benchling-sdk 1.11.0a5__py3-none-any.whl → 1.12.0__py3-none-any.whl

benchling_sdk/benchling.py

@@ -26,6 +26,7 @@ if TYPE_CHECKING:
     from benchling_sdk.services.v2.stable.dna_oligo_service import DnaOligoService
     from benchling_sdk.services.v2.stable.dna_sequence_service import DnaSequenceService
     from benchling_sdk.services.v2.stable.dropdown_service import DropdownService
+    from benchling_sdk.services.v2.stable.entity_service import EntityService
     from benchling_sdk.services.v2.stable.entry_service import EntryService
     from benchling_sdk.services.v2.stable.event_service import EventService
     from benchling_sdk.services.v2.stable.export_service import ExportService
@@ -362,6 +363,19 @@ class Benchling(object):
         """
         return self.v2.stable.dropdowns
 
+    @property
+    def entities(self) -> EntityService:
+        """
+        Entities.
+
+        Entities include DNA and AA sequences, oligos, molecules, custom entities, and
+        other biological objects in Benchling. Entities support schemas, tags, and aliases,
+        and can be registered.
+
+        See https://benchling.com/api/reference#/Entities
+        """
+        return self.v2.stable.entities
+
     @property
     def entries(self) -> EntryService:
         """

benchling_sdk/models/__init__.py

@@ -687,6 +687,7 @@ __all__ = [
     "MoleculesArchiveReason",
     "MoleculesBulkCreateRequest",
     "MoleculesBulkUpdateRequest",
+    "MoleculesBulkUpsertRequest",
     "MoleculesPaginatedList",
     "MoleculesUnarchive",
     "Monomer",
@@ -1731,6 +1732,7 @@ if TYPE_CHECKING:
     import benchling_api_client.v2.stable.models.molecules_archive_reason
     import benchling_api_client.v2.stable.models.molecules_bulk_create_request
     import benchling_api_client.v2.stable.models.molecules_bulk_update_request
+    import benchling_api_client.v2.stable.models.molecules_bulk_upsert_request
     import benchling_api_client.v2.stable.models.molecules_paginated_list
     import benchling_api_client.v2.stable.models.molecules_unarchive
     import benchling_api_client.v2.stable.models.monomer
@@ -3519,6 +3521,9 @@ if TYPE_CHECKING:
     MoleculesBulkUpdateRequest = (
         benchling_api_client.v2.stable.models.molecules_bulk_update_request.MoleculesBulkUpdateRequest
     )
+    MoleculesBulkUpsertRequest = (
+        benchling_api_client.v2.stable.models.molecules_bulk_upsert_request.MoleculesBulkUpsertRequest
+    )
     MoleculesPaginatedList = (
         benchling_api_client.v2.stable.models.molecules_paginated_list.MoleculesPaginatedList
     )
@@ -4963,6 +4968,7 @@ else:
         "MoleculesArchiveReason": "benchling_api_client.v2.stable.models.molecules_archive_reason",
         "MoleculesBulkCreateRequest": "benchling_api_client.v2.stable.models.molecules_bulk_create_request",
         "MoleculesBulkUpdateRequest": "benchling_api_client.v2.stable.models.molecules_bulk_update_request",
+        "MoleculesBulkUpsertRequest": "benchling_api_client.v2.stable.models.molecules_bulk_upsert_request",
         "MoleculesPaginatedList": "benchling_api_client.v2.stable.models.molecules_paginated_list",
         "MoleculesUnarchive": "benchling_api_client.v2.stable.models.molecules_unarchive",
         "Monomer": "benchling_api_client.v2.stable.models.monomer",

benchling_sdk/services/v2/beta/v2_beta_aa_sequence_service.py

@@ -1,17 +1,11 @@
-from benchling_api_client.v2.beta.api.aa_sequences import (
-    bulk_upsert_aa_sequences,
-    find_matching_regions_aa_sequences,
-    upsert_aa_sequence,
-)
-from benchling_api_client.v2.beta.models.aa_sequence_upsert import AaSequenceUpsert
-from benchling_api_client.v2.beta.models.aa_sequences_bulk_upsert_request import AaSequencesBulkUpsertRequest
+from benchling_api_client.v2.beta.api.aa_sequences import find_matching_regions_aa_sequences
 from benchling_api_client.v2.beta.models.aa_sequences_find_matching_region import (
     AaSequencesFindMatchingRegion,
 )
 
 from benchling_sdk.helpers.decorators import api_method
 from benchling_sdk.helpers.response_helpers import model_from_detailed
-from benchling_sdk.models import AaSequence, AsyncTaskLink
+from benchling_sdk.models import AsyncTaskLink
 from benchling_sdk.services.v2.base_service import BaseService
 
 
@@ -26,28 +20,6 @@ class V2BetaAaSequenceService(BaseService):
     See https://benchling.com/api/v2-beta/reference#/AA%20Sequences
     """
 
-    @api_method
-    def upsert(self, entity_registry_id: str, aa_sequence: AaSequenceUpsert) -> AaSequence:
-        """
-        Create or modify an Amino Acid Sequence.
-
-        See https://benchling.com/api/v2-beta/reference#/AA%20Sequences/upsertAaSequence
-        """
-        response = upsert_aa_sequence.sync_detailed(
-            client=self.client, entity_registry_id=entity_registry_id, json_body=aa_sequence
-        )
-        return model_from_detailed(response)
-
-    @api_method
-    def bulk_upsert(self, body: AaSequencesBulkUpsertRequest) -> AsyncTaskLink:
-        """
-        Bulk create or update AA sequences.
-
-        See https://benchling.com/api/v2-beta/reference#/AA%20Sequences/bulkUpsertAASequences
-        """
-        response = bulk_upsert_aa_sequences.sync_detailed(client=self.client, json_body=body)
-        return model_from_detailed(response)
-
     @api_method
     def find_matching_regions(self, find_matching_region: AaSequencesFindMatchingRegion) -> AsyncTaskLink:
         """

benchling_sdk/services/v2/stable/aa_sequence_service.py

@@ -6,11 +6,13 @@ from benchling_api_client.v2.stable.api.aa_sequences import (
     bulk_create_aa_sequences,
     bulk_get_aa_sequences,
     bulk_update_aa_sequences,
+    bulk_upsert_aa_sequences,
     create_aa_sequence,
     get_aa_sequence,
     list_aa_sequences,
     unarchive_aa_sequences,
     update_aa_sequence,
+    upsert_aa_sequence,
 )
 from benchling_api_client.v2.types import Response
 
