climate-ref 0.6.5__py3-none-any.whl → 0.7.0__py3-none-any.whl

climate_ref/models/metric_value.py

@@ -2,12 +2,11 @@ import enum
 from collections.abc import Mapping
 from typing import TYPE_CHECKING, Any, ClassVar
 
-from loguru import logger
-from sqlalchemy import Column, ForeignKey, Text, event
+from sqlalchemy import ForeignKey, event
 from sqlalchemy.orm import Mapped, mapped_column, relationship
 
-from climate_ref.models.base import Base, CreatedUpdatedMixin
-from climate_ref_core.pycmec.controlled_vocabulary import CV, Dimension
+from climate_ref.models.base import Base
+from climate_ref.models.mixins import CreatedUpdatedMixin, DimensionMixin
 
 if TYPE_CHECKING:
     from climate_ref.models.execution import Execution
@@ -27,11 +26,14 @@ class MetricValueType(enum.Enum):
     SERIES = "series"
 
 
-class MetricValue(CreatedUpdatedMixin, Base):
+class MetricValue(DimensionMixin, CreatedUpdatedMixin, Base):
     """
     Represents a single metric value
 
-    This value has a number of dimensions which are used to query the diagnostic value.
+    This is a base class for different types of metric values (e.g. scalar, series) which
+    are stored in a single table using single table inheritance.
+
+    This value has a number of dimensions which are used to query the diagnostic values.
     These dimensions describe aspects such as the type of statistic being measured,
     the region of interest or the model from which the statistic is being measured.
 
@@ -46,125 +48,25 @@ class MetricValue(CreatedUpdatedMixin, Base):
         "polymorphic_on": "type",
     }
 
+    _cv_dimensions: ClassVar[list[str]] = []
+
     id: Mapped[int] = mapped_column(primary_key=True)
-    execution_id: Mapped[int] = mapped_column(ForeignKey("execution.id"))
+    execution_id: Mapped[int] = mapped_column(ForeignKey("execution.id"), index=True)
 
     attributes: Mapped[dict[str, Any]] = mapped_column()
 
     execution: Mapped["Execution"] = relationship(back_populates="values")
 
-    type: Mapped[MetricValueType] = mapped_column()
+    type: Mapped[MetricValueType] = mapped_column(index=True)
     """
     Type of metric value
 
     This value is used to determine how the metric value should be interpreted.
     """
 
-    _cv_dimensions: ClassVar[list[str]] = []
-
-    @property
-    def dimensions(self) -> dict[str, str]:
-        """
-        Get the non-null dimensions and their values
-
-        Any changes to the resulting dictionary are not reflected in the object
-
-        Returns
-        -------
-            Collection of dimensions names and their values
-        """
-        dims = {}
-        for key in self._cv_dimensions:
-            value = getattr(self, key)
-            if value is not None:
-                dims[key] = value
-        return dims
-
     def __repr__(self) -> str:
         return f"<MetricValue id={self.id} execution={self.execution} dimensions={self.dimensions}>"
 
-    @staticmethod
-    def build_dimension_column(dimension: Dimension) -> Column[str]:
-        """
-        Create a column representing a CV dimension
-
-        These columns are not automatically generated with alembic revisions.
-        Any changes to this functionality likely require a manual database migration
-        of the existing columns.
-
-        Parameters
-        ----------
-        dimension
-            Dimension definition to create the column for.
-
-            Currently only the "name" field is being used.
-
-        Returns
-        -------
-            An instance of a sqlalchemy Column
-
-            This doesn't create the column in the database,
-            but enables the ORM to access it.
-
-        """
-        return Column(
-            dimension.name,
-            Text,
-            index=True,
-            nullable=True,
-            info={"skip_autogenerate": True},
-        )
-
-    @classmethod
-    def register_cv_dimensions(cls, cv: CV) -> None:
-        """
-        Register the dimensions supplied in the controlled vocabulary
-
-        This has to be done at run-time to support custom CVs.
-        Any extra columns already in the database, but not in the CV are ignored.
-
-        Parameters
-        ----------
-        cv
-            Controlled vocabulary being used by the application.
-            This controlled vocabulary contains the definitions of the dimensions that can be used.
-        """
-        for dimension in cv.dimensions:
-            target_attribute = dimension.name
-            if target_attribute in cls._cv_dimensions:
-                continue
-
-            cls._cv_dimensions.append(target_attribute)
-            logger.debug(f"Registered MetricValue dimension: {target_attribute}")
-
-            if hasattr(cls, target_attribute):
-                # This should only occur in test suite as we don't support removing dimensions at runtime
-                logger.warning("Column attribute already exists on MetricValue. Ignoring")
-            else:
-                setattr(cls, target_attribute, cls.build_dimension_column(dimension))
-
-            # TODO: Check if the underlying table already contains columns
-
-    @classmethod
-    def _reset_cv_dimensions(cls) -> None:
-        """
-        Remove any previously registered dimensions
-
-        Used by the test suite and should not be called at runtime.
-
-        This doesn't remove any previous column definitions due to a limitation that columns in
-        declarative classes cannot be removed.
-        This means that `hasattr(MetricValue, "old_attribute")`
-        will still return True after resetting, but the values will not be included in any executions.
-        """
-        logger.warning(f"Removing MetricValue dimensions: {cls._cv_dimensions}")
-
-        keys = list(cls._cv_dimensions)
-        for key in keys:
-            cls._cv_dimensions.remove(key)
-
-        assert not len(cls._cv_dimensions)
-
 
 class ScalarMetricValue(MetricValue):
     """
@@ -180,6 +82,12 @@ class ScalarMetricValue(MetricValue):
     # This is a scalar value
     value: Mapped[float] = mapped_column(nullable=True)
 
