Trajectory Traces

class TraceManager(TraceType=<class 'mudslide.tracer.InMemoryTrace'>, trace_args=[], trace_kwargs={})

Bases: object

Manage the collection of observables from a set of trajectories

add_batch(traces: List[Trace_]) → None

merge other manager into self

as_dict() → Dict

counts() → Type[ndarray]

event_list() → List

merge_tracer(tracer: Trace_) → None

accepts a Tracer object and adds it to list of traces

outcome() → Type[ndarray]

spawn_tracer() → Trace_

returns a Tracer object that will collect all of the observables for a given trajectory

summarize(verbose: bool = False, file: ~typing.Any = <_io.TextIOWrapper name='<stdout>' mode='w' encoding='UTF-8'>) → None

class InMemoryTrace(weight: float = 1.0)

Bases: Trace_

Collect results from a single trajectory

as_dict() → Dict

collect(trajectory_snapshot: Any) → None

collect and optionally process data

hop(time: float, hop_from: int, hop_to: int, zeta: float, prob: float) → None

record_event(event_type: str, event: Dict)

add a single event (e.g., hop or collapse) to the log

class YAMLTrace(base_name: str = 'traj', weight: float = 1.0, log_pitch=512, location='', load_main_log=None)

Bases: Trace_

Collect results from a single trajectory and write to yaml files

as_dict() → Dict

clone()

collect(trajectory_snapshot: Any) → None

collect and optionally process data

files(absolute_path=True)

hop(time: float, hop_from: int, hop_to: int, zeta: float, prob: float) → None

record_event(event_dict)

add a single event (e.g., hop or collapse) to the log

write_main_log()

Writes main log file, which points to other files for logging information