@@ -34,9 +36,11 @@ from benchling_sdk.models import (
     AaSequencesArchive,
     AaSequencesBulkCreateRequest,
     AaSequencesBulkUpdateRequest,
+    AaSequencesBulkUpsertRequest,
     AaSequencesPaginatedList,
     AaSequencesUnarchive,
     AaSequenceUpdate,
+    AaSequenceUpsert,
     AsyncTaskLink,
     AutoAnnotateAaSequences,
     EntityArchiveReason,
@@ -281,3 +285,30 @@ class AaSequenceService(BaseService):
         """
         response = auto_annotate_aa_sequences.sync_detailed(client=self.client, json_body=auto_annotate)
         return model_from_detailed(response)
+
+    @api_method
+    def upsert(self, entity_registry_id: str, aa_sequence: AaSequenceUpsert) -> AaSequence:
+        """
+        Create or modify an Amino Acid Sequence.
+
+        See https://benchling.com/api/reference#/AA%20Sequences/upsertAaSequence
+        """
+        response = upsert_aa_sequence.sync_detailed(
+            client=self.client, entity_registry_id=entity_registry_id, json_body=aa_sequence
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def bulk_upsert(
+        self, body: AaSequencesBulkUpsertRequest, returning: Optional[Iterable[str]] = None
+    ) -> AsyncTaskLink:
+        """
+        Bulk create or update AA sequences.
+
+        See https://benchling.com/api/reference#/AA%20Sequences/bulkUpsertAASequences
+        """
+        returning_string = optional_array_query_param(returning)
+        response = bulk_upsert_aa_sequences.sync_detailed(
+            client=self.client, json_body=body, returning=none_as_unset(returning_string)
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/custom_entity_service.py

@@ -5,11 +5,13 @@ from benchling_api_client.v2.stable.api.custom_entities import (
     bulk_create_custom_entities,
     bulk_get_custom_entities,
     bulk_update_custom_entities,
+    bulk_upsert_custom_entities,
     create_custom_entity,
     get_custom_entity,
     list_custom_entities,
     unarchive_custom_entities,
     update_custom_entity,
+    upsert_custom_entity,
 )
 from benchling_api_client.v2.types import Response
 
@@ -30,6 +32,7 @@ from benchling_sdk.models import (
     CustomEntitiesArchive,
     CustomEntitiesBulkCreateRequest,
     CustomEntitiesBulkUpdateRequest,
+    CustomEntitiesBulkUpsertRequest,
     CustomEntitiesPaginatedList,
     CustomEntitiesUnarchive,
     CustomEntity,
@@ -37,6 +40,7 @@ from benchling_sdk.models import (
     CustomEntityBulkUpdate,
     CustomEntityCreate,
     CustomEntityUpdate,
+    CustomEntityUpsertRequest,
     EntityArchiveReason,
     ListCustomEntitiesSort,
 )
@@ -266,3 +270,25 @@ class CustomEntityService(BaseService):
         body = CustomEntitiesBulkUpdateRequest(list(entities))
         response = bulk_update_custom_entities.sync_detailed(client=self.client, json_body=body)
         return model_from_detailed(response)
+
+    @api_method
+    def upsert(self, entity_registry_id: str, entity: CustomEntityUpsertRequest) -> CustomEntity:
+        """
+        Create or modify a custom entity.
+
+        See https://benchling.com/api/reference#/Custom%20Entities/upsertCustomEntity
+        """
+        response = upsert_custom_entity.sync_detailed(
+            client=self.client, entity_registry_id=entity_registry_id, json_body=entity
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def bulk_upsert(self, body: CustomEntitiesBulkUpsertRequest) -> AsyncTaskLink:
+        """
+        Bulk update custom entities.
+
+        See https://benchling.com/api/reference#/Custom%20Entities/bulkUpsertCustomEntities
+        """
+        response = bulk_upsert_custom_entities.sync_detailed(client=self.client, json_body=body)
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/dna_oligo_service.py

@@ -4,11 +4,13 @@ from benchling_api_client.v2.stable.api.dna_oligos import (
     archive_dna_oligos,
     bulk_create_dna_oligos,
     bulk_update_dna_oligos,
+    bulk_upsert_dna_oligos,
     create_dna_oligo,
     get_dna_oligo,
     list_dna_oligos,
     unarchive_dna_oligos,
     update_dna_oligo,
+    upsert_dna_oligo,
 )
 from benchling_api_client.v2.types import Response
 
@@ -31,11 +33,13 @@ from benchling_sdk.models import (
     DnaOligosArchive,
     DnaOligosBulkCreateRequest,
     DnaOligosBulkUpdateRequest,
+    DnaOligosBulkUpsertRequest,
     DnaOligosPaginatedList,
     DnaOligosUnarchive,
     DnaOligoUpdate,
     EntityArchiveReason,
     ListDNAOligosSort,
+    OligoUpsertRequest,
 )
 from benchling_sdk.services.v2.base_service import BaseService
 
@@ -243,3 +247,30 @@ class DnaOligoService(BaseService):
         body = DnaOligosBulkUpdateRequest(list(dna_oligos))
         response = bulk_update_dna_oligos.sync_detailed(client=self.client, json_body=body)
         return model_from_detailed(response)
+
+    @api_method
+    def upsert(self, entity_registry_id: str, dna_oligo: OligoUpsertRequest) -> DnaOligo:
+        """
+        Create or modify a DNA Oligo.
+
+        See https://benchling.com/api/reference#/DNA%20Oligos/upsertDNAOligo
+        """
+        response = upsert_dna_oligo.sync_detailed(
+            client=self.client, entity_registry_id=entity_registry_id, json_body=dna_oligo
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def bulk_upsert(
+        self, body: DnaOligosBulkUpsertRequest, returning: Optional[Iterable[str]] = None
+    ) -> AsyncTaskLink:
+        """
+        Bulk create or update DNA Oligos.
+
+        See https://benchling.com/api/reference#/DNA%20Oligos/bulkUpsertDnaOligos
+        """
+        returning_string = optional_array_query_param(returning)
+        response = bulk_upsert_dna_oligos.sync_detailed(
+            client=self.client, json_body=body, returning=none_as_unset(returning_string)
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/dna_sequence_service.py

