ncbi-datasets-pyclient 18.4.0__py3-none-any.whl → 18.13.0__py3-none-any.whl

ncbi/datasets/openapi/api_client.py

@@ -3,10 +3,9 @@
 """
     NCBI Datasets API
 
-    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The Datasets version 2 API is still in alpha, and we're updating it often to add new functionality, iron out bugs and enhance usability. For some larger downloads, you may want to download a [dehydrated zip archive](https://www.ncbi.nlm.nih.gov/datasets/docs/v2/how-tos/genomes/large-download/), and retrieve the individual data files at a later time. 
+    ### 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
-    Contact: help@ncbi.nlm.nih.gov
     Generated by OpenAPI Generator (https://openapi-generator.tech)
 
     Do not edit the class manually.
@@ -22,6 +21,7 @@ import mimetypes
 import os
 import re
 import tempfile
+import uuid
 
 from urllib.parse import quote
 from typing import Tuple, Optional, List, Dict, Union
@@ -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/v18.4.0/python'
+        self.user_agent = 'OpenAPI-Generator/v18.13.0/python'
         self.client_side_validation = configuration.client_side_validation
 
     def __enter__(self):
@@ -357,6 +357,8 @@ class ApiClient:
             return obj.get_secret_value()
         elif isinstance(obj, self.PRIMITIVE_TYPES):
             return obj
+        elif isinstance(obj, uuid.UUID):
+            return str(obj)
         elif isinstance(obj, list):
             return [
                 self.sanitize_for_serialization(sub_obj) for sub_obj in obj
@@ -383,6 +385,10 @@ class ApiClient:
             else:
                 obj_dict = obj.__dict__
 
+        if isinstance(obj_dict, list):
+            # here we handle instances that can either be a list or something else, and only became a real list by calling to_dict()
+            return self.sanitize_for_serialization(obj_dict)
+
         return {
             key: self.sanitize_for_serialization(val)
             for key, val in obj_dict.items()
@@ -405,7 +411,7 @@ class ApiClient:
                 data = json.loads(response_text)
             except ValueError:
                 data = response_text
-        elif re.match(r'^application/(json|[\w!#$&.+-^_]+\+json)\s*(;|$)', content_type, re.IGNORECASE):
+        elif re.match(r'^application/(json|[\w!#$&.+\-^_]+\+json)\s*(;|$)', content_type, re.IGNORECASE):
             if response_text == "":
                 data = ""
             else:
@@ -454,13 +460,13 @@ class ApiClient:
 
         if klass in self.PRIMITIVE_TYPES:
             return self.__deserialize_primitive(data, klass)
-        elif klass == object:
+        elif klass is object:
             return self.__deserialize_object(data)
-        elif klass == datetime.date:
+        elif klass is datetime.date:
             return self.__deserialize_date(data)
-        elif klass == datetime.datetime:
+        elif klass is datetime.datetime:
             return self.__deserialize_datetime(data)
-        elif klass == decimal.Decimal:
+        elif klass is decimal.Decimal:
             return decimal.Decimal(data)
         elif issubclass(klass, Enum):
             return self.__deserialize_enum(data, klass)

ncbi/datasets/openapi/configuration.py

@@ -3,10 +3,9 @@
 """
     NCBI Datasets API
 
-    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The Datasets version 2 API is still in alpha, and we're updating it often to add new functionality, iron out bugs and enhance usability. For some larger downloads, you may want to download a [dehydrated zip archive](https://www.ncbi.nlm.nih.gov/datasets/docs/v2/how-tos/genomes/large-download/), and retrieve the individual data files at a later time. 
+    ### 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
-    Contact: help@ncbi.nlm.nih.gov
     Generated by OpenAPI Generator (https://openapi-generator.tech)
 
     Do not edit the class manually.
@@ -165,6 +164,8 @@ class Configuration:
     :param retries: Number of retries for API requests.
     :param ca_cert_data: verify the peer using concatenated CA certificate data
       in PEM (str) or DER (bytes) format.
+    :param cert_file: the path to a client certificate file, for mTLS.
+    :param key_file: the path to a client key file, for mTLS. 
 
