diffraction / FiberDiffractionFreeSet.ccTracer.hh
DRRAFTER / fit_helix_in_map.ccoptions / keys / edensity.OptionKeys.gen.hh
DRRAFTER / fit_helix_in_map.ccoptions / keys / in.OptionKeys.gen.hh
DRRAFTER / fit_helix_in_map.ccoptions / option.hh
DRRAFTER / fit_helix_in_map.ccoptions / option_macros.hh
DRRAFTER / fit_helix_in_map.ccoptions / keys / out.OptionKeys.gen.hh
DRRAFTER / fit_helix_in_map.ccTracer.hh
comparative_modeling / fix_alignment_to_match_pdb.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / fix_alignment_to_match_pdb.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / fix_alignment_to_match_pdb.ccoptions / option.hh
comparative_modeling / fix_alignment_to_match_pdb.ccoptions / keys / out.OptionKeys.gen.hh
comparative_modeling / fix_alignment_to_match_pdb.ccTracer.hh
design / fixbb.ccoptions / keys / in.OptionKeys.gen.hh
design / fixbb.ccoptions / option.hh
design / fixbb.ccoptions / keys / packing.OptionKeys.gen.hh
design / fixbb.ccoptions / keys / run.OptionKeys.gen.hh
design / fixbb.ccoptions / keys / symmetry.OptionKeys.gen.hh
flexpep_docking / FlexPepDocking.ccdatacache / BasicDataCache.hh
flexpep_docking / FlexPepDocking.ccdatacache / CacheableString.hh
flexpep_docking / FlexPepDocking.ccoptions / keys / in.OptionKeys.gen.hh
flexpep_docking / FlexPepDocking.ccoptions / option.hh
flexpep_docking / FlexPepDocking.ccoptions / keys / out.OptionKeys.gen.hh
flexpep_docking / FlexPepDocking.ccoptions / keys / run.OptionKeys.gen.hh
flexpep_docking / FlexPepDocking.ccTracer.hh
scenarios / FloppyTail.ccTracer.hh
fragment_picker.ccoptions / keys / constraints.OptionKeys.gen.hh
fragment_picker.ccoptions / keys / frags.OptionKeys.gen.hh
fragment_picker.ccoptions / keys / in.OptionKeys.gen.hh
fragment_picker.ccoptions / option.hh
fragment_picker.ccoptions / option_macros.hh
fragment_picker.ccoptions / keys / OptionKeys.hh
fragment_picker.ccoptions / keys / out.OptionKeys.gen.hh
fragment_picker.ccprof.hh
fragment_picker.ccTracer.hh
comparative_modeling / full_length_model.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / full_length_model.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / full_length_model.ccoptions / option.hh
comparative_modeling / full_length_model.ccoptions / keys / relax.OptionKeys.gen.hh
comparative_modeling / full_length_model.ccTracer.hh
match / gen_apo_grids.ccoptions / keys / in.OptionKeys.gen.hh
match / gen_apo_grids.ccoptions / option.hh
match / gen_apo_grids.ccoptions / keys / packstat.OptionKeys.gen.hh
match / gen_apo_grids.ccTracer.hh
match / gen_lig_grids.ccoptions / keys / in.OptionKeys.gen.hh
match / gen_lig_grids.ccoptions / option.hh
match / gen_lig_grids.ccoptions / option_macros.hh
match / gen_lig_grids.ccTracer.hh
internal / generate_database_cache.ccoptions / keys / corrections.OptionKeys.gen.hh
internal / generate_database_cache.ccoptions / keys / in.OptionKeys.gen.hh
internal / generate_database_cache.ccoptions / keys / mistakes.OptionKeys.gen.hh
internal / generate_database_cache.ccoptions / option.hh
internal / generate_database_cache.ccTracer.hh
sewing / ligand_sewing_tools / generate_starting_zinc_sites.ccoptions / option.hh
sewing / ligand_sewing_tools / generate_starting_zinc_sites.ccoptions / keys / out.OptionKeys.gen.hh
sewing / ligand_sewing_tools / generate_starting_zinc_sites.ccTracer.hh
carbohydrates / glycan_clash_check.ccoptions / keys / carbohydrates.OptionKeys.gen.hh
carbohydrates / glycan_clash_check.ccoptions / keys / in.OptionKeys.gen.hh
carbohydrates / glycan_clash_check.ccoptions / option.hh
carbohydrates / glycan_clash_check.ccoptions / keys / OptionKeys.hh
carbohydrates / glycan_clash_check.ccTracer.hh
carbohydrates / glycan_info.ccoptions / keys / in.OptionKeys.gen.hh
carbohydrates / glycan_info.ccoptions / option.hh
carbohydrates / glycan_info.ccoptions / keys / OptionKeys.hh
carbohydrates / glycan_info.ccTracer.hh
scenarios / chemically_conjugated_docking / Gp_extra_bodies.hhoptions / keys / chemically_conjugated_docking.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / Gp_extra_bodies.hhoptions / option.hh
scenarios / chemically_conjugated_docking / Gp_extra_bodies.hhTracer.hh
scenarios / chemically_conjugated_docking / Gp_quantification_metrics.hhTracer.hh
electron_density / grower_prep.ccoptions / keys / edensity.OptionKeys.gen.hh
electron_density / grower_prep.ccoptions / keys / in.OptionKeys.gen.hh
electron_density / grower_prep.ccoptions / option.hh
electron_density / grower_prep.ccoptions / option_macros.hh
electron_density / grower_prep.ccoptions / keys / OptionKeys.hh
electron_density / grower_prep.ccoptions / keys / out.OptionKeys.gen.hh
electron_density / grower_prep.ccTracer.hh
electron_density / grower_prep.ccoptions / util.hh
noncanonical_backbones / hbs_design.ccMetricValue.hh
noncanonical_backbones / hbs_design.ccoptions / option.hh
noncanonical_backbones / hbs_design.ccoptions / keys / out.OptionKeys.gen.hh
noncanonical_backbones / hbs_design.ccoptions / keys / run.OptionKeys.gen.hh
noncanonical_backbones / hbs_design.ccTracer.hh
noncanonical_backbones / hbs_design.ccoptions / util.hh
helical_bundle / helical_bundle_predict.cccitation_manager / CitationManager.hh
helical_bundle / helical_bundle_predict.ccoptions / keys / cyclic_peptide.OptionKeys.gen.hh
helical_bundle / helical_bundle_predict.ccoptions / keys / helical_bundle_predict.OptionKeys.gen.hh
helical_bundle / helical_bundle_predict.ccoptions / keys / in.OptionKeys.gen.hh
helical_bundle / helical_bundle_predict.ccoptions / option.hh
helical_bundle / helical_bundle_predict.ccoptions / keys / OptionKeys.hh
helical_bundle / helical_bundle_predict.ccoptions / keys / out.OptionKeys.gen.hh
helical_bundle / helical_bundle_predict.ccTracer.hh
helical_bundle / helical_bundle_predict.cccitation_manager / UnpublishedModuleInfo.hh
membrane / helix_from_sequence.ccoptions / keys / in.OptionKeys.gen.hh
membrane / helix_from_sequence.ccoptions / keys / mp.OptionKeys.gen.hh
membrane / helix_from_sequence.ccoptions / option.hh
membrane / helix_from_sequence.ccoptions / keys / relax.OptionKeys.gen.hh