@@ -8,11 +8,15 @@ from benchling_api_client.v2.stable.api.dna_sequences import (
     bulk_create_dna_sequences,
     bulk_get_dna_sequences,
     bulk_update_dna_sequences,
+    bulk_upsert_dna_sequences,
     create_dna_sequence,
     get_dna_sequence,
     list_dna_sequences,
+    match_bases_dna_sequences,
+    search_dna_sequences,
     unarchive_dna_sequences,
     update_dna_sequence,
+    upsert_dna_sequence,
 )
 from benchling_api_client.v2.types import Response
 
@@ -39,11 +43,15 @@ from benchling_sdk.models import (
     DnaSequencesArchive,
     DnaSequencesBulkCreateRequest,
     DnaSequencesBulkUpdateRequest,
+    DnaSequencesBulkUpsertRequest,
     DnaSequencesPaginatedList,
     DnaSequencesUnarchive,
     DnaSequenceUpdate,
+    DnaSequenceUpsertRequest,
     EntityArchiveReason,
     ListDNASequencesSort,
+    MatchBasesRequest,
+    SearchBasesRequest,
 )
 from benchling_sdk.services.v2.base_service import BaseService
 
@@ -306,3 +314,61 @@ class DnaSequenceService(BaseService):
         """
         response = auto_annotate_dna_sequences.sync_detailed(client=self.client, json_body=auto_annotate)
         return model_from_detailed(response)
+
+    @api_method
+    def upsert(self, entity_registry_id: str, dna_sequence: DnaSequenceUpsertRequest) -> DnaSequence:
+        """
+        Create or modify a DNA sequence.
+
+        See https://benchling.com/api/reference#/DNA%20Sequences/upsertDNASequence
+        """
+        response = upsert_dna_sequence.sync_detailed(
+            client=self.client, entity_registry_id=entity_registry_id, json_body=dna_sequence
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def bulk_upsert(
+        self, body: DnaSequencesBulkUpsertRequest, returning: Optional[Iterable[str]] = None
+    ) -> AsyncTaskLink:
+        """
+        Bulk create or update DNA sequences.
+
+        See https://benchling.com/api/reference#/DNA%20Sequences/bulkUpsertDnaSequences
+        """
+        returning_string = optional_array_query_param(returning)
+        response = bulk_upsert_dna_sequences.sync_detailed(
+            client=self.client, json_body=body, returning=none_as_unset(returning_string)
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def match_bases(self, match_bases_request: MatchBasesRequest) -> DnaSequencesPaginatedList:
+        """
+        Match bases.
+
+        Returns DNA Sequences that exactly match the provided bases.
+
+        See https://benchling.com/api/reference#/DNA%20Sequences/matchBasesDnaSequences
+        """
+        response = match_bases_dna_sequences.sync_detailed(
+            client=self.client,
+            json_body=match_bases_request,
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def search_bases(self, search_bases_request: SearchBasesRequest) -> DnaSequencesPaginatedList:
+        """
+        Search bases.
+
+        Returns DNA Sequences that contain the provided bases.
+        Search indexing is asynchronous, so results may be not be available immediately after creation.
+
+        See https://benchling.com/api/reference#/DNA%20Sequences/searchDnaSequences
+        """
+        response = search_dna_sequences.sync_detailed(
+            client=self.client,
+            json_body=search_bases_request,
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/{beta/v2_beta_entity_service.py → stable/entity_service.py}

@@ -1,25 +1,29 @@
-from benchling_api_client.v2.beta.api.entities import bulk_upsert_entities
-from benchling_api_client.v2.beta.models.entities_bulk_upsert_request import EntitiesBulkUpsertRequest
+from typing import Iterable, Optional
+
+from benchling_api_client.v2.stable.api.entities import bulk_upsert_entities
 
 from benchling_sdk.helpers.decorators import api_method
 from benchling_sdk.helpers.response_helpers import model_from_detailed
-from benchling_sdk.models import AsyncTaskLink
+from benchling_sdk.helpers.serialization_helpers import none_as_unset, optional_array_query_param
+from benchling_sdk.models import AsyncTaskLink, EntitiesBulkUpsertRequest
 from benchling_sdk.services.v2.base_service import BaseService
 
 
-class V2BetaEntityService(BaseService):
+class EntityService(BaseService):
     """
-    V2-Beta Entities.
+    Entities.
 
     Entities include DNA and AA sequences, oligos, molecules, custom entities, and
     other biological objects in Benchling. Entities support schemas, tags, and aliases,
     and can be registered.
 
-    See https://benchling.com/api/v2-beta/reference#/Entities
+    See https://benchling.com/api/reference#/Entities
     """
 
     @api_method
-    def bulk_upsert(self, bulk_upsert: EntitiesBulkUpsertRequest) -> AsyncTaskLink:
+    def bulk_upsert(
+        self, bulk_upsert: EntitiesBulkUpsertRequest, returning: Optional[Iterable[str]] = None
+    ) -> AsyncTaskLink:
         """
         Upsert many entities at once.
 
@@ -33,7 +37,10 @@ class V2BetaEntityService(BaseService):
         4. Entities are registered, using the provided name and entity registry ID.
 
