Source code for quantify_core.measurement.control

# Repository: https://gitlab.com/quantify-os/quantify-core
# Licensed according to the LICENCE file on the main branch
"""Module containing the MeasurementControl."""
from __future__ import annotations

import itertools
import math
import signal
import tempfile
import threading
import time
import types
from collections.abc import Iterable
from functools import reduce
from itertools import chain
from pathlib import Path
from typing import TYPE_CHECKING, Any, Dict, Optional, Protocol, Sequence, TypeVar

import adaptive
import numpy as np
from filelock import FileLock
from qcodes import validators as vals
from qcodes.instrument import Instrument, InstrumentChannel
from qcodes.parameters import InstrumentRefParameter, ManualParameter
from tqdm.auto import tqdm

from quantify_core import __version__ as _quantify_version
from quantify_core.data.experiment import QuantifyExperiment
from quantify_core.data.handling import (
    DATASET_NAME,
    _is_uniformly_spaced_array,
    create_exp_folder,
    grow_dataset,
    initialize_dataset,
    snapshot,
    trim_dataset,
)
from quantify_core.measurement.types import Gettable, Settable, is_batched
from quantify_core.utilities.general import call_if_has_method

if TYPE_CHECKING:
    import xarray as xr

# Intended for plotting monitors that run in separate processes
_DATASET_LOCKS_DIR = Path(tempfile.gettempdir())


[docs] class MeasurementControl(Instrument): # pylint: disable=too-many-instance-attributes """ Instrument responsible for controlling the data acquisition loop. MeasurementControl (MC) is based on the notion that every experiment consists of the following steps: 1. Set some parameter(s) (settable_pars) 2. Measure some other parameter(s) (gettable_pars) 3. Store the data. Example: .. code-block:: python meas_ctrl.settables(mw_source1.freq) meas_ctrl.setpoints(np.arange(5e9, 5.2e9, 100e3)) meas_ctrl.gettables(pulsar_QRM.signal) dataset = meas_ctrl.run(name='Frequency sweep') MC exists to enforce structure on experiments. Enforcing this structure allows: - Standardization of data storage. - Providing basic real-time visualization. MC imposes minimal constraints and allows: - Iterative loops, experiments in which setpoints are processed step by step. - Batched loops, experiments in which setpoints are processed in batches. - Adaptive loops, setpoints are determined based on measured values. .. seealso:: :ref:`Measurement Control How-To <howto-measurement-control>` Parameters ---------- name name of this instrument. """ def __init__(self, name: str): super().__init__(name=name) # Parameters are attributes included in logging and which the user can change. self.lazy_set = ManualParameter( vals=vals.Bool(), initial_value=False, name="lazy_set", instrument=self, ) """If set to ``True``, only set any settable if the setpoint differs from the previous setpoint. Note that this parameter is overridden by the ``lazy_set`` argument passed to the :meth:`.run` and :meth:`.run_adaptive` methods.""" self.verbose = ManualParameter( vals=vals.Bool(), initial_value=True, instrument=self, name="verbose", ) """If set to ``True``, prints to ``std_out`` during experiments.""" self.on_progress_callback = ManualParameter( vals=vals.Callable(), instrument=self, name="on_progress_callback", ) """A callback to communicate progress. This should be a callable accepting floats between 0 and 100 indicating the percentage done.""" self.instr_plotmon = InstrumentRefParameter( vals=vals.MultiType(vals.Strings(), vals.Enum(None)), instrument=self, name="instr_plotmon", ) """Instrument responsible for live plotting. Can be set to ``None`` to disable live plotting.""" self.update_interval = ManualParameter( initial_value=0.5, vals=vals.Numbers(min_value=0.1), instrument=self, name="update_interval", ) """Interval for updates during the data acquisition loop, every time more than :attr:`.update_interval` time has elapsed when acquiring new data points, data is written to file (and the live monitoring detects updated).""" # Add experiment_data submodule to allow user to save custom metadata experiment_data = InstrumentChannel(self, "experiment_data") self.add_submodule("experiment_data", experiment_data) self._soft_avg_validator = vals.Ints(1, int(1e8)).validate # variables that are set before the start of any experiment. self._settable_pars: list[Settable] = [] """Parameter(s) to be set during the acquisition loop.""" self._setpoints: list[np.ndarray] = [] """An (M, N) matrix of