membrane / helix_from_sequence.ccTracer.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccdatacache / CacheableData.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccoptions / keys / enzdes.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccoptions / keys / in.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccMetricValue.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccoptions / option.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccoptions / keys / packing.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccoptions / keys / run.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccoptions / keys / symmetry.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_design.ccTracer.hh
scenarios / beta_strand_homodimer_design / homodimer_maker.ccoptions / keys / jd2.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_maker.ccoptions / option.hh
scenarios / beta_strand_homodimer_design / homodimer_maker.ccoptions / keys / run.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_maker.ccoptions / keys / score.OptionKeys.gen.hh
scenarios / beta_strand_homodimer_design / homodimer_maker.ccTracer.hh
hydrate / hydrate.ccTracer.hh
idealize_jd2.ccoptions / option.hh
idealize_jd2.ccoptions / option_macros.hh
idealize_jd2.ccoptions / keys / symmetry.OptionKeys.gen.hh
antibody / identify_cdr_clusters.ccoptions / keys / antibody.OptionKeys.gen.hh
antibody / identify_cdr_clusters.ccoptions / option.hh
antibody / identify_cdr_clusters.ccTracer.hh
motif_tools / incorporate_motifs.ccbasic.hh
motif_tools / incorporate_motifs.ccoptions / keys / in.OptionKeys.gen.hh
motif_tools / incorporate_motifs.ccoptions / keys / motifs.OptionKeys.gen.hh
motif_tools / incorporate_motifs.ccoptions / option.hh
motif_tools / incorporate_motifs.ccoptions / keys / out.OptionKeys.gen.hh
motif_tools / incorporate_motifs.ccTracer.hh
motif_tools / incorporate_motifs.ccoptions / util.hh
analysis / interface_energy.ccoptions / option.hh
analysis / interface_energy.ccoptions / option_macros.hh
analysis / interface_energy.ccoptions / keys / out.OptionKeys.gen.hh
analysis / interface_energy.ccTracer.hh
analysis / interface_energy.ccoptions / util.hh
analysis / InterfaceAnalyzer.ccoptions / option.hh
analysis / InterfaceAnalyzer.ccTracer.hh
comparative_modeling / iterhybrid_selector.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / iterhybrid_selector.ccoptions / keys / constraints.OptionKeys.gen.hh
comparative_modeling / iterhybrid_selector.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / iterhybrid_selector.ccoptions / option.hh
comparative_modeling / iterhybrid_selector.ccoptions / keys / out.OptionKeys.gen.hh
comparative_modeling / iterhybrid_selector.ccoptions / keys / score.OptionKeys.gen.hh
comparative_modeling / iterhybrid_selector.ccTracer.hh
ligand_docking / ligand_dock.ccoptions / keys / docking.OptionKeys.gen.hh
ligand_docking / ligand_dock.ccoptions / keys / enzdes.OptionKeys.gen.hh
ligand_docking / ligand_dock.ccoptions / keys / in.OptionKeys.gen.hh
ligand_docking / ligand_dock.ccoptions / keys / jd2.OptionKeys.gen.hh
ligand_docking / ligand_dock.ccoptions / option.hh
ligand_docking / ligand_dock.ccoptions / keys / out.OptionKeys.gen.hh
ligand_docking / ligand_dock.ccoptions / keys / packing.OptionKeys.gen.hh
ligand_docking / ligand_dock.ccTracer.hh
ligand_docking / ligand_rpkmin.ccoptions / keys / docking.OptionKeys.gen.hh
ligand_docking / ligand_rpkmin.ccoptions / keys / in.OptionKeys.gen.hh
ligand_docking / ligand_rpkmin.ccoptions / option_macros.hh
ligand_docking / ligand_rpkmin.ccoptions / keys / out.OptionKeys.gen.hh
ligand_docking / ligand_rpkmin.ccoptions / keys / packing.OptionKeys.gen.hh
nmr / ligand_transform_with_pcs.ccoptions / keys / in.OptionKeys.gen.hh
nmr / ligand_transform_with_pcs.ccoptions / keys / nmr.OptionKeys.gen.hh
nmr / ligand_transform_with_pcs.ccoptions / option.hh
nmr / ligand_transform_with_pcs.ccoptions / option_macros.hh
nmr / ligand_transform_with_pcs.ccoptions / keys / out.OptionKeys.gen.hh
nmr / ligand_transform_with_pcs.ccTracer.hh
loop_modeling / loopmodel.ccoptions / keys / loops.OptionKeys.gen.hh
loop_modeling / loopmodel.ccoptions / option.hh
loop_modeling / loopmodel.ccTracer.hh
pocket / make_exemplar.ccoptions / after_opts.hh
pocket / make_exemplar.ccoptions / keys / docking.OptionKeys.gen.hh
pocket / make_exemplar.ccoptions / keys / in.OptionKeys.gen.hh
pocket / make_exemplar.ccoptions / option.hh
pocket / make_exemplar.ccoptions / option_macros.hh
pocket / make_exemplar.ccoptions / keys / out.OptionKeys.gen.hh
pocket / make_exemplar.ccoptions / keys / pocket_grid.OptionKeys.gen.hh
pocket / make_exemplar.ccoptions / keys / relax.OptionKeys.gen.hh
pocket / make_exemplar.ccTracer.hh
pocket / make_exemplar.ccoptions / util.hh
motif_dock / make_motif_tables.ccoptions / keys / in.OptionKeys.gen.hh
motif_dock / make_motif_tables.ccoptions / keys / mh.OptionKeys.gen.hh
motif_dock / make_motif_tables.ccdatabase / open.hh
motif_dock / make_motif_tables.ccoptions / option_macros.hh
motif_dock / make_motif_tables.ccoptions / keys / out.OptionKeys.gen.hh
motif_dock / make_motif_tables.ccoptions / keys / symmetry.OptionKeys.gen.hh
motif_dock / make_motif_tables.ccTracer.hh
darc / make_ray_files.ccoptions / after_opts.hh
darc / make_ray_files.ccoptions / keys / fingerprint.OptionKeys.gen.hh
darc / make_ray_files.ccoptions / option.hh
darc / make_ray_files.ccoptions / option_macros.hh
darc / make_ray_files.ccoptions / keys / OptionKeys.hh
darc / make_ray_files.ccoptions / keys / out.OptionKeys.gen.hh
darc / make_ray_files.ccoptions / keys / pocket_grid.OptionKeys.gen.hh
darc / make_ray_files.ccTracer.hh
darc / make_ray_files.ccoptions / util.hh
ncaa_utilities / MakeRotLib.ccoptions / keys / make_rot_lib.OptionKeys.gen.hh
ncaa_utilities / MakeRotLib.ccoptions / option.hh
ncaa_utilities / MakeRotLib.ccTracer.hh
match / match.ccoptions / keys / match.OptionKeys.gen.hh
match / match.ccoptions / option.hh
match / match.ccoptions / keys / run.OptionKeys.gen.hh
match / match.ccTracer.hh
match / match.ccoptions / util.hh
membrane_abinitio / membrane_abinitio2.ccoptions / keys / membrane.OptionKeys.gen.hh
membrane_abinitio / membrane_abinitio2.ccoptions / option.hh
sewing / ligand_sewing_tools / metal_site_finder.ccoptions / option.hh
sewing / ligand_sewing_tools / metal_site_finder.ccTracer.hh