     :Example:
 
@@ -206,6 +207,8 @@ conf = ncbi.datasets.openapi.Configuration(
         ssl_ca_cert: Optional[str]=None,
         retries: Optional[int] = None,
         ca_cert_data: Optional[Union[str, bytes]] = None,
+        cert_file: Optional[str]=None,
+        key_file: Optional[str]=None,
         *,
         debug: Optional[bool] = None,
     ) -> None:
@@ -287,10 +290,10 @@ conf = ncbi.datasets.openapi.Configuration(
         """Set this to verify the peer using PEM (str) or DER (bytes)
            certificate data.
         """
-        self.cert_file = None
+        self.cert_file = cert_file
         """client certificate file
         """
-        self.key_file = None
+        self.key_file = key_file
         """client key file
         """
         self.assert_hostname = None
@@ -542,7 +545,7 @@ conf = ncbi.datasets.openapi.Configuration(
                "OS: {env}\n"\
                "Python Version: {pyversion}\n"\
                "Version of the API: v2\n"\
-               "SDK Package Version: v18.4.0".\
+               "SDK Package Version: v18.13.0".\
                format(env=sys.platform, pyversion=sys.version)
 
     def get_host_settings(self) -> List[HostSetting]:
@@ -554,10 +557,6 @@ conf = ncbi.datasets.openapi.Configuration(
             {
                 'url': "https://api.ncbi.nlm.nih.gov/datasets/v2",
                 'description': "No description provided",
-            },
-            {
-                'url': "https://dev.ncbi.nlm.nih.gov/datasets/v2",
-                'description': "No description provided",
             }
         ]
 

ncbi/datasets/openapi/exceptions.py

@@ -3,10 +3,9 @@
 """
     NCBI Datasets API
 
-    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The Datasets version 2 API is still in alpha, and we're updating it often to add new functionality, iron out bugs and enhance usability. For some larger downloads, you may want to download a [dehydrated zip archive](https://www.ncbi.nlm.nih.gov/datasets/docs/v2/how-tos/genomes/large-download/), and retrieve the individual data files at a later time. 
+    ### 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
-    Contact: help@ncbi.nlm.nih.gov
     Generated by OpenAPI Generator (https://openapi-generator.tech)
 
     Do not edit the class manually.

ncbi/datasets/openapi/models/__init__.py

@@ -4,25 +4,40 @@
 """
     NCBI Datasets API
 
-    ### NCBI Datasets is a resource that lets you easily gather data from NCBI. The Datasets version 2 API is still in alpha, and we're updating it often to add new functionality, iron out bugs and enhance usability. For some larger downloads, you may want to download a [dehydrated zip archive](https://www.ncbi.nlm.nih.gov/datasets/docs/v2/how-tos/genomes/large-download/), and retrieve the individual data files at a later time. 
+    ### 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
-    Contact: help@ncbi.nlm.nih.gov
     Generated by OpenAPI Generator (https://openapi-generator.tech)
 