N setpoints for M settables.""" self._setpoints_input: Iterable[np.ndarray] = [] """The values to loop over in the experiment.""" self._gettable_pars: list[Gettable] = [] """Parameter(s) to be get during the acquisition loop.""" # variables used for book keeping during acquisition loop. self._soft_avg = 1 self._nr_acquired_values = 0 self._loop_count = 0 self._begintime = time.time() self._last_upd = time.time() self._batch_size_last = None self._dataarray_cache: Optional[Dict[str, Any]] = None # variables used for persistence, plotting and data handling self._dataset = None self._exp_folder: Path = None self._experiment = None self._plotmon_name = "" # attributes named as if they are python attributes, e.g. dset.drid_2d == True self._plot_info = { "grid_2d": False, "grid_2d_uniformly_spaced": False, "1d_2_settables_uniformly_spaced": False, } # properly handling KeyboardInterrupts self._thread_data = threading.local() # counter for KeyboardInterrupts to allow forced interrupt self._thread_data.events_num = 0 def __repr__full__(self): str_out = super().__repr__() + "\n" # hasattr is necessary in case the instrument was closed if hasattr(self, "_settable_pars"): settable_names = [p.name for p in self._settable_pars] str_out += f" settables: {settable_names}\n" if hasattr(self, "_gettable_pars"): gettable_names = [p.name for p in self._gettable_pars] str_out += f" gettables: {gettable_names}\n" if hasattr(self, "_setpoints_input") and self._setpoints_input is not None: input_shapes = [ np.asarray(points).shape for points in self._setpoints_input ] str_out += f" setpoints_grid input shapes: {input_shapes}\n" if hasattr(self, "_setpoints") and self._setpoints is not None: str_out += ( f" setpoints shape: {np.asarray(self._setpoints).shape[::-1]}\n" ) return str_out def __repr__(self): """ Returns a string containing a summary of this object regarding settables, gettables and setpoints. Intended, for example, to give a more useful representation in interactive shells. """ return self.__repr__full__()
[docs] def get_idn(self) -> dict[str, str | None]: return { "vendor": "Quantify", "model": f"{self.__module__}.{self.__class__.__name__}", "serial": self.name, "firmware": _quantify_version, }
[docs] def show(self): """Print short representation of the object to stdout.""" print(self.__repr__full__())
[docs] def set_experiment_data( self, experiment_data: Dict[str, Any], overwrite: bool = True ): """ Populates the experiment_data submodule with experiment_data parameters Parameters ----------- experiment_data: Dict specifying the names of the experiment_data parameters and their values. Follows the format: .. code-block:: python { "parameter_name": { "value": 10.2 "label": "parameter label" "unit": "Hz" } } overwrite: If True, clear all previously saved experiment_data parameters and save new ones. If False, keep all previously saved experiment_data parameters and change their values if necessary """ if overwrite: self.clear_experiment_data() for name, parameter in experiment_data.items(): if name not in self.experiment_data.parameters: self.experiment_data.add_parameter( name=name, parameter_class=ManualParameter ) self.experiment_data.parameters[name](parameter.get("value")) self.experiment_data.parameters[name].label = parameter.get("label", name) self.experiment_data.parameters[name].unit = parameter.get("unit", "")
[docs] def clear_experiment_data(self): """ Remove all experiment_data parameters from the experiment_data submodule """ self.experiment_data.parameters = {}
############################################ # Methods used to control the measurements # ############################################ def _reset(self, save_data=True): """ Resets all experiment specific variables for a new run. """ self._nr_acquired_values = 0 self._loop_count = 0 self._begintime = time.time() self._batch_size_last = None # Reset KeyboardInterrupt counter self._thread_data.events_num = 0 # Assign handler to interrupt signal signal.signal(signal.SIGINT, self._interrupt_handler) self._save_data = save_data self._dataarray_cache = None def _reset_post(self): """ Resets specific variables that can change before `.run()`. """ self._plot_info = { "grid_2d": False, "grid_2d_uniformly_spaced": False, "1d_2_settables_uniformly_spaced": False, } # Reset to default interrupt handler signal.signal(signal.SIGINT, signal.default_int_handler) # Make sure tqdm progress bar attribute is closed and removed if mc is interrupted and shot down gracefully if self.verbose() and