magnesium / mg_modeler.ccoptions / keys / in.OptionKeys.gen.hh
magnesium / mg_modeler.ccoptions / keys / magnesium.OptionKeys.gen.hh
magnesium / mg_modeler.ccoptions / option.hh
magnesium / mg_modeler.ccoptions / option_macros.hh
magnesium / mg_modeler.ccoptions / keys / out.OptionKeys.gen.hh
magnesium / mg_modeler.ccoptions / keys / score.OptionKeys.gen.hh
magnesium / mg_modeler.ccTracer.hh
minimize.ccoptions / keys / in.OptionKeys.gen.hh
minimize.ccoptions / option.hh
minimize.ccoptions / keys / relax.OptionKeys.gen.hh
minimize.ccoptions / keys / run.OptionKeys.gen.hh
minimize.ccTracer.hh
minimize_ppi.ccoptions / after_opts.hh
minimize_ppi.ccoptions / keys / docking.OptionKeys.gen.hh
minimize_ppi.ccoptions / keys / in.OptionKeys.gen.hh
minimize_ppi.ccMetricValue.hh
minimize_ppi.ccoptions / option.hh
minimize_ppi.ccoptions / option_macros.hh
minimize_ppi.ccoptions / keys / out.OptionKeys.gen.hh
minimize_ppi.ccoptions / keys / relax.OptionKeys.gen.hh
minimize_ppi.ccoptions / util.hh
ddg / minimize_with_cst.ccoptions / keys / constraints.OptionKeys.gen.hh
ddg / minimize_with_cst.ccoptions / keys / ddg.OptionKeys.gen.hh
ddg / minimize_with_cst.ccoptions / keys / in.OptionKeys.gen.hh
ddg / minimize_with_cst.ccoptions / option.hh
ddg / minimize_with_cst.ccoptions / keys / OptionKeys.hh
ddg / minimize_with_cst.ccoptions / keys / out.OptionKeys.gen.hh
ddg / minimize_with_cst.ccoptions / keys / score.OptionKeys.gen.hh
ddg / minimize_with_cst.ccTracer.hh
ddg / minimize_with_cst.ccoptions / util.hh
boinc / minirosetta.ccoptions / keys / boinc.OptionKeys.gen.hh
boinc / minirosetta.cccitation_manager / CitationCollection.hh
boinc / minirosetta.cccitation_manager / CitationManager.hh
boinc / minirosetta.ccoptions / keys / in.OptionKeys.gen.hh
boinc / minirosetta.ccoptions / keys / jd2.OptionKeys.gen.hh
boinc / minirosetta.ccoptions / option.hh
boinc / minirosetta.ccoptions / keys / run.OptionKeys.gen.hh
membrane / mp_dock.ccTracer.hh
membrane / mp_dock_setup.ccTracer.hh
membrane / mp_domain_assembly.ccoptions / keys / in.OptionKeys.gen.hh
membrane / mp_domain_assembly.ccoptions / keys / mp.OptionKeys.gen.hh
membrane / mp_domain_assembly.ccoptions / option.hh
membrane / mp_domain_assembly.ccoptions / keys / out.OptionKeys.gen.hh
membrane / mp_domain_assembly.ccoptions / keys / relax.OptionKeys.gen.hh
membrane / mp_domain_assembly.ccTracer.hh
membrane / mp_lipid_acc.ccTracer.hh
membrane / mp_mutate_relax.ccTracer.hh
membrane / mp_range_relax.ccTracer.hh
membrane / mp_seqrecov.ccdatacache / DataMap.hh
membrane / mp_seqrecov.ccprof.hh
membrane / mp_seqrecov.ccoptions / keys / run.OptionKeys.gen.hh
membrane / mp_seqrecov.ccTracer.hh
membrane / mp_seqrecov.ccoptions / util.hh
membrane / mp_span_from_pdb.ccoptions / keys / in.OptionKeys.gen.hh
membrane / mp_span_from_pdb.ccoptions / keys / mp.OptionKeys.gen.hh
membrane / mp_span_from_pdb.ccoptions / option.hh
membrane / mp_span_from_pdb.ccoptions / keys / out.OptionKeys.gen.hh
membrane / mp_span_from_pdb.ccTracer.hh
membrane / mp_symdock.ccTracer.hh
membrane / mp_transform.ccoptions / keys / in.OptionKeys.gen.hh
membrane / mp_transform.ccoptions / keys / mp.OptionKeys.gen.hh
membrane / mp_transform.ccoptions / option.hh
membrane / mp_transform.ccTracer.hh
membrane / mp_viewer.ccoptions / keys / mp.OptionKeys.gen.hh
membrane / mp_viewer.ccoptions / option.hh
design / mpi_msd.ccMetricValue.hh
design / mpi_msd.ccoptions / keys / ms.OptionKeys.gen.hh
design / mpi_msd.ccoptions / option.hh
design / mpi_msd.ccoptions / option_macros.hh
design / mpi_msd.ccTracer.hh
electron_density / mr_protocols.ccoptions / keys / edensity.OptionKeys.gen.hh
electron_density / mr_protocols.ccoptions / keys / in.OptionKeys.gen.hh
electron_density / mr_protocols.ccoptions / keys / loops.OptionKeys.gen.hh
electron_density / mr_protocols.ccoptions / option.hh
electron_density / mr_protocols.ccoptions / option_macros.hh
electron_density / mr_protocols.ccoptions / keys / OptionKeys.hh
electron_density / mr_protocols.ccoptions / keys / symmetry.OptionKeys.gen.hh
electron_density / mr_protocols.ccTracer.hh
rosetta_scripts / multistage / multistage_rosetta_scripts.ccoptions / keys / in.OptionKeys.gen.hh
rosetta_scripts / multistage / multistage_rosetta_scripts.ccoptions / option.hh
rosetta_scripts / multistage / multistage_rosetta_scripts.ccoptions / option_macros.hh
rosetta_scripts / multistage / multistage_rosetta_scripts.ccoptions / keys / out.OptionKeys.gen.hh
rosetta_scripts / multistage / multistage_rosetta_scripts.ccoptions / keys / parser.OptionKeys.gen.hh
rosetta_scripts / multistage / multistage_rosetta_scripts.ccTracer.hh
mutate.ccoptions / keys / in.OptionKeys.gen.hh
mutate.ccoptions / keys / mutate.OptionKeys.gen.hh
mutate.ccoptions / option.hh
mutate.ccoptions / keys / out.OptionKeys.gen.hh
mutate.ccTracer.hh
rna / util / nucleobase_sample_around.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / util / nucleobase_sample_around.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / nucleobase_sample_around.ccoptions / option.hh
rna / util / nucleobase_sample_around.ccoptions / option_macros.hh
rna / util / nucleobase_sample_around.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / nucleobase_sample_around.ccoptions / keys / sample_around.OptionKeys.gen.hh
rna / util / nucleobase_sample_around.ccoptions / keys / score.OptionKeys.gen.hh
noncanonical_backbones / oop_design.ccoptions / keys / in.OptionKeys.gen.hh
noncanonical_backbones / oop_design.ccMetricValue.hh
noncanonical_backbones / oop_design.ccoptions / option.hh
noncanonical_backbones / oop_design.ccoptions / keys / out.OptionKeys.gen.hh
noncanonical_backbones / oop_design.ccoptions / keys / run.OptionKeys.gen.hh
noncanonical_backbones / oop_design.ccTracer.hh
noncanonical_backbones / oop_design.ccoptions / util.hh
antibody / packing_angle.ccoptions / keys / in.OptionKeys.gen.hh
antibody / packing_angle.ccoptions / option.hh
antibody / packing_angle.ccTracer.hh
packstat.ccoptions / keys / in.OptionKeys.gen.hh
packstat.ccoptions / option.hh
packstat.ccoptions / keys / out.OptionKeys.gen.hh
packstat.ccoptions / keys / packstat.OptionKeys.gen.hh
packstat.ccTracer.hh