     Do not edit the class manually.
 """  # noqa: E501
 
-
 # import models into model package
+from ncbi.datasets.openapi.models.ncbiprotddv2_chain_footprint import Ncbiprotddv2ChainFootprint
+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
+from ncbi.datasets.openapi.models.ncbiprotddv2_similar_structure_report import Ncbiprotddv2SimilarStructureReport
+from ncbi.datasets.openapi.models.ncbiprotddv2_similar_structure_report_page import Ncbiprotddv2SimilarStructureReportPage
+from ncbi.datasets.openapi.models.ncbiprotddv2_similar_structure_request import Ncbiprotddv2SimilarStructureRequest
+from ncbi.datasets.openapi.models.ncbiprotddv2_sort_by_id import Ncbiprotddv2SortById
+from ncbi.datasets.openapi.models.ncbiprotddv2_structure_data_report import Ncbiprotddv2StructureDataReport
+from ncbi.datasets.openapi.models.ncbiprotddv2_structure_data_report_biounit_chain import Ncbiprotddv2StructureDataReportBiounitChain
+from ncbi.datasets.openapi.models.ncbiprotddv2_structure_data_report_experiment import Ncbiprotddv2StructureDataReportExperiment
+from ncbi.datasets.openapi.models.ncbiprotddv2_structure_data_report_kind import Ncbiprotddv2StructureDataReportKind
+from ncbi.datasets.openapi.models.ncbiprotddv2_structure_data_report_ligand_chain import Ncbiprotddv2StructureDataReportLigandChain
+from ncbi.datasets.openapi.models.ncbiprotddv2_structure_request import Ncbiprotddv2StructureRequest
+from ncbi.datasets.openapi.models.ncbiprotddv2_vast_score import Ncbiprotddv2VastScore
 from ncbi.datasets.openapi.models.protobuf_any import ProtobufAny
 from ncbi.datasets.openapi.models.rpc_status import RpcStatus
+from ncbi.datasets.openapi.models.v2_accessions import V2Accessions
 from ncbi.datasets.openapi.models.v2_annotation_for_assembly_type import V2AnnotationForAssemblyType
 from ncbi.datasets.openapi.models.v2_annotation_for_organelle_type import V2AnnotationForOrganelleType
 from ncbi.datasets.openapi.models.v2_assembly_accessions import V2AssemblyAccessions
 from ncbi.datasets.openapi.models.v2_assembly_check_m_histogram_reply import V2AssemblyCheckMHistogramReply
 from ncbi.datasets.openapi.models.v2_assembly_check_m_histogram_reply_histogram_interval import V2AssemblyCheckMHistogramReplyHistogramInterval
 from ncbi.datasets.openapi.models.v2_assembly_check_m_histogram_request import V2AssemblyCheckMHistogramRequest
+from ncbi.datasets.openapi.models.v2_assembly_data_report_draft_request import V2AssemblyDataReportDraftRequest
 from ncbi.datasets.openapi.models.v2_assembly_dataset_availability import V2AssemblyDatasetAvailability
 from ncbi.datasets.openapi.models.v2_assembly_dataset_descriptors_filter import V2AssemblyDatasetDescriptorsFilter
 from ncbi.datasets.openapi.models.v2_assembly_dataset_descriptors_filter_assembly_source import V2AssemblyDatasetDescriptorsFilterAssemblySource
@@ -40,15 +55,20 @@ from ncbi.datasets.openapi.models.v2_assembly_links_request import V2AssemblyLin
 from ncbi.datasets.openapi.models.v2_assembly_revision_history import V2AssemblyRevisionHistory
 from ncbi.datasets.openapi.models.v2_assembly_revision_history_request import V2AssemblyRevisionHistoryRequest
 from ncbi.datasets.openapi.models.v2_assembly_sequence_reports_request import V2AssemblySequenceReportsRequest
+from ncbi.datasets.openapi.models.v2_bio_sample_dataset_reports_request import V2BioSampleDatasetReportsRequest
+from ncbi.datasets.openapi.models.v2_catalog_api_version import V2CatalogApiVersion
 from ncbi.datasets.openapi.models.v2_dataset_request import V2DatasetRequest
 from ncbi.datasets.openapi.models.v2_download_summary import V2DownloadSummary
 from ncbi.datasets.openapi.models.v2_download_summary_available_files import V2DownloadSummaryAvailableFiles
 from ncbi.datasets.openapi.models.v2_download_summary_dehydrated import V2DownloadSummaryDehydrated
 from ncbi.datasets.openapi.models.v2_download_summary_file_summary import V2DownloadSummaryFileSummary
 from ncbi.datasets.openapi.models.v2_download_summary_hydrated import V2DownloadSummaryHydrated
+from ncbi.datasets.openapi.models.v2_element_flank_config import V2ElementFlankConfig