hasattr(self, "pbar"): self.pbar.close() del self.pbar def _init(self, name): """ Initializes MC, such as creating the Dataset, experiment folder and such. """ # needs to be calculated here because we need the settables' `.batched` if self._setpoints is None: self._setpoints = grid_setpoints(self._setpoints_input, self._settable_pars) # initialize an empty dataset self._dataset = initialize_dataset( self._settable_pars, self._setpoints, self._gettable_pars ) self._dataset.attrs["name"] = name # cannot add it as a separate (nested) dict so make it flat. self._dataset.attrs.update(self._plot_info) tuid = self._dataset.attrs["tuid"] self._experiment = QuantifyExperiment(tuid=tuid) if self._save_data: self._exp_folder = Path(create_exp_folder(tuid=tuid, name=name)) self._safe_write_dataset() # Write the empty dataset snap = snapshot(update=False, clean=True) # Save a snapshot of all self._experiment.save_snapshot(snap) else: self._exp_folder = None if self.instr_plotmon(): # Tell plotmon to start monitoring the new dataset self.instr_plotmon.get_instr().update(tuid=tuid)
[docs] def run( self, name: str = "", soft_avg: int = 1, lazy_set: Optional[bool] = None, save_data: bool = True, ) -> xr.Dataset: """ Starts a data acquisition loop. Parameters ---------- name Name of the measurement. It is included in the name of the data files. soft_avg Number of software averages to be performed by the measurement control. E.g. if `soft_avg=3` the full dataset will be measured 3 times and the measured values will be averaged element-wise, the averaged dataset is then returned. lazy_set If ``True`` and a setpoint equals the previous setpoint, the ``.set`` method of the settable will not be called for that iteration. If this argument is ``None``, the ``.lazy_set()`` ManualParameter is used instead (which by default is ``False``). .. warning:: This feature is not available yet when running in batched mode. save_data If ``True`` that the measurement data is stored. """ lazy_set = lazy_set if lazy_set is not None else self.lazy_set() self._soft_avg_validator(soft_avg) # validate first self._soft_avg = soft_avg self._reset(save_data=save_data) self._init(name) self._prepare_settables() try: if self._get_is_batched(): if self.verbose(): print("Starting batched measurement...") self._run_batched() else: if self.verbose(): print("Starting iterative measurement...") self._run_iterative(lazy_set) except KeyboardInterrupt: print("\nInterrupt signaled, exiting gracefully...") if self._save_data: self._safe_write_dataset() # Wrap up experiment and store data self._finish() self._reset_post() self._check_interrupt() # Propagate interruption return self._dataset
[docs] def run_adaptive(self, name, params, lazy_set: Optional[bool] = None) -> xr.Dataset: """ Starts a data acquisition loop using an adaptive function. .. warning :: The functionality of this mode can be complex - it is recommended to read the relevant long form documentation. Parameters ---------- name Name of the measurement. This name is included in the name of the data files. params Key value parameters describe the adaptive function to use, and any further parameters for that function. lazy_set If ``True`` and a setpoint equals the previous setpoint, the ``.set`` method of the settable will not be called for that iteration. If this argument is ``None``, the ``.lazy_set()`` ManualParameter is used instead (which by default is ``False``). """ lazy_set = lazy_set if lazy_set is not None else self.lazy_set() def measure(vec) -> float: """ This function executes the measurement and is passed to the adaptive function (often a minimization algorithm) to be evaluated many times. Although the measure function acquires (and stores) all gettable parameters, only the first value is returned to match the function signature for a valid measurement function. """ if len(self._dataset["y0"]) == self._nr_acquired_values: self._dataset = grow_dataset(self._dataset) # 1D sweeps return single values, wrap in a list if np.isscalar(vec): vec = [vec] self._iterative_set_and_get(vec, self._nr_acquired_values, lazy_set) # only y0 is returned so as to match the function signature for a valid # measurement function. ret = self._dataset["y0"].values[self._nr_acquired_values] self._nr_acquired_values += 1 self._update(".") self._check_interrupt() return ret def subroutine(): self._prepare_settables() self._prepare_gettables() adaptive_function = params.get("adaptive_function") af_pars_copy = dict(params) # if the adaptive function is