         If any action fails, the whole operation is canceled and no objects are created or updated.
-        See https://benchling.com/api/v2-beta/reference#/Entities/bulkUpsertEntities
+        See https://benchling.com/api/reference#/Entities/bulkUpsertEntities
         """
-        response = bulk_upsert_entities.sync_detailed(client=self.client, json_body=bulk_upsert)
+        returning_string = optional_array_query_param(returning)
+        response = bulk_upsert_entities.sync_detailed(
+            client=self.client, json_body=bulk_upsert, returning=none_as_unset(returning_string)
+        )
         return model_from_detailed(response)

benchling_sdk/services/v2/stable/molecule_service.py

@@ -4,23 +4,14 @@ from benchling_api_client.v2.stable.api.molecules import (
     archive_molecules,
     bulk_create_molecules,
     bulk_update_molecules,
+    bulk_upsert_molecules,
     create_molecule,
     get_molecule,
     list_molecules,
     unarchive_molecules,
     update_molecule,
+    upsert_molecule,
 )
-from benchling_api_client.v2.stable.models.list_molecules_sort import ListMoleculesSort
-from benchling_api_client.v2.stable.models.molecule_bulk_update import MoleculeBulkUpdate
-from benchling_api_client.v2.stable.models.molecule_create import MoleculeCreate
-from benchling_api_client.v2.stable.models.molecule_update import MoleculeUpdate
-from benchling_api_client.v2.stable.models.molecules_archival_change import MoleculesArchivalChange
-from benchling_api_client.v2.stable.models.molecules_archive import MoleculesArchive
-from benchling_api_client.v2.stable.models.molecules_archive_reason import MoleculesArchiveReason
-from benchling_api_client.v2.stable.models.molecules_bulk_create_request import MoleculesBulkCreateRequest
-from benchling_api_client.v2.stable.models.molecules_bulk_update_request import MoleculesBulkUpdateRequest
-from benchling_api_client.v2.stable.models.molecules_paginated_list import MoleculesPaginatedList
-from benchling_api_client.v2.stable.models.molecules_unarchive import MoleculesUnarchive
 from benchling_api_client.v2.types import Response
 
 from benchling_sdk.errors import raise_for_status
@@ -34,7 +25,23 @@ from benchling_sdk.helpers.serialization_helpers import (
     optional_array_query_param,
     schema_fields_query_param,
 )
-from benchling_sdk.models import AsyncTaskLink, Molecule
+from benchling_sdk.models import (
+    AsyncTaskLink,
+    ListMoleculesSort,
+    Molecule,
+    MoleculeBulkUpdate,
+    MoleculeCreate,
+    MoleculesArchivalChange,
+    MoleculesArchive,
+    MoleculesArchiveReason,
+    MoleculesBulkCreateRequest,
+    MoleculesBulkUpdateRequest,
+    MoleculesBulkUpsertRequest,
+    MoleculesPaginatedList,
+    MoleculesUnarchive,
+    MoleculeUpdate,
+    MoleculeUpsertRequest,
+)
 from benchling_sdk.services.v2.base_service import BaseService
 
 
@@ -232,3 +239,30 @@ class MoleculeService(BaseService):
         body = MoleculesBulkUpdateRequest(list(molecules))
         response = bulk_update_molecules.sync_detailed(client=self.client, json_body=body)
         return model_from_detailed(response)
+
+    @api_method
+    def upsert(self, entity_registry_id: str, molecule: MoleculeUpsertRequest) -> Molecule:
+        """
+        Create or modify a Molecule.
+
+        See https://benchling.com/api/reference#/Molecules/upsertMolecule
+        """
+        response = upsert_molecule.sync_detailed(
+            client=self.client, entity_registry_id=entity_registry_id, json_body=molecule
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def bulk_upsert(
+        self, body: MoleculesBulkUpsertRequest, returning: Optional[Iterable[str]] = None
+    ) -> AsyncTaskLink:
+        """
+        Bulk create or update Molecules.
+
+        See https://benchling.com/api/reference#/Molecules/bulkUpsertMolecules
+        """
+        returning_string = optional_array_query_param(returning)
+        response = bulk_upsert_molecules.sync_detailed(
+            client=self.client, json_body=body, returning=none_as_unset(returning_string)
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/plate_service.py

@@ -90,6 +90,16 @@ class PlateService(BaseService):
         creator_ids: Optional[Iterable[str]] = None,
         archive_reason: Optional[str] = None,
         schema_fields: Optional[Dict[str, Any]] = None,
+        empty_containers: Optional[int] = None,
+        empty_containers_gt: Optional[int] = None,
+        empty_containers_gte: Optional[int] = None,
+        empty_containers_lt: Optional[int] = None,
+        empty_containers_lte: Optional[int] = None,
+        empty_positions: Optional[int] = None,
+        empty_positions_gt: Optional[int] = None,
+        empty_positions_gte: Optional[int] = None,
+        empty_positions_lt: Optional[int] = None,
+        empty_positions_lte: Optional[int] = None,
         timeout_seconds: Optional[float] = None,
         returning: Optional[Iterable[str]] = None
     ) -> Response[PlatesPaginatedList]:
@@ -111,6 +121,16 @@ class PlateService(BaseService):
             namesany_ofcase_sensitive=none_as_unset(optional_array_query_param(names_any_of_case_sensitive)),
             creator_ids=none_as_unset(optional_array_query_param(creator_ids)),
             schema_fields=none_as_unset(schema_fields_query_param(schema_fields)),
+            empty_containers=none_as_unset(empty_containers),
+            empty_containersgt=none_as_unset(empty_containers_gt),
+            empty_containersgte=none_as_unset(empty_containers_gte),
+            empty_containerslt=none_as_unset(empty_containers_lt),
+            empty_containerslte=none_as_unset(empty_containers_lte),
+            empty_positions=none_as_unset(empty_positions),
+            empty_positionsgt=none_as_unset(empty_positions_gt),
+            empty_positionsgte=none_as_unset(empty_positions_gte),
+            empty_positionslt=none_as_unset(empty_positions_lt),
+            empty_positionslte=none_as_unset(empty_positions_lte),
             next_token=none_as_unset(next_token),
             page_size=none_as_unset(page_size),
             returning=none_as_unset(optional_array_query_param(returning)),
@@ -136,6 +156,16 @@ class PlateService(BaseService):
         creator_ids: Optional[Iterable[str]] = None,
         archive_reason: Optional[str] = None,
         schema_fields: Optional[Dict[str, Any]] = None,
+        empty_containers: Optional[int] = None,
+        empty_containers_gt: Optional[int] = None,
+        empty_containers_gte: Optional[int] = None,
+        empty_containers_lt: Optional[int] = None,
+        empty_containers_lte: Optional[int] = None,
+        empty_positions: Optional[int] = None,
+        empty_positions_gt: Optional[int] = None,
+        empty_positions_gte: Optional[int] = None,
+        empty_positions_lt: Optional[int] = None,
+        empty_positions_lte: Optional[int] = None,
         page_size: Optional[int] = None,
         timeout_seconds: Optional[float] = DEFAULT_PLATE_HTTP_TIMEOUT,
         returning: Optional[Iterable[str]] = None
@@ -170,6 +200,16 @@ class PlateService(BaseService):
                 names_any_of_case_sensitive=names_any_of_case_sensitive,
                 creator_ids=creator_ids,
                 schema_fields=schema_fields,
+                empty_containers=empty_containers,
+                empty_containers_gt=empty_containers_gt,
+                empty_containers_gte=empty_containers_gte,
+                empty_containers_lt=empty_containers_lt,
+                empty_containers_lte=empty_containers_lte,
+                empty_positions=empty_positions,
+                empty_positions_gt=empty_positions_gt,
+                empty_positions_gte=empty_positions_gte,
+                empty_positions_lt=empty_positions_lt,
+                empty_positions_lte=empty_positions_lte,
                 next_token=next_token,
                 page_size=page_size,
                 timeout_seconds=timeout_seconds,

