sapiopycommons 2025.7.2a578__py3-none-any.whl → 2025.7.2a579__py3-none-any.whl

sapiopycommons/eln/experiment_cache.py

@@ -0,0 +1,188 @@
+from __future__ import annotations
+
+from weakref import WeakValueDictionary
+
+from sapiopylib.rest.ELNService import ElnManager
+from sapiopylib.rest.User import SapioUser
+from sapiopylib.rest.pojo.datatype.FieldDefinition import AbstractVeloxFieldDefinition
+from sapiopylib.rest.pojo.eln.ElnExperiment import ElnTemplate, TemplateExperimentQuery
+from sapiopylib.rest.pojo.eln.SapioELNEnums import ElnBaseDataType
+from sapiopylib.rest.pojo.eln.field_set import ElnFieldSetInfo
+from sapiopylib.rest.pojo.eln.protocol_template import ProtocolTemplateInfo, ProtocolTemplateQuery
+
+from sapiopycommons.general.aliases import UserIdentifier, AliasUtil
+from sapiopycommons.general.exceptions import SapioException
+
+
+# FR-47530: Created a class that caches experiment template and predefined field information.
+class ExperimentCacheManager:
+    """
+    A class to manage the caching of experiment-related information.
+    """
+    user: SapioUser
+    eln_man: ElnManager
+
+    _templates: list[ElnTemplate]
+    """A list of experiment templates. Only cached when first accessed."""
+    _protocols: list[ProtocolTemplateInfo]
+    """A list of protocol templates. Only cached when first accessed."""
+    _field_sets: dict[str, ElnFieldSetInfo]
+    """A dictionary of field set name to field set. Only cached when first accessed."""
+    _field_set_fields: dict[int, list[AbstractVeloxFieldDefinition]]
+    """A dictionary of field set ID to field definitions. Only cached when first accessed."""
+    _predefined_fields: dict[str, dict[str, AbstractVeloxFieldDefinition]]
+    """A dictionary of ELN data type name to predefined field definitions. Only cached when first accessed."""
+
+    __instances: WeakValueDictionary[SapioUser, ExperimentCacheManager] = WeakValueDictionary()
+    __initialized: bool
+
+    def __new__(cls, context: UserIdentifier):
+        """
+        :param context: The current webhook context or a user object to send requests from.
+        """
+        user = AliasUtil.to_sapio_user(context)
+        obj = cls.__instances.get(user)
+        if not obj:
+            obj = object.__new__(cls)
+            obj.__initialized = False
+            cls.__instances[user] = obj
+        return obj
+
+    def __init__(self, context: UserIdentifier):
+        """
+        :param context: The current webhook context or a user object to send requests from.
+        """
+        if self.__initialized:
+            return
+        self.__initialized = True
+
+        self.user = AliasUtil.to_sapio_user(context)
+        self.eln_man = ElnManager(self.user)
+
+        self._field_set_fields = {}
+        self._predefined_fields = {}
+
+    def get_experiment_template(self, name: str, active: bool = True, version: int | None = None,
+                                first_match: bool = False, public: bool | None = True) -> ElnTemplate:
+        """
+        Get the experiment template with the given information.
+
+        :param name: The name of the template.
+        :param active: Whether the template is marked as active.
+        :param version: The version of the template to get. If None, the latest version will be returned.
+        :param first_match: If true, returns the first match found. If false, raises an exception.
+        :param public: Whether the template is public. If true, only pubic templates will be queried. If false, only
+            private templates will be queried. If None, both public and private templates will be queried. Non-public
+            templates do not have a version number, so this will always fail if public is false and a version number is
+            provided.
+        :return: The experiment template with the given information.
+        """
+        if not hasattr(self, "_templates"):
+            query = TemplateExperimentQuery()
+            query.active_templates_only = False
+            query.latest_version_only = False
+            self._templates = self.eln_man.get_template_experiment_list(query)
+        return self._find_template(self._templates, name, active, version, first_match, public)
+
+
+    def get_protocol_template(self, name: str, active: bool = True, version: int | None = None,
+                              first_match: bool = False, public: bool | None = True) -> ProtocolTemplateInfo:
+        """
+        Get the protocol template with the given information. Will throw an exception if multiple templates match
+        the given information.