rosetta_scripts / parse_rosetta_script.ccoptions / keys / jd2.OptionKeys.gen.hh
rosetta_scripts / parse_rosetta_script.ccoptions / option.hh
rosetta_scripts / parse_rosetta_script.ccoptions / keys / parser.OptionKeys.gen.hh
rosetta_scripts / parse_rosetta_script.ccTracer.hh
comparative_modeling / partial_thread.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / partial_thread.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / partial_thread.ccoptions / option.hh
comparative_modeling / partial_thread.ccoptions / keys / partial_thread.OptionKeys.gen.hh
comparative_modeling / partial_thread.ccTracer.hh
pepspec / pepspec.ccbasic.hh
pepspec / pepspec.ccoptions / keys / constraints.OptionKeys.gen.hh
pepspec / pepspec.ccoptions / keys / in.OptionKeys.gen.hh
pepspec / pepspec.ccMetricValue.hh
pepspec / pepspec.ccdatabase / open.hh
pepspec / pepspec.ccoptions / keys / out.OptionKeys.gen.hh
pepspec / pepspec.ccoptions / keys / pepspec.OptionKeys.gen.hh
pepspec / pepspec.ccoptions / keys / score.OptionKeys.gen.hh
pepspec / pepspec.ccTracer.hh
pepspec / pepspec.ccoptions / util.hh
pepspec / pepspec_anchor_dock.ccbasic.hh
pepspec / pepspec_anchor_dock.ccoptions / keys / in.OptionKeys.gen.hh
pepspec / pepspec_anchor_dock.ccdatabase / open.hh
pepspec / pepspec_anchor_dock.ccoptions / option.hh
pepspec / pepspec_anchor_dock.ccoptions / keys / out.OptionKeys.gen.hh
pepspec / pepspec_anchor_dock.ccoptions / keys / pepspec.OptionKeys.gen.hh
pepspec / pepspec_anchor_dock.ccoptions / keys / score.OptionKeys.gen.hh
pepspec / pepspec_anchor_dock.ccTracer.hh
pepspec / pepspec_anchor_dock.ccoptions / util.hh
analysis / PeptideDeriver.ccoptions / keys / in.OptionKeys.gen.hh
analysis / PeptideDeriver.ccoptions / option.hh
analysis / PeptideDeriver.ccoptions / keys / out.OptionKeys.gen.hh
analysis / PeptideDeriver.ccoptions / keys / peptide_deriver.OptionKeys.gen.hh
analysis / PeptideDeriver.ccTracer.hh
noncanonical_backbones / peptoid_design.ccMetricValue.hh
noncanonical_backbones / peptoid_design.ccoptions / option.hh
noncanonical_backbones / peptoid_design.ccoptions / keys / out.OptionKeys.gen.hh
noncanonical_backbones / peptoid_design.ccoptions / keys / run.OptionKeys.gen.hh
noncanonical_backbones / peptoid_design.ccTracer.hh
noncanonical_backbones / peptoid_design.ccoptions / util.hh
analysis / per_residue_energies.ccoptions / keys / in.OptionKeys.gen.hh
analysis / per_residue_energies.ccoptions / keys / james.OptionKeys.gen.hh
analysis / per_residue_energies.ccoptions / option.hh
analysis / per_residue_energies.ccoptions / keys / out.OptionKeys.gen.hh
analysis / per_residue_solvent_exposure.ccoptions / keys / in.OptionKeys.gen.hh
analysis / per_residue_solvent_exposure.ccoptions / option.hh
analysis / per_residue_solvent_exposure.ccoptions / option_macros.hh
analysis / per_residue_solvent_exposure.ccTracer.hh
pH_protocol.ccoptions / keys / in.OptionKeys.gen.hh
pH_protocol.ccoptions / option.hh
pH_protocol.ccoptions / keys / pH.OptionKeys.gen.hh
pH_protocol.ccTracer.hh
design / pmut_scan_parallel.ccoptions / option.hh
design / pmut_scan_parallel.ccTracer.hh
design / pmut_scan_parallel.ccoptions / util.hh
pocket / pocket_measure.ccoptions / after_opts.hh
pocket / pocket_measure.ccoptions / option_macros.hh
pocket / pocket_measure.ccoptions / keys / out.OptionKeys.gen.hh
pocket / pocket_measure.ccoptions / keys / pocket_grid.OptionKeys.gen.hh
pocket / pocket_measure.ccoptions / util.hh
pocket / pocket_relax.ccoptions / keys / constraints.OptionKeys.gen.hh
pocket / pocket_relax.ccoptions / keys / edensity.OptionKeys.gen.hh
pocket / pocket_relax.ccoptions / keys / in.OptionKeys.gen.hh
pocket / pocket_relax.ccoptions / option.hh
pocket / pocket_relax.ccoptions / option_macros.hh
pocket / pocket_relax.ccoptions / keys / pocket_grid.OptionKeys.gen.hh
pocket / pocket_relax.ccoptions / keys / relax.OptionKeys.gen.hh
pocket / pocket_relax.ccoptions / keys / run.OptionKeys.gen.hh
pocket / pocket_relax.ccoptions / keys / symmetry.OptionKeys.gen.hh
pocket / pocket_relax.ccTracer.hh
pocket / pocket_suggest_target_residues_by_ddg.ccoptions / after_opts.hh
pocket / pocket_suggest_target_residues_by_ddg.ccoptions / keys / constraints.OptionKeys.gen.hh
pocket / pocket_suggest_target_residues_by_ddg.ccoptions / option.hh
pocket / pocket_suggest_target_residues_by_ddg.ccoptions / option_macros.hh
pocket / pocket_suggest_target_residues_by_ddg.ccoptions / keys / out.OptionKeys.gen.hh
pocket / pocket_suggest_target_residues_by_ddg.ccTracer.hh
pocket / pocket_suggest_target_residues_by_ddg.ccoptions / util.hh
nmr / r_noe_assign.ccoptions / keys / in.OptionKeys.gen.hh
nmr / r_noe_assign.ccoptions / option_macros.hh
nmr / r_noe_assign.ccprof.hh
nmr / r_noe_assign.ccTracer.hh
recces / recces.ccoptions / option.hh
recces / recces.ccoptions / keys / recces.OptionKeys.gen.hh
recces / recces.ccoptions / keys / rna.OptionKeys.gen.hh
recces / recces.ccoptions / keys / score.OptionKeys.gen.hh
recces / recces.ccTracer.hh
recces / legacy / recces_turner.ccoptions / option.hh
recces / legacy / recces_turner.ccoptions / option_macros.hh
recces / legacy / recces_turner.ccoptions / keys / out.OptionKeys.gen.hh
recces / legacy / recces_turner.ccoptions / keys / recces.OptionKeys.gen.hh
recces / legacy / recces_turner.ccoptions / keys / score.OptionKeys.gen.hh
recces / legacy / recces_turner.ccTracer.hh
recon_design / recon.ccoptions / keys / in.OptionKeys.gen.hh
recon_design / recon.ccoptions / keys / jd2.OptionKeys.gen.hh
recon_design / recon.ccoptions / option.hh
recon_design / recon.ccoptions / keys / parser.OptionKeys.gen.hh
recon_design / recon.ccTracer.hh
relax.ccoptions / keys / in.OptionKeys.gen.hh
relax.ccoptions / option.hh
relax.ccoptions / keys / relax.OptionKeys.gen.hh
relax.ccTracer.hh
remodel.ccoptions / keys / in.OptionKeys.gen.hh
remodel.ccoptions / option.hh
remodel.ccoptions / keys / out.OptionKeys.gen.hh
remodel.ccoptions / keys / packing.OptionKeys.gen.hh
remodel.ccoptions / keys / pose_metrics.OptionKeys.gen.hh
remodel.ccoptions / keys / remodel.OptionKeys.gen.hh
remodel.ccoptions / keys / run.OptionKeys.gen.hh
remodel.ccTracer.hh
remodel.ccoptions / keys / ufv.OptionKeys.gen.hh
analysis / report_hbonds_for_plugin.ccdatacache / BasicDataCache.hh