benchling_sdk/services/v2/stable/rna_oligo_service.py

@@ -4,11 +4,13 @@ from benchling_api_client.v2.stable.api.rna_oligos import (
     archive_rna_oligos,
     bulk_create_rna_oligos,
     bulk_update_rna_oligos,
+    bulk_upsert_rna_oligos,
     create_rna_oligo,
     get_rna_oligo,
     list_rna_oligos,
     unarchive_rna_oligos,
     update_rna_oligo,
+    upsert_rna_oligo,
 )
 from benchling_api_client.v2.types import Response
 
@@ -26,6 +28,7 @@ from benchling_sdk.models import (
     AsyncTaskLink,
     EntityArchiveReason,
     ListRNAOligosSort,
+    OligoUpsertRequest,
     RnaOligo,
     RnaOligoBulkUpdate,
     RnaOligoCreate,
@@ -33,6 +36,7 @@ from benchling_sdk.models import (
     RnaOligosArchive,
     RnaOligosBulkCreateRequest,
     RnaOligosBulkUpdateRequest,
+    RnaOligosBulkUpsertRequest,
     RnaOligosPaginatedList,
     RnaOligosUnarchive,
     RnaOligoUpdate,
@@ -252,3 +256,30 @@ class RnaOligoService(BaseService):
         body = RnaOligosBulkUpdateRequest(list(rna_oligos))
         response = bulk_update_rna_oligos.sync_detailed(client=self.client, json_body=body)
         return model_from_detailed(response)
+
+    @api_method
+    def upsert(self, entity_registry_id: str, rna_oligo: OligoUpsertRequest) -> RnaOligo:
+        """
+        Create or modify a RNA Oligo.
+
+        See https://benchling.com/api/reference#/RNA%20Oligos/upsertRNAOligo
+        """
+        response = upsert_rna_oligo.sync_detailed(
+            client=self.client, entity_registry_id=entity_registry_id, json_body=rna_oligo
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def bulk_upsert(
+        self, body: RnaOligosBulkUpsertRequest, returning: Optional[Iterable[str]] = None
+    ) -> AsyncTaskLink:
+        """
+        Bulk create or update RNA Oligos.
+
+        See https://benchling.com/api/reference#/RNA%20Oligos/bulkUpsertRnaOligos
+        """
+        returning_string = optional_array_query_param(returning)
+        response = bulk_upsert_rna_oligos.sync_detailed(
+            client=self.client, json_body=body, returning=none_as_unset(returning_string)
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/rna_sequence_service.py

@@ -11,6 +11,8 @@ from benchling_api_client.v2.stable.api.rna_sequences import (
     create_rna_sequence,
     get_rna_sequence,
     list_rna_sequences,
+    match_bases_rna_sequences,
+    search_rna_sequences,
     unarchive_rna_sequences,
     update_rna_sequence,
 )
@@ -31,6 +33,7 @@ from benchling_sdk.models import (
     AutoAnnotateRnaSequences,
     EntityArchiveReason,
     ListRNASequencesSort,
+    MatchBasesRequest,
     RnaSequence,
     RnaSequenceBulkCreate,
     RnaSequenceBulkUpdate,
@@ -42,6 +45,7 @@ from benchling_sdk.models import (
     RnaSequencesPaginatedList,
     RnaSequencesUnarchive,
     RnaSequenceUpdate,
+    SearchBasesRequest,
 )
 from benchling_sdk.services.v2.base_service import BaseService
 
@@ -315,3 +319,34 @@ class RnaSequenceService(BaseService):
         """
         response = auto_annotate_rna_sequences.sync_detailed(client=self.client, json_body=auto_annotate)
         return model_from_detailed(response)
+
+    @api_method
+    def match_bases(self, match_bases_request: MatchBasesRequest) -> RnaSequencesPaginatedList:
+        """
+        Match bases.
+
+        Returns RNA Sequences that exactly match the provided bases.
+
+        See https://benchling.com/api/reference#/RNA%20Sequences/matchBasesRnaSequences
+        """
+        response = match_bases_rna_sequences.sync_detailed(
+            client=self.client,
+            json_body=match_bases_request,
+        )
+        return model_from_detailed(response)
+
+    @api_method
+    def search_bases(self, search_bases_request: SearchBasesRequest) -> RnaSequencesPaginatedList:
+        """
+        Search bases.
+
+        Returns RNA Sequences that contain the provided bases.
+        Search indexing is asynchronous, so results may be not be available immediately after creation.
+
+        See https://benchling.com/api/reference#/RNA%20Sequences/searchRnaSequences
+        """
+        response = search_rna_sequences.sync_detailed(
+            client=self.client,
+            json_body=search_bases_request,
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/user_service.py