+    def __repr__(self) -> str:
+        return (
+            f"<ScalarMetricValue "
+            f"id={self.id} execution={self.execution} dimensions={self.dimensions} value={self.value}>"
+        )
+
     @classmethod
     def build(
         cls,
@@ -232,9 +140,10 @@ class ScalarMetricValue(MetricValue):
 
 class SeriesMetricValue(MetricValue):
     """
-    A scalar value with an associated dimensions
+    A 1d series with associated dimensions
 
-    This is a subclass of MetricValue that is used to represent a scalar value.
+    This is a subclass of MetricValue that is used to represent a series.
+    This can be used to represent time series, vertical profiles or other 1d data.
     """
 
     __mapper_args__: ClassVar[Mapping[str, Any]] = {  # type: ignore
@@ -246,6 +155,12 @@ class SeriesMetricValue(MetricValue):
     index: Mapped[list[float | int | str]] = mapped_column(nullable=True)
     index_name: Mapped[str] = mapped_column(nullable=True)
 
+    def __repr__(self) -> str:
+        return (
+            f"<SeriesMetricValue id={self.id} execution={self.execution} "
+            f"dimensions={self.dimensions} index_name={self.index_name}>"
+        )
+
     @classmethod
     def build(  # noqa: PLR0913
         cls,

climate_ref/models/mixins.py

@@ -0,0 +1,144 @@
+"""Model mixins for shared functionality"""
+
+import datetime
+from typing import TYPE_CHECKING, ClassVar
+
+from loguru import logger
+from sqlalchemy import Column, Text, func
+from sqlalchemy.orm import Mapped, mapped_column
+
+if TYPE_CHECKING:
+    from climate_ref_core.pycmec.controlled_vocabulary import CV, Dimension
+
+
+class CreatedUpdatedMixin:
+    """
+    Mixin for models that have a created_at and updated_at fields
+    """
+
+    created_at: Mapped[datetime.datetime] = mapped_column(server_default=func.now())
+    """
+    When the dataset was added to the database
+    """
+
+    updated_at: Mapped[datetime.datetime] = mapped_column(
+        server_default=func.now(), onupdate=func.now(), index=True
+    )
+    """
+    When the dataset was updated.
+    """
+
+
+class DimensionMixin:
+    """
+    Mixin that adds controlled vocabulary dimension support to a model
+
+    This mixin provides methods and properties for managing CV dimensions
+    on database models. Dimensions are stored as individual indexed columns
+    that are registered at runtime based on the controlled vocabulary.
+
+    Classes using this mixin must:
+    - Define _cv_dimensions as a ClassVar[list[str]] = []
+    - Have a __tablename__ attribute (SQLAlchemy requirement)
+    """
+
+    _cv_dimensions: ClassVar[list[str]]
+
+    @property
+    def dimensions(self) -> dict[str, str]:
+        """
+        Get the non-null dimensions and their values
+
+        Any changes to the resulting dictionary are not reflected in the object
+
+        Returns
+        -------
+            Collection of dimension names and their values
+        """
+        dims = {}
+        for key in self._cv_dimensions:
+            value = getattr(self, key)
+            if value is not None:
+                dims[key] = value
+        return dims
+
+    @staticmethod
+    def build_dimension_column(dimension: "Dimension") -> Column[str]:
+        """
+        Create a column representing a CV dimension
+
+        These columns are not automatically generated with alembic revisions.
+        Any changes to this functionality likely require a manual database migration
+        of the existing columns.
+
+        Parameters
+        ----------
+        dimension
+            Dimension definition to create the column for.
+            Currently only the "name" field is being used.
+
+        Returns
+        -------
+            An instance of a sqlalchemy Column
+
+            This doesn't create the column in the database,
+            but enables the ORM to access it.
+        """
+        return Column(
+            dimension.name,
+            Text,
+            index=True,
+            nullable=True,
+            info={"skip_autogenerate": True},
+        )
+
+    @classmethod
+    def register_cv_dimensions(cls, cv: "CV") -> None:
+        """
+        Register the dimensions supplied in the controlled vocabulary
+
+        This has to be done at run-time to support custom CVs.
+        Any extra columns already in the database, but not in the CV are ignored.
+
+        Parameters
+        ----------
+        cv
+            Controlled vocabulary being used by the application.
+            This controlled vocabulary contains the definitions of the dimensions that can be used.
+        """
+        model_name = cls.__name__
+
+        for dimension in cv.dimensions:
+            target_attribute = dimension.name
+            if target_attribute in cls._cv_dimensions:
+                continue
+
+            cls._cv_dimensions.append(target_attribute)
+            logger.debug(f"Registered {model_name} dimension: {target_attribute}")
+
+            if hasattr(cls, target_attribute):
+                # This should only occur in test suite as we don't support removing dimensions at runtime
+                logger.warning(f"Column attribute already exists on {model_name}. Ignoring")
+            else:
+                setattr(cls, target_attribute, cls.build_dimension_column(dimension))
+
+    @classmethod
+    def _reset_cv_dimensions(cls) -> None:
+        """
+        Remove any previously registered dimensions
+
+        Used by the test suite and should not be called at runtime.
+
+        This doesn't remove any previous column definitions due to a limitation that columns in
+        declarative classes cannot be removed.
+        This means that `hasattr(cls, "old_attribute")`
+        will still return True after resetting, but the values will not be included in any executions.
+        """
+        model_name = cls.__name__
+        logger.warning(f"Removing {model_name} dimensions: {cls._cv_dimensions}")
+
+        keys = list(cls._cv_dimensions)
+        for key in keys:
+            cls._cv_dimensions.remove(key)
+
+        assert not len(cls._cv_dimensions)