analysis / report_hbonds_for_plugin.ccdatacache / CacheableString.hh
analysis / report_hbonds_for_plugin.ccoptions / option.hh
analysis / report_hbonds_for_plugin.ccoptions / option_macros.hh
analysis / report_hbonds_for_plugin.ccTracer.hh
stepwise / resample_full_model.ccoptions / keys / chemical.OptionKeys.gen.hh
stepwise / resample_full_model.ccoptions / keys / full_model.OptionKeys.gen.hh
stepwise / resample_full_model.ccoptions / keys / in.OptionKeys.gen.hh
stepwise / resample_full_model.ccoptions / option.hh
stepwise / resample_full_model.ccoptions / option_macros.hh
stepwise / resample_full_model.ccoptions / keys / OptionKeys.hh
stepwise / resample_full_model.ccoptions / keys / out.OptionKeys.gen.hh
stepwise / resample_full_model.ccoptions / keys / score.OptionKeys.gen.hh
stepwise / resample_full_model.ccTracer.hh
analysis / residue_energy_breakdown.ccoptions / keys / in.OptionKeys.gen.hh
analysis / residue_energy_breakdown.ccoptions / option.hh
analysis / residue_energy_breakdown.ccoptions / keys / out.OptionKeys.gen.hh
analysis / ResidueDisorder.ccoptions / keys / corrections.OptionKeys.gen.hh
analysis / ResidueDisorder.ccoptions / keys / in.OptionKeys.gen.hh
analysis / ResidueDisorder.ccoptions / option.hh
analysis / ResidueDisorder.ccoptions / keys / out.OptionKeys.gen.hh
analysis / ResidueDisorder.ccTracer.hh
restype_converter.ccoptions / keys / corrections.OptionKeys.gen.hh
restype_converter.ccoptions / keys / in.OptionKeys.gen.hh
restype_converter.ccoptions / option.hh
restype_converter.ccoptions / option_macros.hh
restype_converter.ccoptions / keys / OptionKeys.hh
restype_converter.ccoptions / keys / out.OptionKeys.gen.hh
restype_converter.ccTracer.hh
rosetta_scripts / revert_design_to_native.ccoptions / option.hh
rosetta_scripts / revert_design_to_native.ccoptions / keys / OptionKeys.hh
rosetta_scripts / revert_design_to_native.ccTracer.hh
rna / util / rna_cluster.ccoptions / keys / cluster.OptionKeys.gen.hh
rna / util / rna_cluster.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_cluster.ccoptions / option.hh
rna / util / rna_cluster.ccoptions / option_macros.hh
rna / util / rna_cluster.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_database.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_database.ccoptions / option.hh
rna / util / rna_database.ccoptions / option_macros.hh
rna / util / rna_database.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_database.ccoptions / keys / rna.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / constraints.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / edensity.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / full_model.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / in.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / option.hh
rna / rna_denovo.ccoptions / option_macros.hh
rna / rna_denovo.ccoptions / keys / out.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / rna.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / score.OptionKeys.gen.hh
rna / rna_denovo.ccoptions / keys / stepwise.OptionKeys.gen.hh
rna / rna_design.ccoptions / keys / full_model.OptionKeys.gen.hh
rna / rna_design.ccoptions / keys / in.OptionKeys.gen.hh
rna / rna_design.ccoptions / option.hh
rna / rna_design.ccoptions / option_macros.hh
rna / rna_design.ccoptions / keys / out.OptionKeys.gen.hh
rna / rna_design.ccoptions / keys / packing.OptionKeys.gen.hh
rna / rna_design.ccoptions / keys / score.OptionKeys.gen.hh
rna / util / rna_extract.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_extract.ccoptions / option.hh
rna / util / rna_extract.ccoptions / option_macros.hh
rna / util / rna_extract.ccoptions / keys / OptionKeys.hh
rna / util / rna_extract.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_features.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / util / rna_features.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_features.ccdatabase / open.hh
rna / util / rna_features.ccoptions / option.hh
rna / util / rna_features.ccoptions / option_macros.hh
rna / util / rna_features.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_graft.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / util / rna_graft.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_graft.ccoptions / option_macros.hh
rna / util / rna_graft.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_helix.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_helix.ccoptions / option.hh
rna / util / rna_helix.ccoptions / option_macros.hh
rna / util / rna_helix.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_helix.ccoptions / keys / rna.OptionKeys.gen.hh
rna / util / rna_helix.ccoptions / keys / score.OptionKeys.gen.hh
rna / util / rna_idealize.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_idealize.ccoptions / option.hh
rna / util / rna_idealize.ccoptions / option_macros.hh
rna / util / rna_minimize.ccoptions / keys / constraints.OptionKeys.gen.hh
rna / util / rna_minimize.ccoptions / keys / full_model.OptionKeys.gen.hh
rna / util / rna_minimize.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_minimize.ccdatabase / open.hh
rna / util / rna_minimize.ccoptions / option.hh
rna / util / rna_minimize.ccoptions / option_macros.hh
rna / util / rna_minimize.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_minimize.ccoptions / keys / rna.OptionKeys.gen.hh
rna / util / rna_minimize.ccoptions / keys / score.OptionKeys.gen.hh
rna / util / rna_minimize.ccoptions / keys / stepwise.OptionKeys.gen.hh
rna / util / rna_motif.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_motif.ccoptions / option.hh
rna / util / rna_motif.ccoptions / option_macros.hh
rna / util / rna_motif.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_motif.ccoptions / keys / score.OptionKeys.gen.hh
rna / util / rna_motif.ccTracer.hh
rna / util / rna_predict_chem_map.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / util / rna_predict_chem_map.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_predict_chem_map.ccdatabase / open.hh
rna / util / rna_predict_chem_map.ccoptions / option.hh
rna / util / rna_predict_chem_map.ccoptions / option_macros.hh