@@ -6,6 +6,7 @@ from benchling_api_client.v2.stable.api.users import (
     create_user,
     get_user,
     get_user_activity,
+    get_user_warehouse_logins,
     list_users,
     update_user,
 )
@@ -19,6 +20,7 @@ from benchling_sdk.helpers.response_helpers import model_from_detailed
 from benchling_sdk.helpers.serialization_helpers import none_as_unset, optional_array_query_param
 from benchling_sdk.models import (
     AsyncTaskLink,
+    GetUserWarehouseLoginsResponse_200,
     ListUsersSort,
     User,
     UserActivity,
@@ -193,3 +195,13 @@ class UserService(BaseService):
         """
         response = get_user_activity.sync_detailed(client=self.client, user_id=user_id)
         return model_from_detailed(response)
+
+    @api_method
+    def get_warehouse_logins(self, user_id: str) -> GetUserWarehouseLoginsResponse_200:
+        """
+        Return the list of warehouse credential summaries for this user.
+
+        See https://benchling.com/api/reference#/Users/getUserWarehouseLogins
+        """
+        response = get_user_warehouse_logins.sync_detailed(client=self.client, user_id=user_id)
+        return model_from_detailed(response)

benchling_sdk/services/v2/v2_beta_service.py

@@ -13,14 +13,9 @@ if TYPE_CHECKING:
     from benchling_sdk.services.v2.beta.v2_beta_aa_sequence_service import V2BetaAaSequenceService
     from benchling_sdk.services.v2.beta.v2_beta_app_service import V2BetaAppService
     from benchling_sdk.services.v2.beta.v2_beta_collaboration_service import V2BetaCollaborationService
-    from benchling_sdk.services.v2.beta.v2_beta_custom_entity_service import V2BetaCustomEntityService
-    from benchling_sdk.services.v2.beta.v2_beta_dna_oligo_service import V2BetaDnaOligoService
-    from benchling_sdk.services.v2.beta.v2_beta_dna_sequence_service import V2BetaDnaSequenceService
-    from benchling_sdk.services.v2.beta.v2_beta_entity_service import V2BetaEntityService
     from benchling_sdk.services.v2.beta.v2_beta_entry_service import V2BetaEntryService
     from benchling_sdk.services.v2.beta.v2_beta_folder_service import V2BetaFolderService
     from benchling_sdk.services.v2.beta.v2_beta_project_service import V2BetaProjectService
-    from benchling_sdk.services.v2.beta.v2_beta_rna_oligo_service import V2BetaRnaOligoService
     from benchling_sdk.services.v2.beta.v2_beta_worklist_service import V2BetaWorklistService
 
 
@@ -36,15 +31,10 @@ class V2BetaService(BaseService):
     _aa_sequence_service: Optional[V2BetaAaSequenceService]
     _app_service: Optional[V2BetaAppService]
     _collaboration_service: Optional[V2BetaCollaborationService]
-    _custom_entity_service: Optional[V2BetaCustomEntityService]
     _data_frame_service: Optional[V2BetaDataFrameService]
-    _dna_oligo_service: Optional[V2BetaDnaOligoService]
-    _dna_sequence_service: Optional[V2BetaDnaSequenceService]
-    _entity_service: Optional[V2BetaEntityService]
     _entry_service: Optional[V2BetaEntryService]
     _folder_service: Optional[V2BetaFolderService]
     _project_service: Optional[V2BetaProjectService]
-    _rna_oligo_service: Optional[V2BetaRnaOligoService]
     _worklist_service: Optional[V2BetaWorklistService]
     _beta_client: Client
 
@@ -60,15 +50,10 @@ class V2BetaService(BaseService):
         self._aa_sequence_service = None
         self._app_service = None
         self._collaboration_service = None
-        self._custom_entity_service = None
         self._data_frame_service = None
-        self._dna_sequence_service = None
-        self._dna_oligo_service = None
-        self._entity_service = None
         self._entry_service = None
         self._folder_service = None
         self._project_service = None
-        self._rna_oligo_service = None
         self._worklist_service = None
 
     @property
@@ -120,22 +105,6 @@ class V2BetaService(BaseService):
             self._collaboration_service = V2BetaCollaborationService(self._beta_client, self.retry_strategy)
         return self._collaboration_service
 
-    @property
-    def custom_entities(self) -> V2BetaCustomEntityService:
-        """
-        V2-Beta Custom Entities.
-
-        Benchling supports custom entities for biological entities that are neither sequences or proteins. Custom
-        entities must have an entity schema set and can have both schema fields and custom fields.
-
-        See https://benchling.com/api/v2-beta/reference#/Custom%20Entities
-        """
-        if self._custom_entity_service is None:
-            from benchling_sdk.services.v2.beta.v2_beta_custom_entity_service import V2BetaCustomEntityService
-
-            self._custom_entity_service = V2BetaCustomEntityService(self._beta_client, self.retry_strategy)
-        return self._custom_entity_service
-
     @property
     def data_frames(self) -> V2BetaDataFrameService:
         """
@@ -151,55 +120,6 @@ class V2BetaService(BaseService):
             self._data_frame_service = V2BetaDataFrameService(self._beta_client, self.retry_strategy)
         return self._data_frame_service
 
