Index

_

__enter__() (opengate_gate_tree.io.rootfile.RootFile method) __exit__() (opengate_gate_tree.io.rootfile.RootFile method)

__getitem__() (opengate_gate_tree.tree.treedata.TreeData method) __len__() (opengate_gate_tree.tree.treedata.TreeData method)

A

AmbiguousTreeError

array_branches (opengate_gate_tree.tree.treedata.TreeData property) as_text_list() (in module opengate_gate_tree.io.writers.base)

B

branch_count (opengate_gate_tree.tree.hits.detection.HitsTreeDetection attribute) branch_names (opengate_gate_tree.tree.treedata.TreeData property) branch_names() (opengate_gate_tree.io.rootfile.RootFile method) branch_spec() (in module opengate_gate_tree.tree.hits.schema) branch_type_name() (in module opengate_gate_tree.io.validation) branches (opengate_gate_tree.tree.statistics.TreeStatistics attribute) branches_to_extract (opengate_gate_tree.config.RunConfig attribute) BranchKind (class in opengate_gate_tree.tree.hits.schema) BranchNotFoundError

BranchSpec (class in opengate_gate_tree.tree.hits.schema) BranchStatistics (class in opengate_gate_tree.tree.statistics) build_output_file_name() (in module opengate_gate_tree.io.naming) build_output_file_path() (in module opengate_gate_tree.io.naming) build_parser() (in module opengate_gate_tree.cli) build_statistics_file_path() (in module opengate_gate_tree.io.naming) by_event() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) by_run() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method)

C

close() (opengate_gate_tree.io.rootfile.RootFile method) columns (opengate_gate_tree.tree.treedata.TreeData attribute)

compute_statistics() (in module opengate_gate_tree.tree.statistics) configure_logging() (in module opengate_gate_tree.logging_setup) CsvTreeWriter (class in opengate_gate_tree.io.writers.csv_writer)

D

DecayType (class in opengate_gate_tree.tree.hits.positronium) decode_positronium_column() (in module opengate_gate_tree.tree.hits.positronium) decode_positronium_value() (in module opengate_gate_tree.tree.hits.positronium) describe_hits_tree() (in module opengate_gate_tree.tree.hits.detection) detect_hits_tree() (opengate_gate_tree.io.rootfile.RootFile method)

detect_hits_variant() (in module opengate_gate_tree.tree.hits.detection) detection (opengate_gate_tree.tree.statistics.TreeStatistics attribute) dtype (opengate_gate_tree.tree.hits.schema.BranchSpec attribute) (opengate_gate_tree.tree.statistics.BranchStatistics attribute) dtypes (opengate_gate_tree.tree.treedata.TreeData property)

E

entries (opengate_gate_tree.tree.statistics.BranchStatistics attribute) entry_count (opengate_gate_tree.tree.statistics.TreeStatistics attribute) (opengate_gate_tree.tree.treedata.TreeData property) event_count (opengate_gate_tree.tree.statistics.HitsSummary attribute)

event_key (opengate_gate_tree.tree.statistics.HitsSummary attribute) expected_branches() (in module opengate_gate_tree.tree.hits.schema) expected_branches_of() (in module opengate_gate_tree.tree.hits.detection) ExportError

F

find_complete_hits_variant() (in module opengate_gate_tree.tree.hits.detection) find_hits_tree_names() (in module opengate_gate_tree.io.validation) find_hits_variant() (in module opengate_gate_tree.tree.hits.detection)

find_system_type() (in module opengate_gate_tree.tree.hits.variant) find_tree_name() (in module opengate_gate_tree.io.validation) format_statistics() (in module opengate_gate_tree.tree.statistics) from_dataframe() (opengate_gate_tree.tree.treedata.TreeData class method)

G

GammaType (class in opengate_gate_tree.tree.hits.positronium) gate_tree (opengate_gate_tree.config.RunConfig attribute) GateFrameAccessor (class in opengate_gate_tree.tree.accessors) GateSeriesAccessor (class in opengate_gate_tree.tree.accessors)

GateSystemType (class in opengate_gate_tree.tree.hits.variant) GateTree (class in opengate_gate_tree.tree.gatetree) GateTreeError get_logger() (in module opengate_gate_tree.logging_setup) get_writer() (in module opengate_gate_tree.io.writers)

