ncbi-datasets-pyclient 18.14.0__py3-none-any.whl → 18.16.0__py3-none-any.whl

ncbi/datasets/openapi/api_client.py

@@ -91,7 +91,7 @@ class ApiClient:
             self.default_headers[header_name] = header_value
         self.cookie = cookie
         # Set default User-Agent.
-        self.user_agent = 'OpenAPI-Generator/v18.14.0/python'
+        self.user_agent = 'OpenAPI-Generator/v18.16.0/python'
         self.client_side_validation = configuration.client_side_validation
 
     def __enter__(self):

ncbi/datasets/openapi/configuration.py

@@ -546,7 +546,7 @@ conf = ncbi.datasets.openapi.Configuration(
                "OS: {env}\n"\
                "Python Version: {pyversion}\n"\
                "Version of the API: v2\n"\
-               "SDK Package Version: v18.14.0".\
+               "SDK Package Version: v18.16.0".\
                format(env=sys.platform, pyversion=sys.version)
 
     def get_host_settings(self) -> List[HostSetting]:

ncbi/datasets/openapi/models/__init__.py

@@ -13,7 +13,18 @@
 """  # noqa: E501
 
 # import models into model package
+from ncbi.datasets.openapi.models.ncbigsupgcolv2_assembly_accessions_reply import Ncbigsupgcolv2AssemblyAccessionsReply
+from ncbi.datasets.openapi.models.ncbigsupgcolv2_assembly_check_m_histogram_request import Ncbigsupgcolv2AssemblyCheckMHistogramRequest
+from ncbi.datasets.openapi.models.ncbigsupgcolv2_assembly_data_report_draft_request import Ncbigsupgcolv2AssemblyDataReportDraftRequest
+from ncbi.datasets.openapi.models.ncbigsupgcolv2_assembly_data_reports_request import Ncbigsupgcolv2AssemblyDataReportsRequest
+from ncbi.datasets.openapi.models.ncbigsupgcolv2_chromosome_location import Ncbigsupgcolv2ChromosomeLocation
+from ncbi.datasets.openapi.models.ncbigsupgcolv2_chromosome_type import Ncbigsupgcolv2ChromosomeType
+from ncbi.datasets.openapi.models.ncbigsupgcolv2_sequence_accession_request import Ncbigsupgcolv2SequenceAccessionRequest
 from ncbi.datasets.openapi.models.ncbiprotddv2_chain_footprint import Ncbiprotddv2ChainFootprint
+from ncbi.datasets.openapi.models.ncbiprotddv2_parsed_abstract import Ncbiprotddv2ParsedAbstract
+from ncbi.datasets.openapi.models.ncbiprotddv2_parsed_abstract_author import Ncbiprotddv2ParsedAbstractAuthor
+from ncbi.datasets.openapi.models.ncbiprotddv2_parsed_abstract_epub import Ncbiprotddv2ParsedAbstractEpub
+from ncbi.datasets.openapi.models.ncbiprotddv2_pubmed_abstract_request import Ncbiprotddv2PubmedAbstractRequest
 from ncbi.datasets.openapi.models.ncbiprotddv2_query_structure_definition import Ncbiprotddv2QueryStructureDefinition
 from ncbi.datasets.openapi.models.ncbiprotddv2_redundancy_level import Ncbiprotddv2RedundancyLevel
 from ncbi.datasets.openapi.models.ncbiprotddv2_sdid_request import Ncbiprotddv2SdidRequest

