cctbx
cctbx.adp_restraints
cctbx.adp_restraints.energies
cctbx.adp_restraints.flags
cctbx.adptbx
cctbx.array_family
cctbx.array_family.flex
cctbx.command_line
cctbx.command_line.brehm_diederichs
cctbx.command_line.cod_select_and_pickle
cctbx.command_line.euclidean_model_matching
cctbx.command_line.find_reticular_twin_laws
cctbx.command_line.form_factor_query
cctbx.command_line.precession_view
cctbx.command_line.space_group_info
cctbx.command_line.structure_factor_timings
cctbx.command_line.subgroups
cctbx.command_line.version
cctbx.command_line.wavelength_units
cctbx.covariance
cctbx.crystal
cctbx.crystal.burzlaff_zimmermann_dewolff
cctbx.crystal.close_packing
cctbx.crystal.coordination_sequences
cctbx.crystal.direct_space_asu
cctbx.crystal.distance_based_connectivity
cctbx.crystal.find_best_cell
cctbx.crystal.reindex
cctbx.crystal_orientation
cctbx.development
cctbx.development.cns_density_modification
cctbx.development.debug_utils
cctbx.development.direct_or_fft
cctbx.development.electron_density_sampling
cctbx.development.fmt_utils
cctbx.development.make_cns_input
cctbx.development.make_settings
cctbx.development.random_structure
cctbx.development.run_shelx
cctbx.development.run_shelx76
cctbx.development.space_group_option_parser
cctbx.development.structure_factor_utils
cctbx.dmtbx
cctbx.eltbx
cctbx.eltbx.attenuation_coefficient
cctbx.eltbx.chemical_elements
cctbx.eltbx.covalent_radii
cctbx.eltbx.development
cctbx.eltbx.development.combine_fits
cctbx.eltbx.development.create_n_gaussian_raw_cpp
cctbx.eltbx.development.e_scattering_plots
cctbx.eltbx.development.format_gaussian_fits
cctbx.eltbx.development.hydrogen_plots
cctbx.eltbx.development.itvc_approx
cctbx.eltbx.development.itvc_cross_validation
cctbx.eltbx.development.itvc_fits
cctbx.eltbx.development.itvc_section61_io
cctbx.eltbx.development.kissel_fits
cctbx.eltbx.development.kissel_io
cctbx.eltbx.development.rez_rez_grant
cctbx.eltbx.distance_based_connectivity
cctbx.eltbx.e_scattering
cctbx.eltbx.formula
cctbx.eltbx.fp_fdp
cctbx.eltbx.gaussian_fit
cctbx.eltbx.henke
cctbx.eltbx.icsd_radii
cctbx.eltbx.neutron
cctbx.eltbx.sasaki
cctbx.eltbx.tiny_pse
cctbx.eltbx.van_der_waals_radii
cctbx.eltbx.wavelengths
cctbx.eltbx.xray_scattering
cctbx.euclidean_model_matching
cctbx.examples
cctbx.examples.adp_symmetry_constraints
cctbx.examples.all_axes
cctbx.examples.analyze_adp
cctbx.examples.change_hand_p31
cctbx.examples.convert_ccp4_symop_lib
cctbx.examples.cr2o3_consistency_checks
cctbx.examples.cr2o3_primitive_cell
cctbx.examples.exp_i_alpha_derivatives
cctbx.examples.f_model_example
cctbx.examples.fft_map_electron_density_around_atom
cctbx.examples.find_distances_using_cpp_objects
cctbx.examples.find_sys_abs_equiv_space_groups
cctbx.examples.g_exp_i_alpha_derivatives
