grdb 0.9.1

README.md

grdb

A Python library for creating and managing SQLite databases of THz pulse measurement data.

Installation

pip install grdb

Examples

Loading Pulses

Load sample pulses:

from pathlib import Path
from grdb import load_pulses

db_path = Path("raster.grf")

# Load first 100 sample pulses
samples = load_pulses(db_path, offset=0, limit=100, variant="sample")

Load reference pulses:

from pathlib import Path
from grdb import load_pulses

db_path = Path("raster.grf")

# Load first 50 reference pulses
references = load_pulses(db_path, offset=0, limit=50, variant="reference")

Load all pulses (both samples and references):

from pathlib import Path
from grdb import load_pulses

db_path = Path("raster.grf")

# Load all pulse types (variant=None)
all_pulses = load_pulses(db_path, offset=0, limit=1000, variant=None)

Loading Metadata

from pathlib import Path
from grdb import load_metadata

db_path = Path("raster.grf")

raster_config, device_metadata, raster_metadata, n_refs, n_samples = load_metadata(db_path)

• raster_config: Acquisition settings such as raster patterns, scan stepsize, optional reference_point, how often to acquire_ref_every, and any multi-pass repetitions_config.
• device_metadata: Instrument identifiers including the serial number and firmware version captured at acquisition time.
• raster_metadata: Session-level context like the GRDB app version, optional raster_id, acquisition timestamp, user-supplied annotations, raw device_configuration, and any saved coordinate transform in user_coordinates.
• user_coordinates (within raster_metadata): A CoordinateTransform that captures how user coordinates map to machine space, including the UUID and name of the transform, the XYZ offset applied, the axis/sign remapping in mapping, the last_used timestamp, and optional operator notes.
• n_refs and n_samples: Counts of final reference and sample pulses stored in the database (stitched sources are excluded so the numbers reflect the user-facing traces).

Understanding the Measurement Data Structure

The load_pulses function returns a list of Measurement objects. Each Measurement represents a single pulse measurement with its associated metadata and spatial information.

Measurement Fields

A Measurement object contains the following fields:

• pulse (Trace): The actual pulse data containing:

  • time (list[float]): Time values for the pulse waveform
  • signal (list[float]): Signal amplitude values corresponding to each time point
  • uuid (UUID): Unique identifier for this pulse
  • timestamp (int): Unix timestamp in milliseconds when the pulse was acquired
  • derived_from (list[PulseComposition] | None): If this pulse was created by stitching multiple pulses together, this contains information about the source pulses
  • averaged_from (list[Trace] | None): If this pulse was created by averaging multiple pulses, this lists the contributing source traces (which may themselves be stitched)

• point (Point3D): The 3D spatial coordinates where this pulse was measured:

  • x (float | None): X coordinate
  • y (float | None): Y coordinate
  • z (float | None): Z coordinate

• variant (str): The type of measurement, one of:

  • "reference": Reference measurement taken at a known location
  • "sample": Sample measurement taken on the object being scanned
  • "noise": Noise measurement for baseline correction
  • "other": Other types of measurements

• reference (UUID | None): If this is a sample measurement, this field may contain the UUID of the associated reference pulse

• annotations (list[KVPair] | None): Optional key-value pairs for additional metadata

Example: Accessing Measurement Data

from pathlib import Path
from grdb import load_pulses

db_path = Path("raster.grf")

# Load sample pulses
samples = load_pulses(db_path, offset=0, limit=10, variant="sample")

# Access the first measurement
first_measurement = samples[0]

# Access pulse waveform data
time_values = first_measurement.pulse.time
signal_values = first_measurement.pulse.signal

# Access spatial coordinates
x_position = first_measurement.point.x
y_position = first_measurement.point.y
z_position = first_measurement.point.z

# Check the measurement type
measurement_type = first_measurement.variant

# Get the pulse UUID
pulse_id = first_measurement.pulse.uuid