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#
# This file is part of the PyMeasure package.
#
# Copyright (c) 2013-2024 PyMeasure Developers
#
# Permission is hereby granted, free of charge, to any person obtaining a copy
# of this software and associated documentation files (the "Software"), to deal
# in the Software without restriction, including without limitation the rights
# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
# copies of the Software, and to permit persons to whom the Software is
# furnished to do so, subject to the following conditions:
#
# The above copyright notice and this permission notice shall be included in
# all copies or substantial portions of the Software.
#
# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
# THE SOFTWARE.
#
import logging
import sys
import inspect
from copy import deepcopy
from importlib.machinery import SourceFileLoader
import re
from pint import UndefinedUnitError
from .parameters import Parameter, Measurable, Metadata
from pymeasure.units import ureg
log = logging.getLogger()
log.addHandler(logging.NullHandler())
class Procedure:
"""Provides the base class of a procedure to organize the experiment
execution. Procedures should be run by Workers to ensure that
asynchronous execution is properly managed.
.. code-block:: python
procedure = Procedure()
results = Results(procedure, data_filename)
worker = Worker(results, port)
worker.start()
Inheriting classes should define the startup, execute, and shutdown
methods as needed. The shutdown method is called even with a
software exception or abort event during the execute method.
If keyword arguments are provided, they are added to the object as
attributes.
"""
DATA_COLUMNS = []
MEASURE = {}
FINISHED, FAILED, ABORTED, QUEUED, RUNNING = 0, 1, 2, 3, 4
STATUS_STRINGS = {
FINISHED: 'Finished', FAILED: 'Failed',
ABORTED: 'Aborted', QUEUED: 'Queued',
RUNNING: 'Running'
}
_parameters = {}
def __init__(self, **kwargs):
self.status = Procedure.QUEUED
self._update_parameters()
self._update_metadata()
for key in kwargs:
if key in self._parameters.keys():
setattr(self, key, kwargs[key])
log.info(f'Setting parameter {key} to {kwargs[key]}')
self.gen_measurement()
@staticmethod
def parse_columns(columns):
"""Get columns with any units in parentheses.
For each column, if there are matching parentheses containing text
with no spaces, parse the value between the parentheses as a Pint unit. For example,
"Source Voltage (V)" will be parsed and matched to :code:`Unit('volt')`.
Raises an error if a parsed value is undefined in Pint unit registry.
Return a dictionary of matched columns with their units.
:param columns: List of columns to be parsed.
:type record: dict
:return: Dictionary of columns with Pint units.
"""
units_pattern = r"\((?P<units>[\w/\(\)\*\t]+)\)"
units = {}
for column in columns:
match = re.search(units_pattern, column)
if match:
try:
units[column] = ureg.Quantity(match.groupdict()['units']).units
except UndefinedUnitError:
raise ValueError(
f"Column \"{column}\" with unit \"{match.groupdict()['units']}\""
" is not defined in Pint registry. Check procedure "
"DATA_COLUMNS contains valid Pint units.")
return units
def gen_measurement(self):
"""Create MEASURE and DATA_COLUMNS variables for get_datapoint method."""
# TODO: Refactor measurable-s implementation to be consistent with parameters
self.MEASURE = {}
for item, parameter in inspect.getmembers(self.__class__):
if isinstance(parameter, Measurable):
if parameter.measure:
self.MEASURE.update({parameter.name: item})
if not self.DATA_COLUMNS:
self.DATA_COLUMNS = Measurable.DATA_COLUMNS
# Validate DATA_COLUMNS fit pymeasure column header format
self.parse_columns(self.DATA_COLUMNS)
def get_datapoint(self):
data = {key: getattr(self, self.MEASURE[key]).value for key in self.MEASURE}
return data
def measure(self):
data = self.get_datapoint()
log.debug("Produced numbers: %s" % data)
self.emit('results', data)
def _update_parameters(self):
""" Collects all the Parameter objects for the procedure and stores
them in a meta dictionary so that the actual values can be set in
their stead
"""
if not self._parameters:
self._parameters = {}
for item, parameter in inspect.getmembers(self.__class__):
if isinstance(parameter, Parameter):
self._parameters[item] = deepcopy(parameter)
if parameter.is_set():
setattr(self, item, parameter.value)
else:
setattr(self, item, None)
def parameters_are_set(self):
""" Returns True if all parameters are set """
for name, parameter in self._parameters.items():
if getattr(self, name) is None:
return False
return True
def check_parameters(self):
""" Raises an exception if any parameter is missing before calling
the associated function. Ensures that each value can be set and
got, which should cast it into the right format. Used as a decorator
@check_parameters on the startup method
"""
for name, parameter in self._parameters.items():
value = getattr(self, name)
if value is None:
raise NameError("Missing {} '{}' in {}".format(
parameter.__class__, name, self.__class__))
def parameter_values(self):
""" Returns a dictionary of all the Parameter values and grabs any
current values that are not in the default definitions
"""
result = {}
for name, parameter in self._parameters.items():