H

has_decay_metadata() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) has_positronium_metadata() (in module opengate_gate_tree.tree.hits.positronium) has_tree() (opengate_gate_tree.io.rootfile.RootFile method) Hdf5TreeWriter (class in opengate_gate_tree.io.writers.hdf5_writer)

hits_summary (opengate_gate_tree.tree.statistics.TreeStatistics attribute) hits_tree_names() (opengate_gate_tree.io.rootfile.RootFile method) HitsSummary (class in opengate_gate_tree.tree.statistics) HitsTreeDetection (class in opengate_gate_tree.tree.hits.detection) HitsTreeValidationError HitsTreeVariant (class in opengate_gate_tree.tree.hits.variant)

I

in_box() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) in_cylinder() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) in_range() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) in_sphere() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) input_gate_root_file (opengate_gate_tree.config.RunConfig attribute) input_tree_name (opengate_gate_tree.config.RunConfig attribute) is_decay_type() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) is_from_event() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) is_from_run() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method)

is_gamma_type() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) is_in_box() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) is_in_cylinder() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) is_in_range() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) is_in_sphere() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) is_process() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) is_source_type() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) is_text_column() (in module opengate_gate_tree.io.writers.base)

K

kind (opengate_gate_tree.tree.hits.schema.BranchSpec attribute) (opengate_gate_tree.tree.statistics.BranchStatistics attribute)

L

log() (in module opengate_gate_tree.logger)

M

main() (in module opengate_gate_tree.cli) merge_hits_trees (opengate_gate_tree.config.RunConfig attribute) merge_tree_data() (in module opengate_gate_tree.tree.merge) module opengate_gate_tree.cli opengate_gate_tree.config opengate_gate_tree.errors opengate_gate_tree.io.fileformat opengate_gate_tree.io.naming opengate_gate_tree.io.reader opengate_gate_tree.io.rootfile opengate_gate_tree.io.statistics opengate_gate_tree.io.validation opengate_gate_tree.io.writers opengate_gate_tree.io.writers.base opengate_gate_tree.io.writers.csv_writer opengate_gate_tree.io.writers.hdf5_writer opengate_gate_tree.io.writers.root_writer opengate_gate_tree.logger opengate_gate_tree.logging_setup opengate_gate_tree.tree.accessors opengate_gate_tree.tree.branch opengate_gate_tree.tree.filters opengate_gate_tree.tree.gatetree opengate_gate_tree.tree.hits.detection opengate_gate_tree.tree.hits.positronium opengate_gate_tree.tree.hits.schema opengate_gate_tree.tree.hits.validation opengate_gate_tree.tree.hits.variant opengate_gate_tree.tree.merge opengate_gate_tree.tree.statistics opengate_gate_tree.tree.treedata

N

name (opengate_gate_tree.tree.hits.schema.BranchSpec attribute) (opengate_gate_tree.tree.statistics.BranchStatistics attribute)

non_finite_count (opengate_gate_tree.tree.statistics.BranchStatistics attribute) normalize_branch_selection() (in module opengate_gate_tree.tree.branch)

O

opengate_gate_tree.cli module opengate_gate_tree.config module opengate_gate_tree.errors module opengate_gate_tree.io.fileformat module opengate_gate_tree.io.naming module opengate_gate_tree.io.reader module opengate_gate_tree.io.rootfile module opengate_gate_tree.io.statistics module opengate_gate_tree.io.validation module opengate_gate_tree.io.writers module opengate_gate_tree.io.writers.base module opengate_gate_tree.io.writers.csv_writer module opengate_gate_tree.io.writers.hdf5_writer module opengate_gate_tree.io.writers.root_writer module opengate_gate_tree.logger module

opengate_gate_tree.logging_setup module opengate_gate_tree.tree.accessors module opengate_gate_tree.tree.branch module opengate_gate_tree.tree.filters module opengate_gate_tree.tree.gatetree module opengate_gate_tree.tree.hits.detection module opengate_gate_tree.tree.hits.positronium module opengate_gate_tree.tree.hits.schema module opengate_gate_tree.tree.hits.validation module opengate_gate_tree.tree.hits.variant module opengate_gate_tree.tree.merge module opengate_gate_tree.tree.statistics module opengate_gate_tree.tree.treedata module output_dir (opengate_gate_tree.config.RunConfig attribute) output_file_format (opengate_gate_tree.config.RunConfig attribute) output_file_title (opengate_gate_tree.config.RunConfig attribute) OutputFileFormat (class in opengate_gate_tree.io.fileformat)