 from ncbi.datasets.openapi.models.v2_fasta import V2Fasta
+from ncbi.datasets.openapi.models.v2_file_file_type import V2FileFileType
 from ncbi.datasets.openapi.models.v2_gene_chromosome_summary_reply import V2GeneChromosomeSummaryReply
 from ncbi.datasets.openapi.models.v2_gene_chromosome_summary_reply_gene_chromosome_summary import V2GeneChromosomeSummaryReplyGeneChromosomeSummary
+from ncbi.datasets.openapi.models.v2_gene_chromosome_summary_request import V2GeneChromosomeSummaryRequest
 from ncbi.datasets.openapi.models.v2_gene_counts_by_taxon_reply import V2GeneCountsByTaxonReply
 from ncbi.datasets.openapi.models.v2_gene_counts_by_taxon_reply_gene_type_and_count import V2GeneCountsByTaxonReplyGeneTypeAndCount
 from ncbi.datasets.openapi.models.v2_gene_counts_by_taxon_request import V2GeneCountsByTaxonRequest
@@ -62,6 +82,8 @@ from ncbi.datasets.openapi.models.v2_gene_links_reply import V2GeneLinksReply
 from ncbi.datasets.openapi.models.v2_gene_links_reply_gene_link import V2GeneLinksReplyGeneLink
 from ncbi.datasets.openapi.models.v2_gene_links_reply_gene_link_type import V2GeneLinksReplyGeneLinkType
 from ncbi.datasets.openapi.models.v2_gene_links_request import V2GeneLinksRequest
+from ncbi.datasets.openapi.models.v2_gene_pubmed_ids_request import V2GenePubmedIdsRequest
+from ncbi.datasets.openapi.models.v2_gene_pubmed_ids_response import V2GenePubmedIdsResponse
 from ncbi.datasets.openapi.models.v2_gene_type import V2GeneType
 from ncbi.datasets.openapi.models.v2_genome_annotation_request import V2GenomeAnnotationRequest
 from ncbi.datasets.openapi.models.v2_genome_annotation_request_annotation_type import V2GenomeAnnotationRequestAnnotationType
@@ -70,6 +92,9 @@ from ncbi.datasets.openapi.models.v2_genome_annotation_table_summary_reply impor
 from ncbi.datasets.openapi.models.v2_http_body import V2HttpBody
 from ncbi.datasets.openapi.models.v2_image_size import V2ImageSize
 from ncbi.datasets.openapi.models.v2_include_tabular_header import V2IncludeTabularHeader
+from ncbi.datasets.openapi.models.v2_micro_bigge_dataset_request import V2MicroBiggeDatasetRequest
+from ncbi.datasets.openapi.models.v2_micro_bigge_dataset_request_file_type import V2MicroBiggeDatasetRequestFileType
+from ncbi.datasets.openapi.models.v2_mol_type import V2MolType
 from ncbi.datasets.openapi.models.v2_organelle_download_request import V2OrganelleDownloadRequest
 from ncbi.datasets.openapi.models.v2_organelle_metadata_request import V2OrganelleMetadataRequest
 from ncbi.datasets.openapi.models.v2_organelle_metadata_request_content_type import V2OrganelleMetadataRequestContentType
@@ -82,11 +107,17 @@ from ncbi.datasets.openapi.models.v2_ortholog_request import V2OrthologRequest
 from ncbi.datasets.openapi.models.v2_ortholog_request_content_type import V2OrthologRequestContentType
 from ncbi.datasets.openapi.models.v2_prokaryote_gene_request import V2ProkaryoteGeneRequest
 from ncbi.datasets.openapi.models.v2_prokaryote_gene_request_gene_flank_config import V2ProkaryoteGeneRequestGeneFlankConfig
+from ncbi.datasets.openapi.models.v2_ref_gene_catalog_dataset_request import V2RefGeneCatalogDatasetRequest
+from ncbi.datasets.openapi.models.v2_ref_gene_catalog_dataset_request_file_type import V2RefGeneCatalogDatasetRequestFileType
 from ncbi.datasets.openapi.models.v2_sars2_protein_dataset_request import V2Sars2ProteinDatasetRequest
 from ncbi.datasets.openapi.models.v2_sci_name_and_ids import V2SciNameAndIds
 from ncbi.datasets.openapi.models.v2_sci_name_and_ids_sci_name_and_id import V2SciNameAndIdsSciNameAndId
+from ncbi.datasets.openapi.models.v2_seq_range import V2SeqRange
+from ncbi.datasets.openapi.models.v2_seq_reply import V2SeqReply
 from ncbi.datasets.openapi.models.v2_sequence_accession_request import V2SequenceAccessionRequest
 from ncbi.datasets.openapi.models.v2_sequence_report_page import V2SequenceReportPage
+from ncbi.datasets.openapi.models.v2_sleep_reply import V2SleepReply
+from ncbi.datasets.openapi.models.v2_sleep_request import V2SleepRequest
 from ncbi.datasets.openapi.models.v2_sort_direction import V2SortDirection
 from ncbi.datasets.openapi.models.v2_sort_field import V2SortField