rna / util / rna_predict_chem_map.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_score.ccdatacache / BasicDataCache.hh
rna / util / rna_score.ccoptions / keys / chemical.OptionKeys.gen.hh
rna / util / rna_score.ccoptions / keys / full_model.OptionKeys.gen.hh
rna / util / rna_score.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_score.ccdatabase / open.hh
rna / util / rna_score.ccoptions / option.hh
rna / util / rna_score.ccoptions / option_macros.hh
rna / util / rna_score.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_score.ccoptions / keys / rna.OptionKeys.gen.hh
rna / util / rna_score.ccoptions / keys / score.OptionKeys.gen.hh
rna / util / rna_score.ccoptions / keys / stepwise.OptionKeys.gen.hh
rna / util / rna_score.ccTracer.hh
rna / util / rna_suitename.ccoptions / keys / full_model.OptionKeys.gen.hh
rna / util / rna_suitename.ccoptions / keys / in.OptionKeys.gen.hh
rna / util / rna_suitename.ccoptions / option.hh
rna / util / rna_suitename.ccoptions / option_macros.hh
rna / util / rna_suitename.ccoptions / keys / out.OptionKeys.gen.hh
rna / util / rna_suitename.ccoptions / keys / score.OptionKeys.gen.hh
rna / thread / rna_thread.ccoptions / keys / in.OptionKeys.gen.hh
rna / thread / rna_thread.ccoptions / option_macros.hh
rna / thread / rna_thread.ccoptions / keys / out.OptionKeys.gen.hh
rna / thread / rna_thread.ccoptions / keys / score.OptionKeys.gen.hh
rna / thread / rna_thread_and_minimize.ccoptions / keys / in.OptionKeys.gen.hh
rna / thread / rna_thread_and_minimize.ccoptions / option_macros.hh
rna / thread / rna_thread_and_minimize.ccoptions / keys / out.OptionKeys.gen.hh
rna / thread / rna_thread_and_minimize.ccoptions / keys / score.OptionKeys.gen.hh
rnp_ddg / rnp_ddg.ccoptions / keys / constraints.OptionKeys.gen.hh
rnp_ddg / rnp_ddg.ccoptions / keys / in.OptionKeys.gen.hh
rnp_ddg / rnp_ddg.ccoptions / option.hh
rnp_ddg / rnp_ddg.ccoptions / option_macros.hh
rnp_ddg / rnp_ddg.ccoptions / keys / out.OptionKeys.gen.hh
rnp_ddg / rnp_ddg.ccoptions / keys / score.OptionKeys.gen.hh
rnp_ddg / rnp_ddg.ccTracer.hh
rosetta_scripts / rosetta_scripts.cccitation_manager / CitationCollection.hh
rosetta_scripts / rosetta_scripts.cccitation_manager / CitationManager.hh
rosetta_scripts / rosetta_scripts.ccoptions / keys / in.OptionKeys.gen.hh
rosetta_scripts / rosetta_scripts.ccoptions / keys / jd2.OptionKeys.gen.hh
rosetta_scripts / rosetta_scripts.ccoptions / option.hh
rosetta_scripts / rosetta_scripts.ccoptions / keys / parser.OptionKeys.gen.hh
rosetta_scripts / rosetta_scripts.ccTracer.hh
rosettaDNA / rosettaDNA.ccTracer.hh
analysis / sc.ccoptions / option.hh
analysis / score.ccoptions / keys / broker.OptionKeys.gen.hh
analysis / score.ccoptions / keys / constraints.OptionKeys.gen.hh
analysis / score.ccoptions / keys / edensity.OptionKeys.gen.hh
analysis / score.ccoptions / keys / in.OptionKeys.gen.hh
analysis / score.ccoptions / keys / krassk.OptionKeys.gen.hh
analysis / score.ccoptions / option.hh
analysis / score.ccoptions / keys / out.OptionKeys.gen.hh
analysis / score.ccoptions / keys / relax.OptionKeys.gen.hh
analysis / score.ccoptions / keys / rescore.OptionKeys.gen.hh
analysis / score.ccoptions / keys / symmetry.OptionKeys.gen.hh
analysis / score.ccTracer.hh
comparative_modeling / score_aln.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / score_aln.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / score_aln.ccoptions / option.hh
comparative_modeling / score_aln.ccoptions / keys / out.OptionKeys.gen.hh
comparative_modeling / score_aln.ccTracer.hh
comparative_modeling / score_aln2.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / score_aln2.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / score_aln2.ccoptions / option.hh
comparative_modeling / score_aln2.ccoptions / keys / out.OptionKeys.gen.hh
comparative_modeling / score_aln2.ccoptions / keys / run.OptionKeys.gen.hh
comparative_modeling / score_aln2.ccTracer.hh
analysis / score_jd2.ccoptions / keys / broker.OptionKeys.gen.hh
analysis / score_jd2.ccoptions / keys / chemical.OptionKeys.gen.hh
analysis / score_jd2.ccoptions / keys / constraints.OptionKeys.gen.hh
analysis / score_jd2.ccoptions / keys / edensity.OptionKeys.gen.hh
analysis / score_jd2.ccoptions / keys / in.OptionKeys.gen.hh
analysis / score_jd2.ccoptions / keys / mp.OptionKeys.gen.hh
analysis / score_jd2.ccoptions / option.hh
analysis / score_jd2.ccoptions / option_macros.hh
analysis / score_jd2.ccoptions / keys / rescore.OptionKeys.gen.hh
analysis / score_jd2.ccoptions / keys / symmetry.OptionKeys.gen.hh
analysis / score_jd2.ccTracer.hh
sewing / segment_file_generator.ccoptions / keys / in.OptionKeys.gen.hh
sewing / segment_file_generator.ccoptions / keys / inout.OptionKeys.gen.hh
sewing / segment_file_generator.ccoptions / option.hh
sewing / segment_file_generator.ccoptions / keys / sewing.OptionKeys.gen.hh
sewing / segment_file_generator.ccTracer.hh
ligand_docking / select_best_unique_ligand_poses.ccoptions / keys / docking.OptionKeys.gen.hh
ligand_docking / select_best_unique_ligand_poses.ccoptions / keys / in.OptionKeys.gen.hh
ligand_docking / select_best_unique_ligand_poses.ccoptions / option.hh
ligand_docking / select_best_unique_ligand_poses.ccoptions / keys / out.OptionKeys.gen.hh
ligand_docking / select_best_unique_ligand_poses.ccTracer.hh
design / sequence_recovery.ccdatacache / DataMap.hh
design / sequence_recovery.ccprof.hh
design / sequence_recovery.ccoptions / keys / run.OptionKeys.gen.hh
design / sequence_recovery.ccTracer.hh
design / sequence_recovery.ccoptions / util.hh
sequence_tolerance.ccoptions / keys / in.OptionKeys.gen.hh
sequence_tolerance.ccMetricValue.hh
sequence_tolerance.ccoptions / keys / ms.OptionKeys.gen.hh
sequence_tolerance.ccoptions / option.hh
sequence_tolerance.ccoptions / option_macros.hh
sequence_tolerance.ccoptions / keys / out.OptionKeys.gen.hh
sequence_tolerance.ccoptions / keys / packing.OptionKeys.gen.hh
sequence_tolerance.ccprof.hh
sequence_tolerance.ccTracer.hh
legacy_sewing / sewing_hasher.ccoptions / keys / in.OptionKeys.gen.hh
legacy_sewing / sewing_hasher.ccoptions / keys / inout.OptionKeys.gen.hh
legacy_sewing / sewing_hasher.ccoptions / option.hh
legacy_sewing / sewing_hasher.ccdatabase / sql_utils.hh