cctbx.examples.g_exp_i_partial_derivatives
cctbx.examples.getting_started
cctbx.examples.hirshfeld_test
cctbx.examples.le_page_1982_vs_lebedev_2005
cctbx.examples.lebedev_2005_perturbation
cctbx.examples.list_non_principal_continuous_shifts
cctbx.examples.location_part
cctbx.examples.map_skewness
cctbx.examples.maximum_subgroups
cctbx.examples.miller_common_sets
cctbx.examples.miller_transform
cctbx.examples.neutron_structure_factors
cctbx.examples.phase_o_phrenia
cctbx.examples.quartz_structure
cctbx.examples.random_f_calc
cctbx.examples.random_puckers
cctbx.examples.reduced_cell_two_folds
cctbx.examples.site_symmetry_constraints
cctbx.examples.site_symmetry_table
cctbx.examples.space_group_matrices
cctbx.examples.space_subgroups
cctbx.examples.steve_collins
cctbx.examples.structure_factor_calculus
cctbx.examples.structure_factor_calculus.site_derivatives
cctbx.examples.structure_factor_calculus.sites_derivatives
cctbx.examples.structure_factor_calculus.sites_least_squares_derivatives
cctbx.examples.structure_factor_calculus.u_star_derivatives
cctbx.examples.structure_factor_derivatives
cctbx.examples.structure_factor_derivatives_2
cctbx.examples.structure_factor_derivatives_3
cctbx.examples.structure_factor_derivatives_4
cctbx.examples.sub_group_graph
cctbx.examples.symops_530
cctbx.examples.trigonal_r_vs_tetragonal_i
cctbx.examples.unit_cell_minimizers
cctbx.examples.unit_cell_refinement
cctbx.french_wilson
cctbx.geometry
cctbx.geometry_restraints
cctbx.geometry_restraints.energies
cctbx.geometry_restraints.flags
cctbx.geometry_restraints.lbfgs
cctbx.geometry_restraints.manager
cctbx.macro_mol
cctbx.macro_mol.rotation_parameters
cctbx.maptbx
cctbx.maptbx.mem
cctbx.maptbx.real_space_refinement_simple
cctbx.masks
cctbx.math_module
cctbx.merging
cctbx.merging.brehm_diederichs
cctbx.miller
cctbx.miller.display
cctbx.miller.reindexing
cctbx.multipolar
cctbx.neutron
cctbx.omz
cctbx.omz.bfgs
cctbx.omz.cif_refine
cctbx.omz.cod_refine
cctbx.omz.cod_select_and_pickle
cctbx.omz.dev
cctbx.omz.eval_iso_vs_refined
cctbx.omz.pdb_dev
cctbx.omz.tardy_adaptor
cctbx.r_free_utils
cctbx.run_examples
cctbx.run_tests
cctbx.sgtbx
cctbx.sgtbx.bravais_types
cctbx.sgtbx.cosets
cctbx.sgtbx.direct_space_asu
cctbx.sgtbx.direct_space_asu.check_redundancies
cctbx.sgtbx.direct_space_asu.cut_plane
cctbx.sgtbx.direct_space_asu.facet_analysis
cctbx.sgtbx.direct_space_asu.plane_group_reference_table
cctbx.sgtbx.direct_space_asu.proto
cctbx.sgtbx.direct_space_asu.proto.generate_cpp_asu_table
cctbx.sgtbx.direct_space_asu.reference_table
cctbx.sgtbx.direct_space_asu.short_cuts
cctbx.sgtbx.harker
cctbx.sgtbx.lattice_symmetry
cctbx.sgtbx.literal_description
cctbx.sgtbx.plane_groups
cctbx.sgtbx.pointgroup_tools
cctbx.sgtbx.rational_matrices_point_groups