-    @property
-    def dna_oligos(self) -> V2BetaDnaOligoService:
-        """
-        V2-Beta DNA Oligos.
-
-        DNA Oligos are short linear DNA sequences that can be attached as primers to full DNA sequences. Just like other
-        entities, they support schemas, tags, and aliases.
-
-        See https://benchling.com/api/v2-beta/reference#/DNA%20Oligos
-        """
-        if self._dna_oligo_service is None:
-            from benchling_sdk.services.v2.beta.v2_beta_dna_oligo_service import V2BetaDnaOligoService
-
-            self._dna_oligo_service = V2BetaDnaOligoService(self._beta_client, self.retry_strategy)
-        return self._dna_oligo_service
-
-    @property
-    def dna_sequences(self) -> V2BetaDnaSequenceService:
-        """
-        V2-Beta DNA Sequences.
-
-        DNA sequences are the bread and butter of the Benchling Molecular Biology suite. On Benchling, these are
-        comprised of a string of nucleotides and collections of other attributes, such as annotations and primers.
-
-        See https://benchling.com/api/v2-beta/reference#/DNA%20Sequences
-        """
-        if self._dna_sequence_service is None:
-            from benchling_sdk.services.v2.beta.v2_beta_dna_sequence_service import V2BetaDnaSequenceService
-
-            self._dna_sequence_service = V2BetaDnaSequenceService(self._beta_client, self.retry_strategy)
-        return self._dna_sequence_service
-
-    @property
-    def entities(self) -> V2BetaEntityService:
-        """
-        V2-Beta Entities.
-
-        Entities include DNA and AA sequences, oligos, molecules, custom entities, and
-        other biological objects in Benchling. Entities support schemas, tags, and aliases,
-        and can be registered.
-
-        See https://benchling.com/api/v2-beta/reference#/Entities
-        """
-        if self._entity_service is None:
-            from benchling_sdk.services.v2.beta.v2_beta_entity_service import V2BetaEntityService
-
-            self._entity_service = V2BetaEntityService(self._beta_client, self.retry_strategy)
-        return self._entity_service
-
     @property
     def entries(self) -> V2BetaEntryService:
         """
@@ -245,22 +165,6 @@ class V2BetaService(BaseService):
             self._project_service = V2BetaProjectService(self._beta_client, self.retry_strategy)
         return self._project_service
 
-    @property
-    def rna_oligos(self) -> V2BetaRnaOligoService:
-        """
-        V2-Beta RNA Oligos.
-
-        RNA Oligos are short linear RNA sequences that can be attached as primers to full DNA sequences. Just like other
-        entities, they support schemas, tags, and aliases.
-
-        See https://benchling.com/api/v2-beta/reference#/RNA%20Oligos
-        """
-        if self._rna_oligo_service is None:
-            from benchling_sdk.services.v2.beta.v2_beta_rna_oligo_service import V2BetaRnaOligoService
-
-            self._rna_oligo_service = V2BetaRnaOligoService(self._beta_client, self.retry_strategy)
-        return self._rna_oligo_service
-
     @property
     def worklists(self) -> V2BetaWorklistService:
         """

benchling_sdk/services/v2/v2_stable_service.py

@@ -6,7 +6,6 @@ from benchling_api_client.v2.stable.client import Client
 
 from benchling_sdk.helpers.retry_helpers import RetryStrategy
 from benchling_sdk.services.v2.base_service import BaseService
-from benchling_sdk.services.v2.stable.custom_notation_service import CustomNotationService
 
 if TYPE_CHECKING:
     from benchling_sdk.services.v2.stable.aa_sequence_service import AaSequenceService
@@ -18,10 +17,12 @@ if TYPE_CHECKING:
     from benchling_sdk.services.v2.stable.box_service import BoxService
     from benchling_sdk.services.v2.stable.container_service import ContainerService
     from benchling_sdk.services.v2.stable.custom_entity_service import CustomEntityService
+    from benchling_sdk.services.v2.stable.custom_notation_service import CustomNotationService
     from benchling_sdk.services.v2.stable.dna_alignments_service import DnaAlignmentsService
     from benchling_sdk.services.v2.stable.dna_oligo_service import DnaOligoService
     from benchling_sdk.services.v2.stable.dna_sequence_service import DnaSequenceService
     from benchling_sdk.services.v2.stable.dropdown_service import DropdownService
+    from benchling_sdk.services.v2.stable.entity_service import EntityService
     from benchling_sdk.services.v2.stable.entry_service import EntryService
     from benchling_sdk.services.v2.stable.event_service import EventService
     from benchling_sdk.services.v2.stable.export_service import ExportService
@@ -74,6 +75,7 @@ class V2StableService(BaseService):
     _dna_alignments_service: Optional[DnaAlignmentsService]
     _dna_oligo_service: Optional[DnaOligoService]
     _dna_sequence_service: Optional[DnaSequenceService]
+    _entities_service: Optional[EntityService]
     _entries_service: Optional[EntryService]
     _event_service: Optional[EventService]
     _export_service: Optional[ExportService]
@@ -126,6 +128,7 @@ class V2StableService(BaseService):
         self._dna_alignments_service = None
         self._dna_oligo_service = None
         self._dna_sequence_service = None
+        self._entities_service = None
         self._entries_service = None
         self._event_service = None
         self._export_service = None
@@ -412,6 +415,23 @@ class V2StableService(BaseService):
             self._dropdown_service = DropdownService(self._client, retry_strategy=self._retry_strategy)
         return self._dropdown_service
 
+    @property
+    def entities(self) -> EntityService:
+        """
+        Entities.
+
+        Entities include DNA and AA sequences, oligos, molecules, custom entities, and
+        other biological objects in Benchling. Entities support schemas, tags, and aliases,
+        and can be registered.
+
+        See https://benchling.com/api/reference#/Entities
+        """
+        if self._entities_service is None:
+            from benchling_sdk.services.v2.stable.entity_service import EntityService
+
+            self._entities_service = EntityService(self._client, retry_strategy=self._retry_strategy)
+        return self._entities_service
+
     @property
     def entries(self) -> EntryService:
         """

{benchling_sdk-1.11.0a5.dist-info → benchling_sdk-1.12.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: benchling-sdk
-Version: 1.11.0a5
+Version: 1.12.0
 Summary: SDK for interacting with the Benchling Platform.
 License: Apache-2.0
 Author: Benchling Support
@@ -17,9 +17,9 @@ Provides-Extra: python-jose
 Requires-Dist: PyYAML (>=6.0,<7.0)
 Requires-Dist: attrs (>=20.1.0,<23)
 Requires-Dist: backoff (>=1.10.0,<2.0.0)
-Requires-Dist: benchling-api-client (==2.0.283)
+Requires-Dist: benchling-api-client (==2.0.287)
 Requires-Dist: certifi (>=2022.12.7)
-Requires-Dist: cryptography (>=41.0.7,<42.0.0) ; extra == "cryptography"
+Requires-Dist: cryptography (>=42.0.0) ; extra == "cryptography"
 Requires-Dist: dataclasses-json (>=0.5.2,<0.6.0)
 Requires-Dist: httpx (>=0.23.0)
 Requires-Dist: jwcrypto (>=1.5.1,<2.0.0)