part of the python adaptive library if isinstance(adaptive_function, type) and issubclass( adaptive_function, adaptive.learner.BaseLearner ): goal = af_pars_copy["goal"] unusued_pars = ["adaptive_function", "goal"] for unusued_par in unusued_pars: af_pars_copy.pop(unusued_par, None) learner = adaptive_function(measure, **af_pars_copy) adaptive.runner.simple(learner, goal) # any adaptive function with the right signature elif isinstance(adaptive_function, types.FunctionType): unused_pars = ["adaptive_function"] for unused_par in unused_pars: af_pars_copy.pop(unused_par, None) adaptive_function(measure, **af_pars_copy) self._reset() self.setpoints( np.zeros((64, len(self._settable_pars))) ) # block out some space in the dataset self._init(name) try: print("Running adaptively...") subroutine() except KeyboardInterrupt: print("\nInterrupt signaled, exiting gracefully...") self._finish() self._dataset = trim_dataset(self._dataset) self._safe_write_dataset() # Wrap up experiment and store data self._check_interrupt() # Propagate interruption return self._dataset
def _run_iterative(self, lazy_set: bool = False): while self._get_fracdone() < 1.0: self._prepare_gettables() self._dataarray_cache = {} for idx in range(len(self._setpoints[0])): self._iterative_set_and_get( [spt[idx] for spt in self._setpoints], self._curr_setpoint_idx(), lazy_set, ) self._nr_acquired_values += 1 self._update() self._check_interrupt() self._dataarray_cache = None self._loop_count += 1 def _run_batched(self): # pylint: disable=too-many-locals batch_size = self._get_batch_size() where_batched = self._get_where_batched() where_iterative = self._get_where_iterative() batched_settables = self._get_batched_settables() iterative_settables = self._get_iterative_settables() if self.verbose(): print( "Iterative settable(s) [outer loop(s)]:\n\t", ", ".join(par.name for par in iterative_settables) or "--- (None) ---", "\nBatched settable(s):\n\t", ", ".join(par.name for par in batched_settables), f"\nBatch size limit: {batch_size:d}\n", ) while self._get_fracdone() < 1.0: setpoint_idx = self._curr_setpoint_idx() self._batch_size_last = batch_size slice_len = setpoint_idx + self._batch_size_last for i, spar in enumerate(iterative_settables): # Here ensure that all setpoints of each iterative settable are the same # within each batch val, iterator = next( itertools.groupby( self._setpoints[where_iterative[i]][setpoint_idx:slice_len] ) ) spar.set(val) # We also determine the size of each next batch self._batch_size_last = min(self._batch_size_last, len(tuple(iterator))) slice_len = setpoint_idx + self._batch_size_last for i, spar in enumerate(batched_settables): pnts = self._setpoints[where_batched[i]][setpoint_idx:slice_len] spar.set(pnts) # Update for `print_progress` self._batch_size_last = min(self._batch_size_last, len(pnts)) self._prepare_gettables() y_off = 0 for gpar in self._gettable_pars: new_data = gpar.get() # can return (N, M) # if we get a simple array, shape it to (1, M) if len(np.shape(new_data)) == 1: new_data = new_data.reshape(1, (len(new_data))) for row in new_data: yi_name = f"y{y_off}" slice_len = setpoint_idx + len(row) # the slice we will be updating old_vals = self._dataset[yi_name].values[setpoint_idx:slice_len] old_vals[np.isnan(old_vals)] = ( 0 # will be full of NaNs on the first iteration, change to 0 ) self._dataset[yi_name].values[setpoint_idx:slice_len] = ( self._build_data(row, old_vals) ) y_off += 1 self._nr_acquired_values += np.shape(new_data)[1] self._update() self._check_interrupt() def _build_data(self, new_data, old_data): if self._soft_avg == 1: return old_data + new_data return (new_data + old_data * self._loop_count) / (1 + self._loop_count) def _iterative_set_and_get( self, setpoints: np.ndarray, idx: int, lazy_set: bool = False ): """ Processes one row of setpoints. Sets all settables, gets all gettables, encodes new data in dataset. If lazy_set==True and any setpoint equals the corresponding previous setpoint, that setpoint is not set in its corresponding settable. .. note :: Note: some lines in this function are redundant depending on mode (sweep vs adaptive). Specifically: - in sweep, the x dimensions are already filled - in adaptive, soft_avg is always 1 """ assert self._dataset is not None # set all individual setparams for setpar_idx, (spar, spt) in enumerate(zip(self._settable_pars, setpoints)): xi_name = f"x{setpar_idx}" if self._dataarray_cache is None: xi_dataarray_values = self._dataset[xi_name].values else: if not xi_name in