cctbx.sgtbx.reticular_pg_tools
cctbx.sgtbx.reticular_twin_laws
cctbx.sgtbx.show_cosets
cctbx.sgtbx.sub_lattice_tools
cctbx.sgtbx.subgroups
cctbx.sgtbx.symbol_confidence
cctbx.sgtbx.sys_abs_equiv
cctbx.source_generators
cctbx.source_generators.eltbx
cctbx.source_generators.eltbx.generate_henke_cpp
cctbx.source_generators.eltbx.generate_sasaki_cpp
cctbx.source_generators.flex_fwd_h
cctbx.statistics
cctbx.symmetry_search
cctbx.translation_search
cctbx.uctbx.determine_unit_cell
cctbx.uctbx.gruber_1973
cctbx.uctbx.gruber_1973_table_1
cctbx.uctbx.krivy_gruber_1976
cctbx.uctbx.reduction_base
cctbx.web
cctbx.web.all_axes
cctbx.web.asu_gallery
cctbx.web.asu_gallery.guide_to_notation
cctbx.web.asu_gallery.jv_asu
cctbx.web.asu_gallery.jv_index
cctbx.web.asu_gallery.jvx
cctbx.web.asu_gallery.web_links
cctbx.web.browse_settings
cctbx.web.cgi_utils
cctbx.web.change_basis
cctbx.web.change_hand
cctbx.web.change_setting
cctbx.web.dispatcher
cctbx.web.emma
cctbx.web.explore_symmetry
cctbx.web.frac_cart
cctbx.web.io_utils
cctbx.web.iotbx_cif_validate
cctbx.web.lattice_symmetry
cctbx.web.libtbx_help
cctbx.web.multiple_cell
cctbx.web.phase_o_phrenia
cctbx.web.replay
cctbx.web.shelx
cctbx.web.structure_factors
cctbx.web.structure_factors_pdb
cctbx.web.wyckoff
cctbx.xray
cctbx.xray.ext
cctbx.xray.minimization
cctbx.xray.observation_types
cctbx.xray.observations
cctbx.xray.scatterer
cctbx.xray.structure
cctbx.xray.structure_factors
cctbx.xray.structure_factors.from_scatterers
cctbx.xray.structure_factors.from_scatterers_direct
cctbx.xray.structure_factors.from_scatterers_direct_parallel
cctbx.xray.structure_factors.from_scatterers_fft
cctbx.xray.structure_factors.global_counters
cctbx.xray.structure_factors.gradient_flags
cctbx.xray.structure_factors.gradients
cctbx.xray.structure_factors.gradients_base
cctbx.xray.structure_factors.gradients_direct
cctbx.xray.structure_factors.gradients_fft
cctbx.xray.structure_factors.manager
cctbx.xray.structure_factors.misc
cctbx.xray.target_functors
cctbx.xray.targets
cctbx.xray.targets.r1
cctbx.xray.weighting_schemes
dxtbx
dxtbx.model.beam
dxtbx.model.crystal
dxtbx.model.detector
dxtbx.model.goniometer
dxtbx.model.scan
dxtbx.serialize.load
dxtbx.serialize.xds
iotbx
iotbx.file_reader
iotbx.map_manager
iotbx.map_model_manager
iotbx.reflection_file_reader
iotbx.shelx
iotbx.shelx.crystal_symmetry_from_ins
iotbx.shelx.hklf
iotbx.shelx.lexer
iotbx.shelx.parsers
iotbx.shelx.tokens
iotbx.shelx.write_ins
iotbx.shelx.writer
iotbx.xds.integrate_hkl
iotbx.xds.read_ascii
iotbx.xds.spot_xds
iotbx.xds.xds_inp
iotbx.xds.xparm
libtbx
mmtbx
mmtbx.building
mmtbx.building.extend_sidechains
mmtbx.building.make_library
mmtbx.bulk_solvent
mmtbx.bulk_solvent.bulk_solvent_and_scaling
mmtbx.bulk_solvent.scaler