legacy_sewing / sewing_hasher.ccTracer.hh
analysis / shobuns.ccoptions / after_opts.hh
analysis / shobuns.ccMetricValue.hh
analysis / shobuns.ccoptions / option.hh
analysis / shobuns.ccoptions / option_macros.hh
analysis / shobuns.ccoptions / keys / out.OptionKeys.gen.hh
analysis / shobuns.ccoptions / keys / pose_metrics.OptionKeys.gen.hh
analysis / shobuns.ccTracer.hh
analysis / shobuns.ccoptions / util.hh
cyclic_peptide / simple_cycpep_predict.ccoptions / keys / cyclic_peptide.OptionKeys.gen.hh
cyclic_peptide / simple_cycpep_predict.ccoptions / option.hh
cyclic_peptide / simple_cycpep_predict.ccoptions / keys / out.OptionKeys.gen.hh
cyclic_peptide / simple_cycpep_predict.ccTracer.hh
antibody / snugdock.ccoptions / keys / antibody.OptionKeys.gen.hh
antibody / snugdock.ccoptions / keys / loops.OptionKeys.gen.hh
antibody / snugdock.ccoptions / option.hh
antibody / snugdock.ccoptions / keys / out.OptionKeys.gen.hh
antibody / snugdock.ccoptions / keys / packing.OptionKeys.gen.hh
comparative_modeling / spheregrinder.ccoptions / keys / constraints.OptionKeys.gen.hh
comparative_modeling / spheregrinder.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / spheregrinder.ccoptions / option.hh
comparative_modeling / spheregrinder.ccoptions / keys / score.OptionKeys.gen.hh
comparative_modeling / spheregrinder.ccTracer.hh
stepwise / stepwise.ccoptions / keys / chemical.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / keys / constraints.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / keys / full_model.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / keys / in.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / option.hh
stepwise / stepwise.ccoptions / option_macros.hh
stepwise / stepwise.ccoptions / keys / out.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / keys / rna.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / keys / run.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / keys / score.OptionKeys.gen.hh
stepwise / stepwise.ccoptions / keys / stepwise.OptionKeys.gen.hh
stepwise / stepwise.ccTracer.hh
struc_set_fragment_picker.ccoptions / keys / frags.OptionKeys.gen.hh
struc_set_fragment_picker.ccoptions / keys / in.OptionKeys.gen.hh
struc_set_fragment_picker.ccoptions / option.hh
struc_set_fragment_picker.ccoptions / option_macros.hh
struc_set_fragment_picker.ccoptions / keys / run.OptionKeys.gen.hh
struc_set_fragment_picker.ccTracer.hh
comparative_modeling / super_aln.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / super_aln.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / super_aln.ccoptions / option.hh
comparative_modeling / super_aln.ccoptions / keys / out.OptionKeys.gen.hh
design / supercharge.ccMetricValue.hh
design / supercharge.ccoptions / option.hh
design / supercharge.ccoptions / keys / out.OptionKeys.gen.hh
design / supercharge.ccoptions / keys / packing.OptionKeys.gen.hh
design / supercharge.ccTracer.hh
stepwise / legacy / swa_protein_main.ccoptions / after_opts.hh
stepwise / legacy / swa_protein_main.ccbasic.hh
stepwise / legacy / swa_protein_main.ccdatacache / BasicDataCache.hh
stepwise / legacy / swa_protein_main.ccdatacache / CacheableString.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / chemical.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / cluster.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / edensity.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / full_model.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / in.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccdatabase / open.hh
stepwise / legacy / swa_protein_main.ccoptions / option.hh
stepwise / legacy / swa_protein_main.ccoptions / option_macros.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / out.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / score.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccoptions / keys / stepwise.OptionKeys.gen.hh
stepwise / legacy / swa_protein_main.ccTracer.hh
stepwise / legacy / swa_protein_main.ccoptions / util.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / chemical.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / cluster.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / edensity.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / full_model.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / in.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / option.hh
stepwise / legacy / swa_rna_main.ccoptions / option_macros.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / OptionKeys.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / out.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / rna.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / score.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccoptions / keys / stepwise.OptionKeys.gen.hh
stepwise / legacy / swa_rna_main.ccTracer.hh
stepwise / legacy / swa_rna_util.ccoptions / keys / chemical.OptionKeys.gen.hh
stepwise / legacy / swa_rna_util.ccoptions / keys / in.OptionKeys.gen.hh
stepwise / legacy / swa_rna_util.ccoptions / option.hh
stepwise / legacy / swa_rna_util.ccoptions / option_macros.hh
stepwise / legacy / swa_rna_util.ccoptions / keys / OptionKeys.hh
stepwise / legacy / swa_rna_util.ccoptions / keys / out.OptionKeys.gen.hh
stepwise / legacy / swa_rna_util.ccoptions / keys / score.OptionKeys.gen.hh
stepwise / legacy / swa_rna_util.ccTracer.hh
SymDock.ccTracer.hh
comparative_modeling / template_features.ccoptions / keys / cm.OptionKeys.gen.hh
comparative_modeling / template_features.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / template_features.ccoptions / keys / james.OptionKeys.gen.hh
comparative_modeling / template_features.ccoptions / option.hh
comparative_modeling / template_features.ccTracer.hh
recces / legacy / thermal_sampler.ccoptions / keys / full_model.OptionKeys.gen.hh
recces / legacy / thermal_sampler.ccoptions / keys / in.OptionKeys.gen.hh
recces / legacy / thermal_sampler.ccoptions / option.hh
recces / legacy / thermal_sampler.ccoptions / option_macros.hh
recces / legacy / thermal_sampler.ccoptions / keys / out.OptionKeys.gen.hh
recces / legacy / thermal_sampler.ccoptions / keys / recces.OptionKeys.gen.hh