ncbi/datasets/openapi/models/ncbigsupgcolv2_assembly_accessions_reply.py

@@ -0,0 +1,87 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import pprint
+import re  # noqa: F401
+import json
+
+from pydantic import BaseModel, ConfigDict, StrictStr
+from typing import Any, ClassVar, Dict, List, Optional
+from typing import Optional, Set
+from typing_extensions import Self
+
+class Ncbigsupgcolv2AssemblyAccessionsReply(BaseModel):
+    """
+    Ncbigsupgcolv2AssemblyAccessionsReply
+    """ # noqa: E501
+    accession: Optional[List[StrictStr]] = None
+    __properties: ClassVar[List[str]] = ["accession"]
+
+    model_config = ConfigDict(
+        populate_by_name=True,
+        validate_assignment=True,
+        protected_namespaces=(),
+    )
+
+
+    def to_str(self) -> str:
+        """Returns the string representation of the model using alias"""
+        return pprint.pformat(self.model_dump(by_alias=True))
+
+    def to_json(self) -> str:
+        """Returns the JSON representation of the model using alias"""
+        # TODO: pydantic v2: use .model_dump_json(by_alias=True, exclude_unset=True) instead
+        return json.dumps(self.to_dict())
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyAccessionsReply from a JSON string"""
+        return cls.from_dict(json.loads(json_str))
+
+    def to_dict(self) -> Dict[str, Any]:
+        """Return the dictionary representation of the model using alias.
+
+        This has the following differences from calling pydantic's
+        `self.model_dump(by_alias=True)`:
+
+        * `None` is only added to the output dict for nullable fields that
+          were set at model initialization. Other fields with value `None`
+          are ignored.
+        """
+        excluded_fields: Set[str] = set([
+        ])
+
+        _dict = self.model_dump(
+            by_alias=True,
+            exclude=excluded_fields,
+            exclude_none=True,
+        )
+        return _dict
+
+    @classmethod
+    def from_dict(cls, obj: Optional[Dict[str, Any]]) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyAccessionsReply from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "accession": obj.get("accession")
+        })
+        return _obj
+
+

ncbi/datasets/openapi/models/ncbigsupgcolv2_assembly_check_m_histogram_request.py

@@ -0,0 +1,87 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import pprint
+import re  # noqa: F401
+import json
+
+from pydantic import BaseModel, ConfigDict, StrictInt
+from typing import Any, ClassVar, Dict, List, Optional
+from typing import Optional, Set
+from typing_extensions import Self
+
+class Ncbigsupgcolv2AssemblyCheckMHistogramRequest(BaseModel):
+    """
+    Ncbigsupgcolv2AssemblyCheckMHistogramRequest
+    """ # noqa: E501
+    tax_id: Optional[StrictInt] = None
+    __properties: ClassVar[List[str]] = ["tax_id"]
+
+    model_config = ConfigDict(
+        populate_by_name=True,
+        validate_assignment=True,
+        protected_namespaces=(),
+    )
+
+
+    def to_str(self) -> str:
+        """Returns the string representation of the model using alias"""
+        return pprint.pformat(self.model_dump(by_alias=True))
+
+    def to_json(self) -> str:
+        """Returns the JSON representation of the model using alias"""
+        # TODO: pydantic v2: use .model_dump_json(by_alias=True, exclude_unset=True) instead
+        return json.dumps(self.to_dict())
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyCheckMHistogramRequest from a JSON string"""
+        return cls.from_dict(json.loads(json_str))
+
+    def to_dict(self) -> Dict[str, Any]:
+        """Return the dictionary representation of the model using alias.
+
+        This has the following differences from calling pydantic's
+        `self.model_dump(by_alias=True)`:
+
+        * `None` is only added to the output dict for nullable fields that
+          were set at model initialization. Other fields with value `None`
+          are ignored.
+        """
+        excluded_fields: Set[str] = set([
+        ])
+
+        _dict = self.model_dump(
+            by_alias=True,
+            exclude=excluded_fields,
+            exclude_none=True,
+        )
+        return _dict
+
+    @classmethod
+    def from_dict(cls, obj: Optional[Dict[str, Any]]) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyCheckMHistogramRequest from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "tax_id": obj.get("tax_id")
+        })
+        return _obj
+
+

ncbi/datasets/openapi/models/ncbigsupgcolv2_assembly_data_report_draft_request.py