self._dataarray_cache: self._dataarray_cache[xi_name] = self._dataset[xi_name].values xi_dataarray_values = self._dataarray_cache[xi_name] xi_dataarray_values[idx] = spt prev_spt = xi_dataarray_values[idx - 1] if idx else None # if lazy_set==True and the setpoint equals the previous setpoint, do not # set the setpoint. if not (lazy_set and spt == prev_spt): spar.set(spt) # get all data points y_offset = 0 for gpar in self._gettable_pars: new_data = gpar.get() # if the gettable returned a float, cast to list if np.isscalar(new_data): new_data = [new_data] # iterate through the data list, each element is different y for these # x coordinates for val in new_data: yi_name = f"y{y_offset}" if self._dataarray_cache is None: yi_dataarray_values = self._dataset[yi_name].values else: if not yi_name in self._dataarray_cache: self._dataarray_cache[yi_name] = self._dataset[yi_name].values yi_dataarray_values = self._dataarray_cache[yi_name] old_val = yi_dataarray_values[idx] if self._soft_avg == 1 or np.isnan(old_val): if isinstance(val, np.ndarray) and val.size == 1: # This branch avoids usage of deprecated code yi_dataarray_values[idx] = val.item() else: # This is deprecated if val is an np.ndarray with ndim > 0 yi_dataarray_values[idx] = val else: averaged = (val + old_val * self._loop_count) / ( 1 + self._loop_count ) yi_dataarray_values[idx] = averaged y_offset += 1 ############################################ # Methods used to control the measurements # ############################################ def _interrupt_handler(self, signal, frame): """ A proper handler for signal.SIGINT (a.k.a. KeyboardInterrupt). Used to avoid affecting any other code, e.g. instruments drivers, and be able safely stop the MC after an iteration finishes. """ self._thread_data.events_num += 1 if self._thread_data.events_num >= 5: raise KeyboardInterrupt print( f"\n\n[!!!] {self._thread_data.events_num} interruption(s) signaled. " "Stopping after this iteration/batch.\n" f"[Send {5 - self._thread_data.events_num} more interruptions to force" f"stop (not safe!)].\n" ) def _check_interrupt(self): """ Verifies if the user has signaled the interruption of the experiment. Intended to be used after each iteration or after each batch of data. """ if self._thread_data.events_num >= 1: # It is safe to raise the KeyboardInterrupt here because we are guaranteed # To be running MC code. The exception can be handled in a try-except raise KeyboardInterrupt("Measurement interrupted") def _update(self, print_message: str = None): """ Do any updates to/from external systems, such as saving, plotting, etc. """ update = ( time.time() - self._last_upd > self.update_interval() or self._nr_acquired_values == self._get_max_setpoints() ) if update: self.print_progress(print_message) if self._save_data: self._safe_write_dataset() self._last_upd = time.time() def _prepare_gettables(self) -> None: """ Call prepare() on the Gettable, if prepare() exists """ for getpar in self._gettable_pars: call_if_has_method(getpar, "prepare") def _prepare_settables(self) -> None: """ Call prepare() on all Settable, if prepare() exists """ for setpar in self._settable_pars: call_if_has_method(setpar, "prepare") def _finish(self) -> None: """ Call finish() on all Settables and Gettables, if finish() exists """ for par in self._gettable_pars + self._settable_pars: call_if_has_method(par, "finish") def _get_batched_mask(self): return tuple(is_batched(spar) for spar in self._settable_pars) def _get_where_batched(self): # Indices to select correct entries in results data return np.where(self._get_batched_mask())[0] def _get_where_iterative(self): return np.where(tuple(not m for m in self._get_batched_mask()))[0] def _get_iterative_settables(self): return tuple(spar for spar in self._settable_pars if not is_batched(spar)) def _get_batched_settables(self): return tuple(spar for spar in self._settable_pars if is_batched(spar)) def _get_batch_size(self): # np.inf is not supported by the JSON schema, but we keep the code robust min_with_inf = min( getattr(par, "batch_size", np.inf) for par in chain.from_iterable((self._settable_pars, self._gettable_pars)) ) return min(min_with_inf, len(self._setpoints[0])) def _get_is_batched(self) -> bool: if any( is_batched(gpar) for gpar in chain(self._gettable_pars, self._settable_pars) ): if not all(is_batched(gpar) for gpar in self._gettable_pars): raise RuntimeError( "Control mismatch; all Gettables must have batched Control Mode, " "i.e. all gettables must have `.batched=True`." ) if