mmtbx.chemical_components
mmtbx.chemical_components.cif_parser
mmtbx.command_line
mmtbx.conformation_dependent_library
mmtbx.conformation_dependent_library.altloc_weighting
mmtbx.conformation_dependent_library.bond_angle_registry
mmtbx.conformation_dependent_library.cdl_database
mmtbx.conformation_dependent_library.rdl_database
mmtbx.conformation_dependent_library.tst_cdl
mmtbx.conformation_dependent_library.utils
mmtbx.den
mmtbx.den.plot_weights
mmtbx.den.refinement
mmtbx.density_modification
mmtbx.disorder
mmtbx.disorder.analyze_model
mmtbx.disorder.backbone
mmtbx.dynamics
mmtbx.dynamics.cartesian_dynamics
mmtbx.dynamics.constants
mmtbx.dynamics.ensemble_cd
mmtbx.dynamics.simulated_annealing
mmtbx.f_model
mmtbx.f_model_info
mmtbx.geometry
mmtbx.geometry.altloc
mmtbx.geometry.asa
mmtbx.geometry.clash
mmtbx.geometry.indexing
mmtbx.geometry.shared_types
mmtbx.geometry.sphere_surface_sampling
mmtbx.geometry.topology
mmtbx.geometry_restraints
mmtbx.geometry_restraints.c_beta
mmtbx.geometry_restraints.external
mmtbx.geometry_restraints.ramachandran
mmtbx.geometry_restraints.reference
mmtbx.hydrogens
mmtbx.hydrogens.build_hydrogens
mmtbx.hydrogens.find
mmtbx.ias
mmtbx.ions
mmtbx.ions.build
mmtbx.ions.environment
mmtbx.ions.geometry
mmtbx.ions.halides
mmtbx.ions.identify
mmtbx.ions.svm
mmtbx.ions.svm.dump_sites
mmtbx.ions.svm.utils
mmtbx.ions.utils
mmtbx.kinemage
mmtbx.kinemage.validation
mmtbx.ligands
mmtbx.ligands.xtal_screens
mmtbx.maps
mmtbx.maps.composite_omit_map
mmtbx.maps.fem
mmtbx.maps.fobs_minus_fobs_map
mmtbx.maps.kick
mmtbx.maps.superpose
mmtbx.maps.utils
mmtbx.masks
mmtbx.max_lik
mmtbx.max_lik.max_like_non_uniform
mmtbx.max_lik.maxlik
mmtbx.monomer_library
mmtbx.monomer_library.bondlength_defaults
mmtbx.monomer_library.cif_triage
mmtbx.monomer_library.cif_types
mmtbx.monomer_library.conformation_dependent_restraints
mmtbx.monomer_library.conv_v2_v3
mmtbx.monomer_library.correct_hydrogen_geometries
mmtbx.monomer_library.glyco_chiral_values
mmtbx.monomer_library.glyco_utils
mmtbx.monomer_library.hydrogen_restrictions
mmtbx.monomer_library.idealized_aa
mmtbx.monomer_library.linking_mixins
mmtbx.monomer_library.linking_setup
mmtbx.monomer_library.linking_utils
mmtbx.monomer_library.pdb_interpretation
mmtbx.monomer_library.rna_sugar_pucker_analysis
mmtbx.monomer_library.rotamer_utils
mmtbx.monomer_library.server
mmtbx.ncs
mmtbx.ncs.ligands
mmtbx.ncs.ncs
mmtbx.ncs.ncs_search
mmtbx.ncs.ncs_utils
mmtbx.pdbtools
mmtbx.polygon
mmtbx.polygon.output
mmtbx.real_space
mmtbx.refinement
mmtbx.refinement.adp_refinement
mmtbx.refinement.anomalous_scatterer_groups
mmtbx.refinement.ensemble_refinement.ensemble_utils
mmtbx.refinement.geometry_minimization
mmtbx.refinement.group
mmtbx.refinement.inspect_tardy_trajectory