P

parse_gate_tree() (in module opengate_gate_tree.tree.gatetree) parse_output_file_format() (in module opengate_gate_tree.io.fileformat)

path (opengate_gate_tree.io.rootfile.RootFile property) positronium_enum() (in module opengate_gate_tree.tree.hits.positronium) prepare_output_directory() (in module opengate_gate_tree.io.writers.base)

R

read() (opengate_gate_tree.io.rootfile.RootFile method) read_hits() (opengate_gate_tree.io.rootfile.RootFile method) read_hits_trees() (in module opengate_gate_tree.io.reader) read_tree() (in module opengate_gate_tree.io.reader) reject_branch_names() (in module opengate_gate_tree.io.writers.base) resolve_requested_tree_name() (in module opengate_gate_tree.io.validation)

resolve_tree_name() (in module opengate_gate_tree.io.validation) (opengate_gate_tree.io.rootfile.RootFile method) RootFile (class in opengate_gate_tree.io.rootfile) RootFileError RootTreeWriter (class in opengate_gate_tree.io.writers.root_writer) run_count (opengate_gate_tree.tree.statistics.HitsSummary attribute) RunConfig (class in opengate_gate_tree.config)

S

select() (opengate_gate_tree.tree.treedata.TreeData method) select_by_decay_type() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) select_by_gamma_type() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) select_by_process() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method) select_by_source_type() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateSeriesAccessor method)

skip_hits_validation (opengate_gate_tree.config.RunConfig attribute) source_trees (opengate_gate_tree.tree.statistics.HitsSummary attribute) SourceType (class in opengate_gate_tree.tree.hits.positronium) statistics_to_dict() (in module opengate_gate_tree.tree.statistics) summarise_hits_tree() (in module opengate_gate_tree.tree.hits.detection) supported_variants() (in module opengate_gate_tree.tree.hits.schema) system (opengate_gate_tree.tree.hits.detection.HitsTreeDetection attribute) system_depth (opengate_gate_tree.tree.hits.detection.HitsTreeDetection attribute) system_id_depth() (in module opengate_gate_tree.tree.hits.variant)

T

takes_system_depth() (in module opengate_gate_tree.tree.hits.schema) to_dataframe() (opengate_gate_tree.tree.treedata.TreeData method) top_values (opengate_gate_tree.tree.statistics.BranchStatistics attribute) total_edep (opengate_gate_tree.tree.statistics.HitsSummary attribute) track_count (opengate_gate_tree.tree.statistics.HitsSummary attribute) track_key (opengate_gate_tree.tree.statistics.HitsSummary attribute) tree (opengate_gate_tree.tree.statistics.TreeStatistics attribute) (opengate_gate_tree.tree.treedata.TreeData attribute)

tree_name (opengate_gate_tree.tree.hits.detection.HitsTreeDetection attribute) tree_names (opengate_gate_tree.io.rootfile.RootFile property) TreeData (class in opengate_gate_tree.tree.treedata) TreeMergeError TreeNotFoundError TreeStatistics (class in opengate_gate_tree.tree.statistics) TreeWriter (class in opengate_gate_tree.io.writers.base)

U

unique_count (opengate_gate_tree.tree.statistics.BranchStatistics attribute) UnknownHitsVariantError

UnsupportedBranchTypeError uses_system() (in module opengate_gate_tree.tree.hits.schema)

V

validate_branch_interpretations() (in module opengate_gate_tree.io.validation) validate_branch_selection() (in module opengate_gate_tree.tree.branch) validate_branches_present() (in module opengate_gate_tree.io.validation)

validate_hits_tree() (in module opengate_gate_tree.tree.hits.validation) validate_root_file_path() (in module opengate_gate_tree.io.validation) variant (opengate_gate_tree.tree.hits.detection.HitsTreeDetection attribute) variant_reference() (in module opengate_gate_tree.tree.hits.schema)

W

with_decay_metadata() (in module opengate_gate_tree.tree.filters) (opengate_gate_tree.tree.accessors.GateFrameAccessor method) write() (opengate_gate_tree.io.writers.base.TreeWriter method) (opengate_gate_tree.io.writers.csv_writer.CsvTreeWriter method) (opengate_gate_tree.io.writers.hdf5_writer.Hdf5TreeWriter method) (opengate_gate_tree.io.writers.root_writer.RootTreeWriter method)

write_statistics (opengate_gate_tree.config.RunConfig attribute) write_statistics() (in module opengate_gate_tree.io.statistics) write_tree() (in module opengate_gate_tree.io.writers)