@@ -0,0 +1,89 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import pprint
+import re  # noqa: F401
+import json
+
+from pydantic import BaseModel, ConfigDict, Field, StrictStr
+from typing import Any, ClassVar, Dict, List, Optional
+from typing import Optional, Set
+from typing_extensions import Self
+
+class Ncbigsupgcolv2AssemblyDataReportDraftRequest(BaseModel):
+    """
+    Ncbigsupgcolv2AssemblyDataReportDraftRequest
+    """ # noqa: E501
+    accession: Optional[StrictStr] = None
+    bypass_cache: Optional[StrictStr] = Field(default=None, alias="_bypass_cache")
+    __properties: ClassVar[List[str]] = ["accession", "_bypass_cache"]
+
+    model_config = ConfigDict(
+        populate_by_name=True,
+        validate_assignment=True,
+        protected_namespaces=(),
+    )
+
+
+    def to_str(self) -> str:
+        """Returns the string representation of the model using alias"""
+        return pprint.pformat(self.model_dump(by_alias=True))
+
+    def to_json(self) -> str:
+        """Returns the JSON representation of the model using alias"""
+        # TODO: pydantic v2: use .model_dump_json(by_alias=True, exclude_unset=True) instead
+        return json.dumps(self.to_dict())
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyDataReportDraftRequest from a JSON string"""
+        return cls.from_dict(json.loads(json_str))
+
+    def to_dict(self) -> Dict[str, Any]:
+        """Return the dictionary representation of the model using alias.
+
+        This has the following differences from calling pydantic's
+        `self.model_dump(by_alias=True)`:
+
+        * `None` is only added to the output dict for nullable fields that
+          were set at model initialization. Other fields with value `None`
+          are ignored.
+        """
+        excluded_fields: Set[str] = set([
+        ])
+
+        _dict = self.model_dump(
+            by_alias=True,
+            exclude=excluded_fields,
+            exclude_none=True,
+        )
+        return _dict
+
+    @classmethod
+    def from_dict(cls, obj: Optional[Dict[str, Any]]) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyDataReportDraftRequest from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "accession": obj.get("accession"),
+            "_bypass_cache": obj.get("_bypass_cache")
+        })
+        return _obj
+
+

ncbi/datasets/openapi/models/ncbigsupgcolv2_assembly_data_reports_request.py

@@ -0,0 +1,87 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import pprint
+import re  # noqa: F401
+import json
+
+from pydantic import BaseModel, ConfigDict, StrictStr
+from typing import Any, ClassVar, Dict, List, Optional
+from typing import Optional, Set
+from typing_extensions import Self
+
+class Ncbigsupgcolv2AssemblyDataReportsRequest(BaseModel):
+    """
+    Ncbigsupgcolv2AssemblyDataReportsRequest
+    """ # noqa: E501
+    accessions: Optional[List[StrictStr]] = None
+    __properties: ClassVar[List[str]] = ["accessions"]
+
+    model_config = ConfigDict(
+        populate_by_name=True,
+        validate_assignment=True,
+        protected_namespaces=(),
+    )
+
+
+    def to_str(self) -> str:
+        """Returns the string representation of the model using alias"""
+        return pprint.pformat(self.model_dump(by_alias=True))
+
+    def to_json(self) -> str:
+        """Returns the JSON representation of the model using alias"""
+        # TODO: pydantic v2: use .model_dump_json(by_alias=True, exclude_unset=True) instead
+        return json.dumps(self.to_dict())
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyDataReportsRequest from a JSON string"""
+        return cls.from_dict(json.loads(json_str))
+
+    def to_dict(self) -> Dict[str, Any]:
+        """Return the dictionary representation of the model using alias.
+
+        This has the following differences from calling pydantic's
+        `self.model_dump(by_alias=True)`:
+
+        * `None` is only added to the output dict for nullable fields that
+          were set at model initialization. Other fields with value `None`
+          are ignored.
+        """
+        excluded_fields: Set[str] = set([
+        ])
+
+        _dict = self.model_dump(
+            by_alias=True,
+            exclude=excluded_fields,
+            exclude_none=True,
+        )
+        return _dict
+
+    @classmethod
+    def from_dict(cls, obj: Optional[Dict[str, Any]]) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2AssemblyDataReportsRequest from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "accessions": obj.get("accessions")
+        })
+        return _obj
+
+