mmtbx.refinement.minimization
mmtbx.refinement.minimization_ncs_constraints
mmtbx.refinement.occupancies
mmtbx.refinement.orca
mmtbx.refinement.print_statistics
mmtbx.refinement.real_space
mmtbx.refinement.real_space.fit_residue
mmtbx.refinement.real_space.fit_water
mmtbx.refinement.real_space.individual_sites
mmtbx.refinement.real_space.rigid_body
mmtbx.refinement.real_space.weight
mmtbx.refinement.refinement_flags
mmtbx.refinement.rigid_body
mmtbx.refinement.select_best_starting_model
mmtbx.refinement.tardy
mmtbx.refinement.targets
mmtbx.refinement.weights_params
mmtbx.rotamer
mmtbx.rotamer.graphics
mmtbx.rotamer.n_dim_table
mmtbx.rotamer.ramachandran_eval
mmtbx.rotamer.rotamer_eval
mmtbx.rotamer.sidechain_angles
mmtbx.rsr
mmtbx.scaling
mmtbx.scaling.absence_likelihood
mmtbx.scaling.absences
mmtbx.scaling.absolute_scaling
mmtbx.scaling.basic_analyses
mmtbx.scaling.data_statistics
mmtbx.scaling.fa_estimation
mmtbx.scaling.fest
mmtbx.scaling.make_param
mmtbx.scaling.massage_twin_detwin_data
mmtbx.scaling.matthews
mmtbx.scaling.outlier_plots
mmtbx.scaling.outlier_rejection
mmtbx.scaling.pair_analyses
mmtbx.scaling.pre_scale
mmtbx.scaling.random_omit
mmtbx.scaling.relative_scaling
mmtbx.scaling.relative_wilson
mmtbx.scaling.remove_outliers
mmtbx.scaling.rip_scale
mmtbx.scaling.sad_scale
mmtbx.scaling.sigmaa_estimation
mmtbx.scaling.sir_scale
mmtbx.scaling.siras_scale
mmtbx.scaling.ta_alpha_beta_calc
mmtbx.scaling.thorough_outlier_test
mmtbx.scaling.twin_analyses
mmtbx.scaling.twmad_scale
mmtbx.scaling.xtriage
mmtbx.secondary_structure
mmtbx.secondary_structure.build
mmtbx.secondary_structure.proteins
mmtbx.secondary_structure.utils
mmtbx.solvent
mmtbx.solvent.ensemble_ordered_solvent
mmtbx.solvent.ordered_solvent
mmtbx.tls
mmtbx.tls.command_line
mmtbx.tls.ladp
mmtbx.tls.tls_as_xyz
mmtbx.tls.tools
mmtbx.twinning
mmtbx.twinning.probabalistic_detwinning
mmtbx.twinning.twin_f_model
mmtbx.utils
mmtbx.utils.fab_elbow_angle
mmtbx.utils.rotatable_bonds
mmtbx.validation
mmtbx.validation.analyze_peptides
mmtbx.validation.cbetadev
mmtbx.validation.clashscore
mmtbx.validation.experimental
mmtbx.validation.graphics
mmtbx.validation.ligands
mmtbx.validation.model_properties
mmtbx.validation.molprobity
mmtbx.validation.molprobity.mp_geo
mmtbx.validation.ramalyze
mmtbx.validation.restraints
mmtbx.validation.rna_validate
mmtbx.validation.rotalyze
mmtbx.validation.sequence
mmtbx.validation.utils
mmtbx.validation.waters
mmtbx.wwpdb
mmtbx.wwpdb.rcsb_web_services
mmtbx.wwpdb.standard_geometry_cif
mmtbx.wwpdb.utils
scitbx
scitbx.array_family.flex
scitbx.lbfgs
scitbx.lstbx.normal_eqns
scitbx.lstbx.normal_eqns_solving
scitbx.matrix
xfel
xfel.cftbx
xfel.cftbx.detector
xfel.cftbx.detector.cspad_cbf_tbx
xfel.cftbx.detector.metrology2phil
xfel.clustering.cluster