 from ncbi.datasets.openapi.models.v2_table_format import V2TableFormat
@@ -125,6 +156,18 @@ from ncbi.datasets.openapi.models.v2_virus_dataset_filter import V2VirusDatasetF
 from ncbi.datasets.openapi.models.v2_virus_dataset_report_type import V2VirusDatasetReportType
 from ncbi.datasets.openapi.models.v2_virus_dataset_request import V2VirusDatasetRequest
 from ncbi.datasets.openapi.models.v2_virus_table_field import V2VirusTableField
+from ncbi.datasets.openapi.models.v2archive_affiliation import V2archiveAffiliation
+from ncbi.datasets.openapi.models.v2archive_catalog import V2archiveCatalog
+from ncbi.datasets.openapi.models.v2archive_location import V2archiveLocation
+from ncbi.datasets.openapi.models.v2archive_modifier import V2archiveModifier
+from ncbi.datasets.openapi.models.v2archive_molecule_type import V2archiveMoleculeType
+from ncbi.datasets.openapi.models.v2archive_name import V2archiveName
+from ncbi.datasets.openapi.models.v2archive_nuccore_request import V2archiveNuccoreRequest
+from ncbi.datasets.openapi.models.v2archive_sequence import V2archiveSequence
+from ncbi.datasets.openapi.models.v2archive_sequence_length_units import V2archiveSequenceLengthUnits
+from ncbi.datasets.openapi.models.v2archive_submitter import V2archiveSubmitter
+from ncbi.datasets.openapi.models.v2archive_taxonomy_node import V2archiveTaxonomyNode
+from ncbi.datasets.openapi.models.v2archive_taxonomy_subtype import V2archiveTaxonomySubtype
 from ncbi.datasets.openapi.models.v2reports_ani_match import V2reportsANIMatch
 from ncbi.datasets.openapi.models.v2reports_ani_type_category import V2reportsANITypeCategory
 from ncbi.datasets.openapi.models.v2reports_additional_submitter import V2reportsAdditionalSubmitter
@@ -166,6 +209,7 @@ from ncbi.datasets.openapi.models.v2reports_error_organelle_error_code import V2
 from ncbi.datasets.openapi.models.v2reports_error_taxonomy_error_code import V2reportsErrorTaxonomyErrorCode
 from ncbi.datasets.openapi.models.v2reports_error_virus_error_code import V2reportsErrorVirusErrorCode
 from ncbi.datasets.openapi.models.v2reports_feature_counts import V2reportsFeatureCounts
+from ncbi.datasets.openapi.models.v2reports_functional_site import V2reportsFunctionalSite
 from ncbi.datasets.openapi.models.v2reports_gene_counts import V2reportsGeneCounts
 from ncbi.datasets.openapi.models.v2reports_gene_data_report_page import V2reportsGeneDataReportPage
 from ncbi.datasets.openapi.models.v2reports_gene_descriptor import V2reportsGeneDescriptor
@@ -204,7 +248,12 @@ from ncbi.datasets.openapi.models.v2reports_orientation import V2reportsOrientat
 from ncbi.datasets.openapi.models.v2reports_paired_assembly import V2reportsPairedAssembly
 from ncbi.datasets.openapi.models.v2reports_process_metadata import V2reportsProcessMetadata
 from ncbi.datasets.openapi.models.v2reports_product_descriptor import V2reportsProductDescriptor
+from ncbi.datasets.openapi.models.v2reports_prokaryote_gene_location_completeness import V2reportsProkaryoteGeneLocationCompleteness
 from ncbi.datasets.openapi.models.v2reports_protein import V2reportsProtein
+from ncbi.datasets.openapi.models.v2reports_protein_conserved_domain import V2reportsProteinConservedDomain
+from ncbi.datasets.openapi.models.v2reports_protein_data_report import V2reportsProteinDataReport
+from ncbi.datasets.openapi.models.v2reports_protein_data_report_page import V2reportsProteinDataReportPage
+from ncbi.datasets.openapi.models.v2reports_protein_family import V2reportsProteinFamily
 from ncbi.datasets.openapi.models.v2reports_purpose_of_sampling import V2reportsPurposeOfSampling
 from ncbi.datasets.openapi.models.v2reports_range import V2reportsRange
 from ncbi.datasets.openapi.models.v2reports_rank_type import V2reportsRankType
@@ -245,3 +294,4 @@ from ncbi.datasets.openapi.models.v2reports_wgs_info import V2reportsWGSInfo
 from ncbi.datasets.openapi.models.v2reports_warning import V2reportsWarning
 from ncbi.datasets.openapi.models.v2reports_warning_gene_warning_code import V2reportsWarningGeneWarningCode
 from ncbi.datasets.openapi.models.v2reports_warning_replaced_id import V2reportsWarningReplacedId
+