not any(is_batched(spar) for spar in self._settable_pars): raise RuntimeError( "Control mismatch; At least one settable must have " "`settable.batched=True`, if the gettables are batched." ) return True return False def _get_max_setpoints(self) -> int: """ The total number of setpoints to examine """ try: return len(self._setpoints[0]) * self._soft_avg except IndexError: return 0 def _curr_setpoint_idx(self) -> int: """ Current position through the sweep Returns ------- int setpoint_idx """ acquired = self._nr_acquired_values setpoint_idx = acquired % len(self._setpoints[0]) self._loop_count = acquired // len(self._setpoints[0]) return setpoint_idx def _get_fracdone(self) -> float: """ Returns the fraction of the experiment that is completed. """ return self._nr_acquired_values / self._get_max_setpoints()
[docs] def print_progress(self, progress_message: str = None): """ Prints the provided `progress_messages` or displays tqdm progress bar; and calls the callback specified by `on_progress_callback`. NB: if called with no progress message (progress bar is used), `self.pbar` attribute should be closed and removed. Printing and progress bar display can be suppressed with `.verbose(False)`. """ # There are no points initialized, progress does not make sense if self._get_max_setpoints() == 0: raise ValueError("No setpoints available, progress cannot be defined") # by checking if `progress_message` is None we make sure we change print behavior for adaptive run if self.verbose() and not hasattr(self, "pbar") and progress_message is None: # when you use `unit` instead of `postfix` it removes unintended comma # see https://github.com/tqdm/tqdm/issues/712 custom_bar_format = "{l_bar}{bar} [ elapsed time: {elapsed} | time left: {remaining} ] {unit}" self.pbar = tqdm(total=100, desc="Completed", bar_format=custom_bar_format) progress_percent = self._get_fracdone() * 100 if self.verbose() and progress_message is None: progress_diff = math.floor(progress_percent) - self.pbar.n if self._batch_size_last is not None: self.pbar.unit = " last batch size: %s" % self._batch_size_last else: # if no unit attribute provided `custom_bar_format` breaks with extra `it` output self.pbar.unit = "" self.pbar.update(progress_diff) if ( self.verbose() and hasattr(self, "pbar") and math.floor(progress_percent) >= 100 ): self.pbar.close() del self.pbar if self.on_progress_callback() is not None: self.on_progress_callback()(progress_percent) if self.verbose() and progress_message is not None: print(progress_message, end="")
def _safe_write_dataset(self): """ Uses a lock when writing the file to stay safe for multiprocessing. Locking files are written into a temporary dir to avoid polluting the experiment container. """ # Multiprocess safe lockfile = ( _DATASET_LOCKS_DIR / f"{self._dataset.attrs['tuid']}-{DATASET_NAME}.lock" ) with FileLock(lockfile, 5): self._experiment.write_dataset(self._dataset) #################################### # Non-parameter get/set functions # ####################################
[docs] def settables(self, settable_pars): """ Define the settable parameters for the acquisition loop. The :class:`.Settable` helper class defines the requirements for a Settable object. Parameters --------- settable_pars parameter(s) to be set during the acquisition loop, accepts a list or tuple of multiple Settable objects or a single Settable object. """ # for native nD compatibility we treat this like a list of settables. if not isinstance(settable_pars, (list, tuple)): settable_pars = [settable_pars] self._settable_pars = [] for settable in settable_pars: self._settable_pars.append(Settable(settable))
[docs] def setpoints(self, setpoints: np.ndarray): """ Set setpoints that determine values to be set in acquisition loop. .. tip:: Use :func:`~numpy.column_stack` to reshape multiple 1D arrays when setting multiple settables. Parameters ---------- setpoints : An array that defines the values to loop over in the experiment. The shape of the array has to be either (N,) or (N,1) for a 1D loop; or (N, M) in the case of an MD loop. """ if len(np.shape(setpoints)) == 1: setpoints = setpoints.reshape((len(setpoints), 1)) elif len(np.shape(setpoints)) == 2: # used in plotmon to detect need for interpolation in 2d plot is_uniform = all( _is_uniformly_spaced_array(setpoints_i) for setpoints_i in setpoints.T ) self._plot_info["1d_2_settables_uniformly_spaced"] = is_uniform # UI is to provide an (N, M) array, but internally we store an (M, N) array self._setpoints = setpoints.T # `.setpoints()` and `.setpoints_grid()` cannot be used at the same time self._setpoints_input = None