xfel.clustering.cluster_groups
xfel.clustering.singleframe
xfel.command_line
xfel.command_line.auto_submit
xfel.command_line.brehm_diederichs
xfel.command_line.cbf_average
xfel.command_line.convert_gain_map
xfel.command_line.convert_gain_map_cbf
xfel.command_line.cxi_apply_metrology
xfel.command_line.cxi_cspad_pinwheel
xfel.command_line.cxi_diff
xfel.command_line.cxi_display_metrology
xfel.command_line.cxi_generate_circular_gain_mask
xfel.command_line.cxi_index
xfel.command_line.cxi_lsf
xfel.command_line.cxi_merge
xfel.command_line.cxi_optical2cbfheader
xfel.command_line.cxi_pbs
xfel.command_line.cxi_pickle2cbf
xfel.command_line.cxi_plotcv
xfel.command_line.cxi_psana
xfel.command_line.cxi_pyana
xfel.command_line.cxi_spots
xfel.command_line.cxi_stream_to_pickle
xfel.command_line.cxi_view
xfel.command_line.cxi_xmerge
xfel.command_line.histogram_finalise
xfel.command_line.list_db_metadata
xfel.command_line.make_mask
xfel.command_line.metrology
xfel.command_line.monitor_detectors
xfel.command_line.monitor_trials
xfel.command_line.overlay_spectra
xfel.command_line.plot_to_subpixel
xfel.command_line.postrefine
xfel.command_line.print_pickle
xfel.command_line.quadrants
xfel.command_line.radial_average
xfel.command_line.smooth_spectrum
xfel.command_line.subtract_background
xfel.command_line.trial_stats
xfel.command_line.view_pixel_histograms
xfel.command_line.xes_finalise
xfel.command_line.xes_histograms
xfel.cxi
xfel.cxi.average_spots
xfel.cxi.correction_vector_plot
xfel.cxi.cspad_ana
xfel.cxi.cspad_ana.average_tbx
xfel.cxi.cspad_ana.common_mode
xfel.cxi.cspad_ana.cspad_tbx
xfel.cxi.cspad_ana.display_calib
xfel.cxi.cspad_ana.histogram_finalise
xfel.cxi.cspad_ana.hitfinder_tbx
xfel.cxi.cspad_ana.mod_average
xfel.cxi.cspad_ana.mod_daq_status
xfel.cxi.cspad_ana.mod_dump
xfel.cxi.cspad_ana.mod_dump_bitmap
xfel.cxi.cspad_ana.mod_event_info
xfel.cxi.cspad_ana.mod_filter
xfel.cxi.cspad_ana.mod_hdf5
xfel.cxi.cspad_ana.mod_hitfind
xfel.cxi.cspad_ana.mod_illumination_filter
xfel.cxi.cspad_ana.mod_mar
xfel.cxi.cspad_ana.mod_param
xfel.cxi.cspad_ana.mod_pulnix_dump
xfel.cxi.cspad_ana.mod_radial_average
xfel.cxi.cspad_ana.mod_xes
xfel.cxi.cspad_ana.parse_calib
xfel.cxi.cspad_ana.pixel_histograms
xfel.cxi.cspad_ana.xes_finalise
xfel.cxi.cspad_ana.xes_histograms
xfel.cxi.cxi_cc
xfel.cxi.display_powder_arcs
xfel.cxi.display_spots
xfel.cxi.gfx
xfel.cxi.gfx.status_plot
xfel.cxi.gfx.trials_plot
xfel.cxi.gfx.wx_detectors
xfel.cxi.integrate_image_api
xfel.cxi.strong_zulu
xfel.cxi.util
xfel.metrology
xfel.metrology.flatfile
xfel.metrology.legacy_scale
xfel.metrology.mark0
xfel.metrology.mark1
xfel.metrology.mark10
xfel.metrology.mark3
xfel.metrology.quadrant
xfel.mono_simulation
xfel.mono_simulation.mono_treatment
xfel.phil_preferences