recces / legacy / thermal_sampler.ccoptions / keys / score.OptionKeys.gen.hh
darc / theta_ligand.ccoptions / after_opts.hh
darc / theta_ligand.ccoptions / keys / docking.OptionKeys.gen.hh
darc / theta_ligand.ccoptions / keys / in.OptionKeys.gen.hh
darc / theta_ligand.ccMetricValue.hh
darc / theta_ligand.ccoptions / option.hh
darc / theta_ligand.ccoptions / option_macros.hh
darc / theta_ligand.ccoptions / keys / out.OptionKeys.gen.hh
darc / theta_ligand.ccoptions / keys / relax.OptionKeys.gen.hh
darc / theta_ligand.ccoptions / util.hh
weight_optimization / torsional_potential_corrections.ccoptions / after_opts.hh
weight_optimization / torsional_potential_corrections.ccbasic.hh
weight_optimization / torsional_potential_corrections.ccdatacache / CacheableString.hh
weight_optimization / torsional_potential_corrections.ccoptions / keys / corrections.OptionKeys.gen.hh
weight_optimization / torsional_potential_corrections.ccoptions / keys / in.OptionKeys.gen.hh
weight_optimization / torsional_potential_corrections.ccdatabase / open.hh
weight_optimization / torsional_potential_corrections.ccoptions / option.hh
weight_optimization / torsional_potential_corrections.ccoptions / option_macros.hh
weight_optimization / torsional_potential_corrections.ccoptions / keys / out.OptionKeys.gen.hh
weight_optimization / torsional_potential_corrections.ccoptions / keys / packing.OptionKeys.gen.hh
weight_optimization / torsional_potential_corrections.ccoptions / keys / score.OptionKeys.gen.hh
weight_optimization / torsional_potential_corrections.ccTracer.hh
trRosetta / trRosetta.ccoptions / keys / in.OptionKeys.gen.hh
trRosetta / trRosetta.ccoptions / option.hh
trRosetta / trRosetta.ccoptions / option_macros.hh
trRosetta / trRosetta.ccoptions / keys / OptionKeys.hh
trRosetta / trRosetta.ccTracer.hh
trRosetta / trRosetta.cctensorflow_manager / util.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccoptions / keys / AnchoredDesign.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccoptions / keys / chemically_conjugated_docking.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccoptions / keys / in.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccoptions / keys / loops.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccMetricValue.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccoptions / option.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccoptions / keys / packing.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccprof.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccoptions / keys / run.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_E2_thioester.ccTracer.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccoptions / keys / AnchoredDesign.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccoptions / keys / in.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccoptions / keys / loops.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccMetricValue.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccoptions / option.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccoptions / keys / packing.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccprof.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccoptions / keys / run.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_CYD-CYD.ccTracer.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccoptions / keys / AnchoredDesign.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccoptions / keys / chemically_conjugated_docking.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccoptions / keys / in.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccoptions / keys / loops.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccoptions / option.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccoptions / keys / packing.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccprof.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccoptions / keys / run.OptionKeys.gen.hh
scenarios / chemically_conjugated_docking / UBQ_Gp_LYX-Cterm.ccTracer.hh
ncaa_utilities / UnfoldedStateEnergyCalculator.ccoptions / option.hh
ncaa_utilities / UnfoldedStateEnergyCalculator.ccTracer.hh
internal / validate_database.ccoptions / keys / corrections.OptionKeys.gen.hh
internal / validate_database.ccoptions / keys / in.OptionKeys.gen.hh
internal / validate_database.ccdatabase / open.hh
internal / validate_database.ccoptions / option.hh
internal / validate_database.ccTracer.hh
rosetta_scripts / validate_rosetta_script.ccoptions / keys / jd2.OptionKeys.gen.hh
rosetta_scripts / validate_rosetta_script.ccoptions / option.hh
rosetta_scripts / validate_rosetta_script.ccoptions / keys / parser.OptionKeys.gen.hh
rosetta_scripts / validate_rosetta_script.ccTracer.hh
comparative_modeling / validate_silent.ccoptions / keys / in.OptionKeys.gen.hh
comparative_modeling / validate_silent.ccoptions / option.hh
comparative_modeling / validate_silent.ccoptions / keys / OptionKeys.hh
comparative_modeling / validate_silent.ccoptions / keys / out.OptionKeys.gen.hh
vip.ccoptions / keys / cp.OptionKeys.gen.hh
vip.ccoptions / keys / in.OptionKeys.gen.hh
vip.ccoptions / option.hh
vip.ccTracer.hh
design / zinc1_homodimer_design.ccoptions / option.hh
design / zinc1_homodimer_design.ccoptions / keys / OptionKeys.hh
design / zinc1_homodimer_design.ccoptions / keys / packing.OptionKeys.gen.hh
design / zinc1_homodimer_design.ccTracer.hh
design / zinc1_homodimer_design.ccoptions / util.hh
design / zinc1_homodimer_setup.ccoptions / option.hh
design / zinc1_homodimer_setup.ccTracer.hh
design / zinc1_homodimer_setup.ccoptions / util.hh
design / zinc2_homodimer_design.ccoptions / option.hh
design / zinc2_homodimer_design.ccoptions / keys / packing.OptionKeys.gen.hh
design / zinc2_homodimer_design.ccTracer.hh
design / zinc2_homodimer_setup.ccoptions / option.hh
design / zinc2_homodimer_setup.ccTracer.hh
design / zinc_heterodimer_design.ccoptions / keys / in.OptionKeys.gen.hh
design / zinc_heterodimer_design.ccoptions / option.hh
design / zinc_heterodimer_design.ccTracer.hh
sewing / ligand_sewing_tools / zinc_statistic_generator.ccoptions / option.hh
sewing / ligand_sewing_tools / zinc_statistic_generator.ccTracer.hh
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