climate_ref/models/provider.py

@@ -2,7 +2,8 @@ from typing import TYPE_CHECKING
 
 from sqlalchemy.orm import Mapped, mapped_column, relationship
 
-from climate_ref.models.base import Base, CreatedUpdatedMixin
+from .base import Base
+from .mixins import CreatedUpdatedMixin
 
 if TYPE_CHECKING:
     from climate_ref.models.diagnostic import Diagnostic

climate_ref/provider_registry.py

@@ -14,6 +14,8 @@ from loguru import logger
 
 from climate_ref.config import Config
 from climate_ref.database import Database
+from climate_ref.models import Diagnostic as DiagnosticModel
+from climate_ref.models import Provider as ProviderModel
 from climate_ref_core.diagnostics import Diagnostic
 from climate_ref_core.providers import DiagnosticProvider, import_provider
 
@@ -29,10 +31,8 @@ def _register_provider(db: Database, provider: DiagnosticProvider) -> None:
     provider
         DiagnosticProvider instance
     """
-    from climate_ref.models import Diagnostic, Provider
-
     provider_model, created = db.get_or_create(
-        Provider,
+        ProviderModel,
         slug=provider.slug,
         defaults={
             "name": provider.name,
@@ -46,7 +46,7 @@ def _register_provider(db: Database, provider: DiagnosticProvider) -> None:
 
     for diagnostic in provider.diagnostics():
         diagnostic_model, created = db.get_or_create(
-            Diagnostic,
+            DiagnosticModel,
             slug=diagnostic.slug,
             provider_id=provider_model.id,
             defaults={

climate_ref/slurm.py

@@ -10,14 +10,14 @@ class SlurmChecker:
 
     def __init__(self, intest: bool = False) -> None:
         if HAS_REAL_SLURM:
-            import pyslurm  # type: ignore
+            import pyslurm  # type: ignore # noqa: PLC0415
 
             self.slurm_association: dict[int, Any] | None = pyslurm.db.Associations.load()
             self.slurm_partition: dict[str, Any] | None = pyslurm.Partitions.load()
             self.slurm_qos: dict[str, Any] | None = pyslurm.qos().get()
             self.slurm_node: dict[str, Any] | None = pyslurm.Nodes.load()
         elif intest:
-            import pyslurm
+            import pyslurm  # noqa: PLC0415
 
             self.slurm_association = pyslurm.db.Associations.load()  # dict [num -> Association]
             self.slurm_partition = pyslurm.Partitions.load()  # collection

climate_ref/testing.py

@@ -27,7 +27,7 @@ def _determine_test_directory() -> Path | None:
 
 
 TEST_DATA_DIR = _determine_test_directory()
-SAMPLE_DATA_VERSION = "v0.6.3"
+SAMPLE_DATA_VERSION = "v0.7.4"
 
 
 def fetch_sample_data(force_cleanup: bool = False, symlink: bool = False) -> None:

{climate_ref-0.6.5.dist-info → climate_ref-0.7.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: climate-ref
-Version: 0.6.5
+Version: 0.7.0
 Summary: Application which runs the CMIP Rapid Evaluation Framework
 Author-email: Jared Lewis <jared.lewis@climate-resource.com>, Mika Pflueger <mika.pflueger@climate-resource.com>, Bouwe Andela <b.andela@esciencecenter.nl>, Jiwoo Lee <lee1043@llnl.gov>, Min Xu <xum1@ornl.gov>, Nathan Collier <collierno@ornl.gov>, Dora Hegedus <dora.hegedus@stfc.ac.uk>
 License-Expression: Apache-2.0
@@ -70,7 +70,7 @@ pip install climate-ref
 If you want to use the diagnostic providers for the Assessment Fast Track, you can install them with:
 
 ```bash
-pip install climate-ref[aft-providers]
+pip install "climate-ref[aft-providers]"
 ```
 
 ## Quick Start

climate_ref-0.7.0.dist-info/RECORD

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