How to use the pypesto.objective.HistoryOptions function in pypesto

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github ICB-DCM / pyPESTO / test / test_history.py View on Github external
def test_trace_chi2_schi2(self):
        self.history_options = HistoryOptions(
            trace_record=True,
            trace_record_chi2=True,
            trace_record_schi2=True,
        )

        self.check_history()
github ICB-DCM / pyPESTO / test / test_history.py View on Github external
def test_trace_all(self):
        self.obj = rosen_for_sensi(
            max_sensi_order=2,
            integrated=True
        )['obj']

        self.history_options = HistoryOptions(
            trace_record=True,
            trace_record_grad=True,
            trace_record_hess=True,
            trace_record_res=True,
            trace_record_sres=True,
            trace_record_chi2=True,
            trace_record_schi2=True,
        )
        self.fix_pars = False
        self.check_history()
github ICB-DCM / pyPESTO / test / test_history.py View on Github external
def test_trace_grad_integrated(self):
        self.obj = rosen_for_sensi(
            max_sensi_order=2,
            integrated=True
        )['obj']

        self.history_options = HistoryOptions(
            trace_record=True,
            trace_record_grad=True,
            trace_record_hess=False,
        )

        self.check_history()
github ICB-DCM / pyPESTO / test / test_history.py View on Github external
def test_trace_grad(self):
        self.history_options = HistoryOptions(
            trace_record=True,
            trace_record_grad=True,
        )

        self.check_history()
github ICB-DCM / pyPESTO / test / test_history.py View on Github external
def test_trace_grad(self):
        self.obj = rosen_for_sensi(
            max_sensi_order=2,
            integrated=False
        )['obj']

        self.history_options = HistoryOptions(
            trace_record=True,
            trace_record_grad=True,
            trace_record_hess=False,
        )

        self.check_history()
github ICB-DCM / pyPESTO / test / test_history.py View on Github external
def test_trace_schi2(self):
        self.history_options = HistoryOptions(
            trace_record=True,
            trace_record_chi2=True,
            trace_record_schi2=False,
        )

        self.check_history()
github ICB-DCM / pyPESTO / test / test_history.py View on Github external
def test_trace_chi2(self):
        self.history_options = HistoryOptions(
            trace_record=True,
            trace_record_chi2=True,
            trace_record_schi2=False,
        )

        self.check_history()
github ICB-DCM / pyPESTO / pypesto / optimize / optimize.py View on Github external
# optimizer
    if optimizer is None:
        optimizer = ScipyOptimizer()

    # startpoint method
    if startpoint_method is None:
        startpoint_method = uniform

    # check options
    if options is None:
        options = OptimizeOptions()
    options = OptimizeOptions.assert_instance(options)

    if history_options is None:
        history_options = HistoryOptions()
    history_options = HistoryOptions.assert_instance(history_options)

    # assign startpoints
    startpoints = assign_startpoints(
        n_starts=n_starts, startpoint_method=startpoint_method,
        problem=problem, options=options)

    if ids is None:
        ids = [str(j) for j in range(n_starts)]
    if len(ids) != n_starts:
        raise AssertionError("Number of starts and ids must coincide.")

    # prepare result
    if result is None:
        result = Result(problem)

    # engine
github ICB-DCM / pyPESTO / pypesto / optimize / optimize.py View on Github external
# optimizer
    if optimizer is None:
        optimizer = ScipyOptimizer()

    # startpoint method
    if startpoint_method is None:
        startpoint_method = uniform

    # check options
    if options is None:
        options = OptimizeOptions()
    options = OptimizeOptions.assert_instance(options)

    if history_options is None:
        history_options = HistoryOptions()
    history_options = HistoryOptions.assert_instance(history_options)

    # assign startpoints
    startpoints = assign_startpoints(
        n_starts=n_starts, startpoint_method=startpoint_method,
        problem=problem, options=options)

    if ids is None:
        ids = [str(j) for j in range(n_starts)]
    if len(ids) != n_starts:
        raise AssertionError("Number of starts and ids must coincide.")

    # prepare result
    if result is None:
        result = Result(problem)
github ICB-DCM / pyPESTO / pypesto / optimize / optimizer.py View on Github external
def wrapped_minimize(self, problem, x0, id, allow_failed_starts,
                         history_options=None):
        objective = problem.objective

        # initialize the objective
        objective.initialize()

        # create optimizer history
        if history_options is None:
            history_options = HistoryOptions()
        history = history_options.create_history(
            id=id, x_names=[problem.x_names[ix]
                            for ix in problem.x_free_indices])
        optimizer_history = OptimizerHistory(history=history, x0=x0)

        # plug in history for the objective to record it
        objective.history = optimizer_history

        # perform the actual minimization
        try:
            result = minimize(self, problem, x0, id, history_options)
            objective.history.finalize()
            result.id = id
        except Exception as err:
            if allow_failed_starts:
                logger.error(f'start {id} failed: {err}')