ncbi/datasets/openapi/models/ncbigsupgcolv2_chromosome_location.py

@@ -0,0 +1,54 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import json
+from enum import Enum
+from typing_extensions import Self
+
+
+class Ncbigsupgcolv2ChromosomeLocation(str, Enum):
+    """
+    Ncbigsupgcolv2ChromosomeLocation
+    """
+
+    """
+    allowed enum values
+    """
+    LOCATION_UNKNOWN = 'LOCATION_UNKNOWN'
+    APICOPLAST = 'APICOPLAST'
+    CHLOROPLAST = 'CHLOROPLAST'
+    CHROMATOPHORE = 'CHROMATOPHORE'
+    CHROMOPLAST = 'CHROMOPLAST'
+    CYANELLE = 'CYANELLE'
+    HYDROGENOSOME = 'HYDROGENOSOME'
+    KINETOPLAST = 'KINETOPLAST'
+    LEUCOPLAST = 'LEUCOPLAST'
+    MACRONUCLEAR = 'MACRONUCLEAR'
+    MITOCHONDRION = 'MITOCHONDRION'
+    NUCLEARPROKARYOTE = 'NUCLEARPROKARYOTE'
+    NUCLEOMORPH = 'NUCLEOMORPH'
+    OTHER_LOCATION = 'OTHER_LOCATION'
+    PLASTID = 'PLASTID'
+    PROPLASTID = 'PROPLASTID'
+    PROVIRALPROPHAGE = 'PROVIRALPROPHAGE'
+    VIRIONPHAGE = 'VIRIONPHAGE'
+    VIROID = 'VIROID'
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Self:
+        """Create an instance of Ncbigsupgcolv2ChromosomeLocation from a JSON string"""
+        return cls(json.loads(json_str))
+
+

ncbi/datasets/openapi/models/ncbigsupgcolv2_chromosome_type.py

@@ -0,0 +1,42 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import json
+from enum import Enum
+from typing_extensions import Self
+
+
+class Ncbigsupgcolv2ChromosomeType(str, Enum):
+    """
+    Ncbigsupgcolv2ChromosomeType
+    """
+
+    """
+    allowed enum values
+    """
+    TYPE_UNKNOWN = 'TYPE_UNKNOWN'
+    CHROMOSOME = 'CHROMOSOME'
+    EXTRACHROM = 'EXTRACHROM'
+    LINKAGEGROUP = 'LINKAGEGROUP'
+    OTHER_TYPE = 'OTHER_TYPE'
+    PLASMID = 'PLASMID'
+    SEGMENT = 'SEGMENT'
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Self:
+        """Create an instance of Ncbigsupgcolv2ChromosomeType from a JSON string"""
+        return cls(json.loads(json_str))
+
+

ncbi/datasets/openapi/models/ncbigsupgcolv2_sequence_accession_request.py

@@ -0,0 +1,87 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import pprint
+import re  # noqa: F401
+import json
+
+from pydantic import BaseModel, ConfigDict, StrictStr
+from typing import Any, ClassVar, Dict, List, Optional
+from typing import Optional, Set
+from typing_extensions import Self
+
+class Ncbigsupgcolv2SequenceAccessionRequest(BaseModel):
+    """
+    Ncbigsupgcolv2SequenceAccessionRequest
+    """ # noqa: E501
+    accession: Optional[StrictStr] = None
+    __properties: ClassVar[List[str]] = ["accession"]
+
+    model_config = ConfigDict(
+        populate_by_name=True,
+        validate_assignment=True,
+        protected_namespaces=(),
+    )
+
+
+    def to_str(self) -> str:
+        """Returns the string representation of the model using alias"""
+        return pprint.pformat(self.model_dump(by_alias=True))
+
+    def to_json(self) -> str:
+        """Returns the JSON representation of the model using alias"""
+        # TODO: pydantic v2: use .model_dump_json(by_alias=True, exclude_unset=True) instead
+        return json.dumps(self.to_dict())
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2SequenceAccessionRequest from a JSON string"""
+        return cls.from_dict(json.loads(json_str))
+
+    def to_dict(self) -> Dict[str, Any]:
+        """Return the dictionary representation of the model using alias.
+
+        This has the following differences from calling pydantic's
+        `self.model_dump(by_alias=True)`:
+
+        * `None` is only added to the output dict for nullable fields that
+          were set at model initialization. Other fields with value `None`
+          are ignored.
+        """
+        excluded_fields: Set[str] = set([
+        ])
+
+        _dict = self.model_dump(
+            by_alias=True,
+            exclude=excluded_fields,
+            exclude_none=True,
+        )
+        return _dict
+
+    @classmethod
+    def from_dict(cls, obj: Optional[Dict[str, Any]]) -> Optional[Self]:
+        """Create an instance of Ncbigsupgcolv2SequenceAccessionRequest from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "accession": obj.get("accession")
+        })
+        return _obj
+
+