+
+        :param name: The name of the template.
+        :param active: Whether the template is marked as active.
+        :param version: The version of the template to get. If None, the latest version will be returned.
+        :param first_match: If true, returns the first match found. If false, raises an exception.
+        :param public: Whether the template is public. If true, only pubic templates will be queried. If false, only
+            private templates will be queried. If None, both public and private templates will be queried. Non-public
+            templates do not have a version number, so this will always fail if public is false and a version number is
+            provided.
+        :return: The protocol template with the given information.
+        """
+        if not hasattr(self, "_protocols"):
+            query = ProtocolTemplateQuery()
+            query.active_templates_only = False
+            query.latest_version_only = False
+            self._protocols = self.eln_man.get_protocol_template_info_list(query)
+        return self._find_template(self._protocols, name, active, version, first_match, public)
+
+    @staticmethod
+    def _find_template(templates: list[ElnTemplate] | list[ProtocolTemplateInfo], name: str, active: bool,
+                       version: int, first_match: bool, public: bool | None) -> ElnTemplate | ProtocolTemplateInfo:
+        """
+        Find the experiment or protocol template with the given information.
+        """
+        matches = []
+        for template in templates:
+            if template.template_name != name:
+                continue
+            if template.active != active:
+                continue
+            if version is not None and template.template_version != version:
+                continue
+            if public is True and template.template_version is None:
+                continue
+            if public is False and template.template_version is not None:
+                continue
+            matches.append(template)
+        if not matches:
+            raise SapioException(f"No template with the name \"{name}\"" +
+                                 ("" if version is None else f" and the version {version}") +
+                                 f" found.")
+        # Only filter for the max version number if any of the matches actually have a version number.
+        versioned_matches = [x for x in matches if x.template_version is not None]
+        if version is None and versioned_matches:
+            return max(versioned_matches, key=lambda x: x.template_version)
+        if len(matches) > 1 and not first_match:
+            raise SapioException(f"Multiple templates with the name \"{name}\" found. Consider setting first_match to "
+                                 f"true, or restrict your search criteria further.")
+        return matches[0]
+
+    def get_predefined_field(self, field_name: str, data_type: ElnBaseDataType) -> AbstractVeloxFieldDefinition:
+        """
+        Get the predefined field of the given name for the given ELN data type.
+
+        :param field_name: The name of the field.
+        :param data_type: The ELN data type of the field.
+        :return: The predefined field of the given name for the given ELN data type.
+        """
+        return self.get_predefined_fields(data_type)[field_name]
+
+    def get_predefined_fields(self, data_type: ElnBaseDataType) -> dict[str, AbstractVeloxFieldDefinition]:
+        """
+        Get the predefined fields for the given ELN data type.
+
+        :param data_type: The ELN data type to get the predefined fields for.
+        :return: A dictionary of field name to field definition for the given ELN data type.
+        """
+        if data_type.data_type_name not in self._predefined_fields:
+            fields: list[AbstractVeloxFieldDefinition] = self.eln_man.get_predefined_fields(data_type)
+            self._predefined_fields[data_type.data_type_name] = {x.data_field_name: x for x in fields}
+        return self._predefined_fields[data_type.data_type_name]
+
+    def get_field_set(self, name: str) -> ElnFieldSetInfo:
+        """
+        Get the field set with the given name.
+
+        :param name: The name of the field set.
+        :return: The field set with the given name.
+        """
+        if not hasattr(self, "_field_sets"):
+            self._field_sets = {x.field_set_name: x for x in self.eln_man.get_field_set_info_list()}
+        return self._field_sets[name]
+
+    def get_field_set_fields(self, field_set: ElnFieldSetInfo | int) -> list[AbstractVeloxFieldDefinition]:
+        """
+        Get the fields of the given field set.
+
+        :param field_set: The field set to get the fields from. Can be either an ElnFieldSetInfo object or an integer
+            for the set ID.
+        :return: The fields of the given field set.
+        """
+        field_set: int = field_set if isinstance(field_set, int) else field_set.field_set_id
+        if field_set in self._field_set_fields:
+            return self._field_set_fields[field_set]
+        self._field_set_fields[field_set] = self.eln_man.get_predefined_fields_from_field_set_id(field_set)
+        return self._field_set_fields[field_set]