value = getattr(self, name)
if value is not None:
parameter.value = value
setattr(self, name, parameter.value)
result[name] = parameter.value
else:
result[name] = None
return result
def parameter_objects(self):
""" Returns a dictionary of all the Parameter objects and grabs any
current values that are not in the default definitions
"""
result = {}
for name, parameter in self._parameters.items():
value = getattr(self, name)
if value is not None:
parameter.value = value
setattr(self, name, parameter.value)
result[name] = parameter
return result
def refresh_parameters(self):
""" Enforces that all the parameters are re-cast and updated in the meta
dictionary
"""
for name, parameter in self._parameters.items():
value = getattr(self, name)
parameter.value = value
setattr(self, name, parameter.value)
def set_parameters(self, parameters, except_missing=True):
""" Sets a dictionary of parameters and raises an exception if additional
parameters are present if except_missing is True
"""
for name, value in parameters.items():
if name in self._parameters:
self._parameters[name].value = value
setattr(self, name, self._parameters[name].value)
else:
if except_missing:
raise NameError("Parameter '{}' does not belong to '{}'".format(
name, repr(self)))
def _update_metadata(self):
""" Collects all the Metadata objects for the procedure and stores
them in a meta dictionary so that the actual values can be set and used
in their stead
"""
self._metadata = {}
for item, metadata in inspect.getmembers(self.__class__):
if isinstance(metadata, Metadata):
self._metadata[item] = deepcopy(metadata)
if metadata.is_set():
setattr(self, item, metadata.value)
else:
setattr(self, item, None)
def evaluate_metadata(self):
""" Evaluates all Metadata objects, fixing their values to the current value
"""
for item, metadata in self._metadata.items():
# Evaluate the metadata, fixing its value
value = metadata.evaluate(parent=self, new_value=getattr(self, item))
# Make the value of the metadata easily accessible
setattr(self, item, value)
def metadata_objects(self):
""" Returns a dictionary of all the Metadata objects
"""
return self._metadata
def placeholder_objects(self):
""" Collect all eligible placeholders (parameters & metadata) with their value in a dict.
"""
return {**self.parameter_objects(), **self.metadata_objects()}
@classmethod
def placeholder_names(cls):
""" Collect the names of all eligible placeholders (parameters & metadata)"""
placeholders = []
for _, item in inspect.getmembers(cls):
if isinstance(item, Metadata) or isinstance(item, Parameter):
placeholders.append(item.name)
return list(set(placeholders))
def startup(self):
""" Executes the commands needed at the start-up of the measurement
"""
pass
def execute(self):
""" Preforms the commands needed for the measurement itself. During
execution the shutdown method will always be run following this method.
This includes when Exceptions are raised.
"""
pass
def shutdown(self):
""" Executes the commands necessary to shut down the instruments
and leave them in a safe state. This method is always run at the end.
"""
pass
def emit(self, topic, record):
raise NotImplementedError('should be monkey patched by a worker')
def should_stop(self):
raise NotImplementedError('should be monkey patched by a worker')
def get_estimates(self):
""" Function that returns estimates that are to be displayed by
the EstimatorWidget. Must be reimplemented by subclasses. Should
return an int or float representing the duration in seconds, or
a list with a tuple for each estimate. The tuple should consists
of two strings: the first will be used as the label of the
estimate, the second as the displayed estimate.
"""
raise NotImplementedError('Must be reimplemented by subclasses')
def __str__(self):
result = repr(self) + "\n"
for parameter in self._parameters.items():
result += str(parameter)
return result
def __repr__(self):
return "<{}(status={},parameters_are_set={})>".format(
self.__class__.__name__, self.STATUS_STRINGS[self.status],
self.parameters_are_set()
)
class UnknownProcedure(Procedure):
""" Handles the case when a :class:`.Procedure` object can not be imported
during loading in the :class:`.Results` class
"""
def __init__(self, parameters):
super().__init__()
self._parameters = parameters
def startup(self):
raise NotImplementedError("UnknownProcedure can not be run")
class ProcedureWrapper:
def __init__(self, procedure):
self.procedure = procedure
def __getstate__(self):
# Get all information needed to reconstruct procedure
self._parameters = self.procedure.parameter_values()
self._class = self.procedure.__class__.__name__
module = sys.modules[self.procedure.__module__]
self._package = module.__package__
self._module = module.__name__
self._file = module.__file__
state = self.__dict__.copy()
del state['procedure']
return state
def __setstate__(self, state):
self.__dict__.update(state)
# Restore the procedure
module = SourceFileLoader(self._module, self._file).load_module()
cls = getattr(module, self._class)
self.procedure = cls()
self.procedure.set_parameters(self._parameters)
self.procedure.refresh_parameters()
del self._parameters
del self._class
del self._package
del self._module
del self._file
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