asgardpy.data.target

Complexity

Total Complexity

45

Size/Duplication

Total Lines	564
Duplicated Lines	0 %

Importance

Changes

0

2 Methods

Rating	Name	Duplication	Size	Complexity
A	ExpCutoffLogParabolaSpectralModel.evaluate()	0	8	1
A	BrokenPowerLaw2SpectralModel.evaluate()	0	12	1

"""
Classes containing the Target config parameters for the high-level interface and
also the functions involving Models generation and assignment to datasets.
"""

from enum import Enum
from typing import List

import astropy.units as u
import numpy as np
from gammapy.modeling import Parameter
from gammapy.modeling.models import (
    SPATIAL_MODEL_REGISTRY,
    SPECTRAL_MODEL_REGISTRY,
    DatasetModels,
    EBLAbsorptionNormSpectralModel,
    FoVBackgroundModel,
    Models,
    SkyModel,
    SpectralModel,
)

from asgardpy.base.base import AngleType, BaseConfig, FrameEnum, PathType
from asgardpy.base.geom import SkyPositionConfig

__all__ = [
    "BrokenPowerLaw2SpectralModel",
    "EBLAbsorptionModel",
    "ExpCutoffLogParabolaSpectralModel",
    "ModelTypeEnum",
    "RoISelectionConfig",
    "SpatialModelConfig",
    "SpectralModelConfig",
    "Target",
    "apply_selection_mask_to_models",
    "config_to_dict",
    "read_models_from_asgardpy_config",
    "set_models",
]


# Basic components to define the Target Config and any Models Config
class ModelTypeEnum(str, Enum):
    """
    Config section for Different Gammapy Model type.
    """

    skymodel = "SkyModel"
    fovbkgmodel = "FoVBackgroundModel"


class EBLAbsorptionModel(BaseConfig):
    """
    Config section for parameters to use for EBLAbsorptionNormSpectralModel.
    """

    filename: PathType = PathType("None")
    reference: str = ""
    type: str = "EBLAbsorptionNormSpectralModel"
    redshift: float = 0.0
    alpha_norm: float = 1.0


class ModelParams(BaseConfig):
    """Config section for parameters to use for a basic Parameter object."""

    name: str = ""
    value: float = 1
    unit: str = " "
    error: float = 0.1
    min: float = 0.1
    max: float = 10
    frozen: bool = True


class SpectralModelConfig(BaseConfig):
    """
    Config section for parameters to use for creating a SpectralModel object.
    """

    type: str = ""
    parameters: List[ModelParams] = [ModelParams()]
    ebl_abs: EBLAbsorptionModel = EBLAbsorptionModel()


class SpatialModelConfig(BaseConfig):
    """
    Config section for parameters to use for creating a SpatialModel object.
    """

    type: str = ""
    frame: FrameEnum = FrameEnum.icrs
    parameters: List[ModelParams] = [ModelParams()]


class ModelComponent(BaseConfig):
    """Config section for parameters to use for creating a SkyModel object."""

    name: str = ""
    type: ModelTypeEnum = ModelTypeEnum.skymodel
    datasets_names: List[str] = [""]
    spectral: SpectralModelConfig = SpectralModelConfig()
    spatial: SpatialModelConfig = SpatialModelConfig()


class RoISelectionConfig(BaseConfig):
    """
    Config section for parameters to perform some selection on FoV source
    models.
    """

    roi_radius: AngleType = 0 * u.deg
    free_sources: List[str] = []


class CatalogConfig(BaseConfig):
    """Config section for parameters to use information from Catalog."""

    name: str = ""
    selection_radius: AngleType = 0 * u.deg
    exclusion_radius: AngleType = 0 * u.deg


class Target(BaseConfig):
    """Config section for main information on creating various Models."""

    source_name: str = ""
    sky_position: SkyPositionConfig = SkyPositionConfig()
    use_uniform_position: bool = True
    models_file: PathType = PathType("None")
    datasets_with_fov_bkg_model: List[str] = []
    use_catalog: CatalogConfig = CatalogConfig()
    components: List[ModelComponent] = [ModelComponent()]
    covariance: str = ""
    from_3d: bool = False
    roi_selection: RoISelectionConfig = RoISelectionConfig()


class ExpCutoffLogParabolaSpectralModel(SpectralModel):
    r"""Spectral Exponential Cutoff Log Parabola model.

    Using a simple template from Gammapy.