[docs] def setpoints_grid(self, setpoints: Iterable[np.ndarray]): """ Makes a grid from the provided `setpoints` assuming each array element corresponds to an orthogonal dimension. The resulting gridded points determine values to be set in the acquisition loop. The gridding is such that the inner most loop corresponds to the batched settable with the smallest `.batch_size`. .. seealso:: :ref:`Measurement Control How-To <howto-measurement-control>` Parameters ---------- setpoints The values to loop over in the experiment. The grid is reshaped in the same order. """ self._setpoints = None # assigned later in the `._init()` self._setpoints_input = setpoints if len(setpoints) == 2: self._plot_info["xlen"] = len(setpoints[0]) self._plot_info["ylen"] = len(setpoints[1]) self._plot_info["grid_2d"] = True is_uniform = all( # used in plotmon to detect need for interpolation _is_uniformly_spaced_array(setpoints[i]) for i in (0, 1) ) self._plot_info["grid_2d_uniformly_spaced"] = is_uniform
[docs] def gettables(self, gettable_pars): """ Define the parameters to be acquired during the acquisition loop. The :class:`.Gettable` helper class defines the requirements for a Gettable object. Parameters ---------- gettable_pars parameter(s) to be get during the acquisition loop, accepts: - list or tuple of multiple Gettable objects - a single Gettable object """ if not isinstance(gettable_pars, (list, tuple)): gettable_pars = [gettable_pars] self._gettable_pars = [] for gpar in gettable_pars: self._gettable_pars.append(Gettable(gpar))
[docs] def measurement_description(self) -> Dict[str, Any]: """Return a serializable description of the latest measurement Users can add additional information to the description manually. Returns ------- : Dictionary with description of the measurement """ experiment_description = { "name": self._dataset.attrs["name"], "settables": [str(s) for s in self._settable_pars], } experiment_description["gettables"] = [str(s) for s in self._gettable_pars] experiment_description["setpoints_shape"] = self._setpoints.shape experiment_description["soft_avg"] = self._soft_avg experiment_description["acquired_dataset"] = {"tuid": self._dataset.tuid} return experiment_description
[docs] def grid_setpoints( setpoints: Sequence[Sequence], settables: Iterable | None = None, ) -> list[np.ndarray]: """ Make gridded setpoints. If ``settables`` is provided, the gridding is such that the inner most loop corresponds to the batched settable with the smallest ``.batch_size``. Parameters ---------- setpoints A list of arrays that defines the values to loop over in the experiment for each orthogonal dimension. The grid is reshaped in the same order. settables A list of settable objects to which the elements in the `setpoints` correspond to. Used to correctly grid data when mixing batched and iterative settables. Returns ------- list[np.ndarray] A 2D array where the first axis corresponds to the settables, and the second axis to individual setpoints. """ if settables is None: settables = [None] * len(setpoints) coordinates_batched = [i for i, spar in enumerate(settables) if is_batched(spar)] coordinates_iterative = [ i for i, spar in enumerate(settables) if not is_batched(spar) ][::-1] stack_order = coordinates_iterative if len(coordinates_batched): batch_sizes = [ getattr(spar, "batch_size", np.inf) for spar in settables if is_batched(spar) ] inner_coord = coordinates_batched[np.argmin(batch_sizes)] coordinates_batched.remove(inner_coord) # The inner most coordinate must correspond to the batched settable with # min `.batch_size` stack_order += coordinates_batched[::-1] + [inner_coord] order_of_order = np.argsort(stack_order) stacked_dset = _cartesian_product_transposed(*(setpoints[i] for i in stack_order)) stacked_dset = [stacked_dset[i] for i in order_of_order] return stacked_dset
class _SupportsMul(Protocol): """A type that supports multiplication (*).""" def __mul__(self, other): ... def __rmul__(self, other): ... T = TypeVar("T", bound=_SupportsMul) def _prod(iter_: Iterable[T]) -> T: return reduce(lambda x, y: x * y, iter_) def _cartesian_product_transposed(*setpoints: Sequence) -> list[np.ndarray]: lengths = [len(arr) for arr in setpoints] out = [] for i, arr in enumerate(setpoints): row = np.array(arr) if i < len(setpoints) - 1: row = np.repeat(row, _prod(lengths[i + 1 :])) if i > 0: row = np.tile(row, _prod(lengths[:i])) out.append(row) return out