ncbi/datasets/openapi/models/ncbiprotddv2_chain_footprint.py

@@ -0,0 +1,93 @@
+# 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 Ncbiprotddv2ChainFootprint(BaseModel):
+    """
+    Ncbiprotddv2ChainFootprint
+    """ # noqa: E501
+    query_from: Optional[StrictInt] = None
+    query_to: Optional[StrictInt] = None
+    dependent_from: Optional[StrictInt] = None
+    dependent_to: Optional[StrictInt] = None
+    __properties: ClassVar[List[str]] = ["query_from", "query_to", "dependent_from", "dependent_to"]
+
+    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 Ncbiprotddv2ChainFootprint 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 Ncbiprotddv2ChainFootprint from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "query_from": obj.get("query_from"),
+            "query_to": obj.get("query_to"),
+            "dependent_from": obj.get("dependent_from"),
+            "dependent_to": obj.get("dependent_to")
+        })
+        return _obj
+
+

ncbi/datasets/openapi/models/ncbiprotddv2_query_structure_definition.py

@@ -0,0 +1,97 @@
+# 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, StrictStr
+from typing import Any, ClassVar, Dict, List, Optional
+from typing import Optional, Set
+from typing_extensions import Self
+
+class Ncbiprotddv2QueryStructureDefinition(BaseModel):
+    """
+    Ncbiprotddv2QueryStructureDefinition
+    """ # noqa: E501
+    sdid: Optional[StrictInt] = None
+    mmdb_id: Optional[StrictInt] = None
+    pdb_id: Optional[StrictStr] = None
+    description: Optional[StrictStr] = None
+    chain_id: Optional[StrictStr] = None
+    domain_number: Optional[StrictInt] = None
+    __properties: ClassVar[List[str]] = ["sdid", "mmdb_id", "pdb_id", "description", "chain_id", "domain_number"]
+
+    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 Ncbiprotddv2QueryStructureDefinition 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 Ncbiprotddv2QueryStructureDefinition from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "sdid": obj.get("sdid"),
+            "mmdb_id": obj.get("mmdb_id"),
+            "pdb_id": obj.get("pdb_id"),
+            "description": obj.get("description"),
+            "chain_id": obj.get("chain_id"),
+            "domain_number": obj.get("domain_number")
+        })
+        return _obj
+
+

ncbi/datasets/openapi/models/ncbiprotddv2_redundancy_level.py

@@ -0,0 +1,39 @@
+# 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 Ncbiprotddv2RedundancyLevel(str, Enum):
+    """
+    Ncbiprotddv2RedundancyLevel
+    """
+
+    """
+    allowed enum values
+    """
+    ALL_SEQUENCES = 'ALL_SEQUENCES'
+    LOW = 'LOW'
+    MEDIUM = 'MEDIUM'
+    HIGH = 'HIGH'
+
+    @classmethod
+    def from_json(cls, json_str: str) -> Self:
+        """Create an instance of Ncbiprotddv2RedundancyLevel from a JSON string"""
+        return cls(json.loads(json_str))
+
+

ncbi/datasets/openapi/models/ncbiprotddv2_sdid_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 Ncbiprotddv2SdidRequest(BaseModel):
+    """
+    Ncbiprotddv2SdidRequest
+    """ # noqa: E501
+    sdid: Optional[StrictInt] = None
+    __properties: ClassVar[List[str]] = ["sdid"]
+
+    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 Ncbiprotddv2SdidRequest 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 Ncbiprotddv2SdidRequest from a dict"""
+        if obj is None:
+            return None
+
+        if not isinstance(obj, dict):
+            return cls.model_validate(obj)
+
+        _obj = cls.model_validate({
+            "sdid": obj.get("sdid")
+        })
+        return _obj
+
+