    .. math::
        \phi(E) = \phi_0 \left( \frac{E}{E_0} \right) ^ {
          - \alpha_1 - \beta \log{ \left( \frac{E}{E_0} \right) }} \cdot
          \exp(- {(\lambda E})^{\alpha_2})

    Parameters
    ----------
    amplitude : `~astropy.units.Quantity`
        :math:`\phi_0`
    reference : `~astropy.units.Quantity`
        :math:`E_0`
    alpha_1 : `~astropy.units.Quantity`
        :math:`\alpha_1`
    beta : `~astropy.units.Quantity`
        :math:`\beta`
    lambda_ : `~astropy.units.Quantity`
        :math:`\lambda`
    alpha_2 : `~astropy.units.Quantity`
        :math:`\alpha_2`
    """

    tag = ["ExpCutoffLogParabolaSpectralModel", "ECLP"]

    amplitude = Parameter(
        "amplitude",
        "1e-12 cm-2 s-1 TeV-1",
        scale_method="scale10",
        interp="log",
        is_norm=True,
    )
    reference = Parameter("reference", "1 TeV", frozen=True)
    alpha_1 = Parameter("alpha_1", -2)
    alpha_2 = Parameter("alpha_2", 1, frozen=True)
    beta = Parameter("beta", 1)
    lambda_ = Parameter("lambda_", "0.1 TeV-1")

    @staticmethod
    def evaluate(energy, amplitude, reference, alpha_1, beta, lambda_, alpha_2):
        """Evaluate the model (static function)."""
        en_ref = energy / reference
        exponent = -alpha_1 - beta * np.log(en_ref)
        cutoff = np.exp(-np.power(energy * lambda_, alpha_2))

        return amplitude * np.power(en_ref, exponent) * cutoff


class BrokenPowerLaw2SpectralModel(SpectralModel):
    r"""Spectral broken power-law 2 model.

    In this slightly modified Broken Power Law, instead of having the second index
    as a distinct parameter, the difference in the spectral indices around the
    Break Energy is used, to try for some assumptions on the different physical
    processes that define the full spectrum, where the second process is dependent
    on the first process.

    For more information see :ref:`broken-powerlaw-spectral-model`.

    .. math::
        \phi(E) = \phi_0 \cdot \begin{cases}
                \left( \frac{E}{E_{break}} \right)^{-\Gamma_1} & \text{if } E < E_{break} \\
                \left( \frac{E}{E_{break}} \right)^{-(\Gamma_1 + \Delta\Gamma)} & \text{otherwise}
            \end{cases}

    Parameters
    ----------
    index1 : `~astropy.units.Quantity`
        :math:`\Gamma_1`
    index_diff : `~astropy.units.Quantity`
        :math:`\Delta\Gamma`
    amplitude : `~astropy.units.Quantity`
        :math:`\phi_0`
    ebreak : `~astropy.units.Quantity`
        :math:`E_{break}`

    See Also
    --------
    SmoothBrokenPowerLawSpectralModel
    """

    tag = ["BrokenPowerLaw2SpectralModel", "bpl2"]
    index1 = Parameter("index1", 2.0)
    index_diff = Parameter("index_diff", 1.0)
    amplitude = Parameter(
        name="amplitude",
        value="1e-12 cm-2 s-1 TeV-1",
        scale_method="scale10",
        interp="log",
        is_norm=True,
    )
    ebreak = Parameter("ebreak", "1 TeV")

    @staticmethod
    def evaluate(energy, index1, index_diff, amplitude, ebreak):
        """Evaluate the model (static function)."""
        energy = np.atleast_1d(energy)
        cond = energy < ebreak
        bpwl2 = amplitude * np.ones(energy.shape)

        index2 = index1 + index_diff
        bpwl2[cond] *= (energy[cond] / ebreak) ** (-index1)
        bpwl2[~cond] *= (energy[~cond] / ebreak) ** (-index2)

        return bpwl2


SPECTRAL_MODEL_REGISTRY.append(ExpCutoffLogParabolaSpectralModel)
SPECTRAL_MODEL_REGISTRY.append(BrokenPowerLaw2SpectralModel)


# Function for Models assignment
def set_models(
    config_target,
    datasets,
    datasets_name_list=None,
    models=None,
):
    """
    Set models on given Datasets.