ncbi/datasets/openapi/models/ncbiprotddv2_parsed_abstract.py

@@ -0,0 +1,107 @@
+# coding: utf-8
+
+"""
+    NCBI Datasets API
+
+    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The NCBI Datasets version 2 API is updated often to add new features, fix bugs, and enhance usability. 
+
+    The version of the OpenAPI document: v2
+    Generated by OpenAPI Generator (https://openapi-generator.tech)
+
+    Do not edit the class manually.
+"""  # noqa: E501
+
+
+from __future__ import annotations
+import pprint
+import re  # noqa: F401
+import json
+
+from pydantic import BaseModel, ConfigDict, StrictStr
+from typing import Any, ClassVar, Dict, List, Optional
+from ncbi.datasets.openapi.models.ncbiprotddv2_parsed_abstract_author import Ncbiprotddv2ParsedAbstractAuthor
+from ncbi.datasets.openapi.models.ncbiprotddv2_parsed_abstract_epub import Ncbiprotddv2ParsedAbstractEpub
+from typing import Optional, Set
+from typing_extensions import Self
+
+class Ncbiprotddv2ParsedAbstract(BaseModel):
+    """
+    Ncbiprotddv2ParsedAbstract
+    """ # noqa: E501
+    pmid: Optional[StrictStr] = None
+    title: Optional[StrictStr] = None
+    authors: Optional[List[Ncbiprotddv2ParsedAbstractAuthor]] = None
+    epub: Optional[Ncbiprotddv2ParsedAbstractEpub] = None
+    abstract_text: Optional[StrictStr] = None
+    __properties: ClassVar[List[str]] = ["pmid", "title", "authors", "epub", "abstract_text"]
+
+    model_config = ConfigDict(
+        populate_by_name=True,
+        validate_assignment=True,
+        protected_namespaces=(),
+    )
+
+
+    def to_str(self) -> str:
+        """Returns the string representation of the model using alias"""
+        return pprint.pformat(self.model_dump(by_alias=True))
+
+    def to_json(self) -> str:
+        """Returns the JSON representation of the model using alias"""
+        # TODO: pydantic v2: use .model_dump_json(by_alias=True, exclude_unset=True) instead
+        return json.dumps(self.to_dict())
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Optional[Self]:
+        """Create an instance of Ncbiprotddv2ParsedAbstract from a JSON string"""
+        return cls.from_dict(json.loads(json_str))
+
+    def to_dict(self) -> Dict[str, Any]:
+        """Return the dictionary representation of the model using alias.
+
+        This has the following differences from calling pydantic's
+        `self.model_dump(by_alias=True)`:
+
+        * `None` is only added to the output dict for nullable fields that
+          were set at model initialization. Other fields with value `None`
+          are ignored.
+        """
+        excluded_fields: Set[str] = set([
+        ])
+
+        _dict = self.model_dump(
+            by_alias=True,
+            exclude=excluded_fields,
+            exclude_none=True,
+        )
+        # override the default output from pydantic by calling `to_dict()` of each item in authors (list)
+        _items = []
+        if self.authors:
+            for _item_authors in self.authors:
+                if _item_authors:
+                    _items.append(_item_authors.to_dict())
+            _dict['authors'] = _items
+        # override the default output from pydantic by calling `to_dict()` of epub
+        if self.epub:
+            _dict['epub'] = self.epub.to_dict()
+        return _dict
+
+    @classmethod
+    def from_dict(cls, obj: Optional[Dict[str, Any]]) -> Optional[Self]:
+        """Create an instance of Ncbiprotddv2ParsedAbstract from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "pmid": obj.get("pmid"),
+            "title": obj.get("title"),
+            "authors": [Ncbiprotddv2ParsedAbstractAuthor.from_dict(_item) for _item in obj["authors"]] if obj.get("authors") is not None else None,
+            "epub": Ncbiprotddv2ParsedAbstractEpub.from_dict(obj["epub"]) if obj.get("epub") is not None else None,
+            "abstract_text": obj.get("abstract_text")
+        })
+        return _obj
+
+