    Parameters
    ----------
    config_target: `AsgardpyConfig.target`
        AsgardpyConfig containing target information.
    datasets: `gammapy.datasets.Datasets`
        Datasets object
    dataset_name_list: List
        List of datasets_names to be used on the Models, before assigning them
        to the given datasets.
    models : `~gammapy.modeling.models.Models` or str of file location or None
        Models object or YAML models string

    Returns
    -------
    datasets: `gammapy.datasets.Datasets`
        Datasets object with Models assigned.
    """
    # Have some checks on argument types
    if isinstance(models, (DatasetModels, list)):
        models = Models(models)
    elif isinstance(models, PathType):
        models = Models.read(models)
    elif models is None:
        models = Models(models)
    else:
        raise TypeError(f"Invalid type: {type(models)}")

    if len(models) == 0:
        if config_target.components[0].name != "":
            models = read_models_from_asgardpy_config(config_target)
        else:
            raise Exception("No input for Models provided for the Target source!")
    else:
        models = apply_selection_mask_to_models(
            list_sources=models,
            target_source=config_target.source_name,
            roi_radius=config_target.roi_selection.roi_radius,
            free_sources=config_target.roi_selection.free_sources,
        )

    if len(config_target.datasets_with_fov_bkg_model) > 0:
        # For extending a Background Model for a given 3D dataset name
        bkg_models = []

        for dataset in datasets:
            if dataset.name in config_target.datasets_with_fov_bkg_model:
                # Check if it is of MapDataset or MapDatasetOnOff type and
                # no associated background model exists already.
                if "MapDataset" in dataset.tag and dataset.background_model is None:
                    bkg_models.append(FoVBackgroundModel(dataset_name=f"{dataset.name}-bkg"))

        models.extend(bkg_models)

    if datasets_name_list is None:
        datasets_name_list = datasets.names

    if len(models) > 1:
        models[config_target.source_name].datasets_names = datasets_name_list

        # Check if FoVBackgroundModel is provided
        bkg_model_name = [m_name for m_name in models.names if "bkg" in m_name]

        if len(bkg_model_name) > 0:
            # Remove the -bkg part of the name of the FoVBackgroundModel to get
            # the appropriate datasets name.
            for bkg_name in bkg_model_name:
                models[bkg_name].datasets_names = [bkg_name[:-4]]
    else:
        models.datasets_names = datasets_name_list

    datasets.models = models

    return datasets, models


def apply_selection_mask_to_models(
    list_sources, target_source=None, selection_mask=None, roi_radius=0 * u.deg, free_sources=[]
):
    """
    For a given list of source models, with a given target source, apply various
    selection masks on the Region of Interest in the sky. This will lead to
    complete exclusion of models or freezing some or all spectral parameters.
    These selections excludes the diffuse background models in the given list.

    First priority is given if a distinct selection mask is provided, with a
    list of excluded regions to return only the source models within the selected
    ROI.

    Second priority is on creating a Circular ROI as per the given radius, and
    freeze all the spectral parameters of the models of the sources.

    Third priority is when a list of free_sources is provided, then the
    spectral amplitude of models of those sources, if present in the given list
    of models, will be unfrozen, and hence, allowed to be variable for fitting.

    Parameters
    ----------
    list_sources: '~gammapy.modeling.models.Models'
        Models object containing a list of source models.
    target_source: 'str'
        Name of the target source, whose position is used as the center of ROI.
    selection_mask: 'WcsNDMap'
        Map containing a boolean mask to apply to Models object.
    roi_radius: 'astropy.units.Quantity' or 'asgardpy.data.base.AngleType'
        Radius for a circular region around ROI (deg)
    free_sources: 'list'
        List of source names for which the spectral amplitude is to be kept free.

    Returns
    -------
    list_sources: '~gammapy.modeling.models.Models'
        Selected Models object.
    """
    list_sources_excluded = []
    list_diffuse = []

    # Separate the list of sources and diffuse background
    for model_ in list_sources:
        if "diffuse" in model_.name or "bkg" in model_.name:
            list_diffuse.append(model_)
        else:
            list_sources_excluded.append(model_)

    list_sources_excluded = Models(list_sources_excluded)

    # Get the target source position as the center of RoI
    if not target_source:
        target_source = list_sources_excluded[0].name
        target_source_pos = target_source.spatial_model.position
    else:
        target_source_pos = list_sources_excluded[target_source].spatial_model.position

    # If a distinct selection mask is provided
    if selection_mask:
        list_sources_excluded = list_sources_excluded.select_mask(selection_mask)

    # If RoI radius is provided and is not default
    if roi_radius.to_value("deg") != 0:
        for model_ in list_sources_excluded:
            model_pos = model_.spatial_model.position
            separation = target_source_pos.separation(model_pos).deg
            if separation >= roi_radius.deg:
                model_.spectral_model.freeze()
    else:
        # For a given list of non free sources, unfreeze the spectral amplitude
        if len(free_sources) > 0:
            for model_ in list_sources_excluded:
                # Freeze all spectral parameters for other models
                if model_.name != target_source:
                    model_.spectral_model.freeze()
                # and now unfreeze the amplitude of selected models
                if model_.name in free_sources:
                    model_.spectral_model.parameters["amplitude"].frozen = False

    # Add the diffuse background models back
    for diff_ in list_diffuse:
        list_sources_excluded.append(diff_)

    # Re-assign to the main variable
    list_sources = list_sources_excluded

    return list_sources


# Functions for Models generation
def read_models_from_asgardpy_config(config):
    """
    Reading Models information from AsgardpyConfig and return Models object.
    If a FoVBackgroundModel information is provided, it will also be added.

    Parameter
    ---------
    config: `AsgardpyConfig`
        Config section containing Target source information

    Returns
    -------
    models: `gammapy.modeling.models.Models`
        Full gammapy Models object.
    """
    models = Models()

    for model_config in config.components:
        if model_config.type == "SkyModel":
            # Spectral Model
            if model_config.spectral.ebl_abs.reference != "":
                model1 = SPECTRAL_MODEL_REGISTRY.get_cls(model_config.spectral.type)().from_dict(
                    {"spectral": config_to_dict(model_config.spectral)}
                )

                ebl_model = model_config.spectral.ebl_abs

                # First check for filename of a custom EBL model
                if ebl_model.filename.is_file():
                    model2 = EBLAbsorptionNormSpectralModel.read(
                        str(ebl_model.filename), redshift=ebl_model.redshift
                    )
                    # Update the reference name when using the custom EBL model for logging
                    ebl_model.reference = ebl_model.filename.name[:-8].replace("-", "_")
                else:
                    model2 = EBLAbsorptionNormSpectralModel.read_builtin(
                        ebl_model.reference, redshift=ebl_model.redshift
                    )
                if ebl_model.alpha_norm:
                    model2.alpha_norm.value = ebl_model.alpha_norm
                spectral_model = model1 * model2
            else:
                if model_config.spectral.type == "ExpCutoffLogParabolaSpectralModel":
                    spectral_model = ExpCutoffLogParabolaSpectralModel().from_dict(
                        {"spectral": config_to_dict(model_config.spectral)}
                    )
                elif model_config.spectral.type == "BrokenPowerLaw2SpectralModel":
                    spectral_model = BrokenPowerLaw2SpectralModel().from_dict(
                        {"spectral": config_to_dict(model_config.spectral)}
                    )
                else:
                    spectral_model = SPECTRAL_MODEL_REGISTRY.get_cls(model_config.spectral.type)().from_dict(
                        {"spectral": config_to_dict(model_config.spectral)}
                    )
            spectral_model.name = config.source_name

            # Spatial model if provided
            if model_config.spatial.type != "":
                spatial_model = SPATIAL_MODEL_REGISTRY.get_cls(model_config.spatial.type)().from_dict(
                    {"spatial": config_to_dict(model_config.spatial)}
                )
            else:
                spatial_model = None

            models.append(
                SkyModel(
                    spectral_model=spectral_model,
                    spatial_model=spatial_model,
                    name=config.source_name,
                )
            )

        # FoVBackgroundModel is the second component
        if model_config.type == "FoVBackgroundModel":
            # Spectral Model. At least this has to be provided for distinct
            # parameter values
            spectral_model_fov = SPECTRAL_MODEL_REGISTRY.get_cls(model_config.spectral.type)().from_dict(
                {"spectral": config_to_dict(model_config.spectral)}
            )

            # Spatial model if provided
            if model_config.spatial.type != "":
                spatial_model_fov = SPATIAL_MODEL_REGISTRY.get_cls(model_config.spatial.type)().from_dict(
                    {"spatial": config_to_dict(model_config.spatial)}
                )
            else:
                spatial_model_fov = None

            models.append(
                FoVBackgroundModel(
                    spectral_model=spectral_model_fov,
                    spatial_model=spatial_model_fov,
                    dataset_name=model_config.datasets_names[0],
                )
            )

    return models


def config_to_dict(model_config):
    """
    Convert the Spectral/Spatial models into dict.
    Probably an extra step and maybe removed later.

    Parameter
    ---------
    model_config: `AsgardpyConfig`
        Config section containing Target Model SkyModel components only.

    Returns
    -------
    model_dict: dict
        dictionary of the particular model.
    """
    model_dict = {}
    model_dict["type"] = str(model_config.type)
    model_dict["parameters"] = []

    for par in model_config.parameters:
        par_dict = {}
        par_dict["name"] = par.name
        par_dict["value"] = par.value
        par_dict["unit"] = par.unit
        par_dict["error"] = par.error
        par_dict["min"] = par.min
        par_dict["max"] = par.max
        par_dict["frozen"] = par.frozen
        model_dict["parameters"].append(par_dict)

    # For spatial model, include frame info
    try:
        getattr(model_dict, "frame")
    except AttributeError:
        pass

    return model_dict