{benchling_sdk-1.11.0a5.dist-info → benchling_sdk-1.12.0.dist-info}/RECORD

@@ -27,7 +27,7 @@ benchling_sdk/auth/__init__.py,sha256=N4pJYVUnTLzg5HO9ZldHaI-Am97i6AOCdQS0M5QcVp
 benchling_sdk/auth/api_key_auth.py,sha256=Ui-cnvGMjcwVPV_b2GdBaoTjEyHJIu9CjtZScVBEUvU,641
 benchling_sdk/auth/bearer_token_auth.py,sha256=nymI8V91evcnK-TWKkBXZwck8U1qSh4WaseyQbvF-Cg,1268
 benchling_sdk/auth/client_credentials_oauth2.py,sha256=auHj8FAJxUrDf1HJp9wfmcC_pJ-3rj4tdQbsUIvSUQs,5801
-benchling_sdk/benchling.py,sha256=eED0ge5hWspr1kFFZ1fOovPvw-JdVKhylAGT-n_GUSA,25943
+benchling_sdk/benchling.py,sha256=zpthXOtPdGo1-BsjqXo6TcPVNBWadQKHHZnBOD784A0,26428
 benchling_sdk/docs/__init__.py,sha256=ySHo76PzLndmXOVWrF80VjB5Pi48G82CCQNdzUEzbCY,38
 benchling_sdk/docs/__main__.py,sha256=1ZlGXdn2gHGC0fAuan5i54mh35VkDf5mhY9VeKNyCRA,244
 benchling_sdk/errors.py,sha256=9JCjkY7wQ-K-_GStgYZrSns35FNExZSx-t5Xdlh-U0I,8239
@@ -43,7 +43,7 @@ benchling_sdk/helpers/response_helpers.py,sha256=vtmb9lEEKy3dRFre3Q0R4XaLBEaS_rr
 benchling_sdk/helpers/retry_helpers.py,sha256=SeKOPjnJIes6UsD7kVqlYKBYmwH_DCHdllnG3jys3N8,2740
 benchling_sdk/helpers/serialization_helpers.py,sha256=IUS0uGU_EiZvb8O-bTViUaROmxKcvdX3JeR9iKsWAG8,3662
 benchling_sdk/helpers/transaction_manager.py,sha256=HcSDsgGK7Rb93bgv6fpb4HvQUT-tqP0lXgVa_bWCDh4,3663
-benchling_sdk/models/__init__.py,sha256=an2sVFcr6D-qILew2M4pLhUyEhYDJgOxgbmGQgmjkoY,344971
+benchling_sdk/models/__init__.py,sha256=nOv638Xm2k1mMXNfFDKcY9oLbXjfgzjxyfdMGlZjZ9A,345337
 benchling_sdk/models/webhooks/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 benchling_sdk/models/webhooks/v0/__init__.py,sha256=4n1NDjsKwvdQTGTpNjvzCBq4ZMwv4wtImkETMCX-TdM,6836
 benchling_sdk/py.typed,sha256=8ZJUsxZiuOy1oJeVhsTWQhTG_6pTVHVXk5hJL79ebTk,25
@@ -54,21 +54,16 @@ benchling_sdk/services/v2/alpha/v2_alpha_app_service.py,sha256=cR3nk6oxV2B-ewcUo
 benchling_sdk/services/v2/alpha/v2_alpha_dna_sequence_service.py,sha256=XzpaPWbdxbwE_LJ5RheKHNAwdjPNfr7-o3IXmJsQ6UI,1347
 benchling_sdk/services/v2/base_service.py,sha256=g4Qn001slCJTvqDvRmbImJNBJ8lPJgMVL1H4Xxc8D2o,951
 benchling_sdk/services/v2/beta/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-benchling_sdk/services/v2/beta/v2_beta_aa_sequence_service.py,sha256=Y7E56Z8Piuucd1UQiN6yM1vbQAY7T8x3fZy62RaNRbk,2551
+benchling_sdk/services/v2/beta/v2_beta_aa_sequence_service.py,sha256=ED5jOL1N5JzuikpVPZNj0Wi5czwTfA9HChQca1fwA3I,1410
 benchling_sdk/services/v2/beta/v2_beta_app_service.py,sha256=nVOEQ3ESkUo2e4p_MYMq-VUpEx2wNpJIY7ZZ8UuHnuQ,1385
 benchling_sdk/services/v2/beta/v2_beta_collaboration_service.py,sha256=epLHLdDRfj8ni2-45WWFSpOgQG-kTmbxTffRP1mnim0,5753
-benchling_sdk/services/v2/beta/v2_beta_custom_entity_service.py,sha256=qpKQ8X_oiyDv_KIEeD9eTo6kGU9hkNlUqqjAdMZQPiM,1840
 benchling_sdk/services/v2/beta/v2_beta_data_frame_service.py,sha256=oqCVyYBK7YECXYIDWJ5VIaiAO-W7GXC7xd0Wy1swTmU,14853
-benchling_sdk/services/v2/beta/v2_beta_dna_oligo_service.py,sha256=s2XZMItVJjJp3lZZ7YLh1GbV_cdIKLPOVqglKcAWMNg,1704
-benchling_sdk/services/v2/beta/v2_beta_dna_sequence_service.py,sha256=wLN9lTF-faBrofQHlw3uKilaQvdOgSDI2oFa1GeuViY,1843
-benchling_sdk/services/v2/beta/v2_beta_entity_service.py,sha256=NKYYdqZz6umnbGHb2syWr5E2ECwrPfoeWp5O--dhpaA,1970
 benchling_sdk/services/v2/beta/v2_beta_entry_service.py,sha256=XP00N8NGuAMpJMkeiSTqDR-LFRvwRMVzFHIzQJvOfbA,1053
 benchling_sdk/services/v2/beta/v2_beta_folder_service.py,sha256=b6-D_eDTF1e2l2YLhr4qkKtLXtH_BUVCcHhaB_CBNAM,4959
 benchling_sdk/services/v2/beta/v2_beta_project_service.py,sha256=8Wk0u6dtiewytfuJ2RaybMOfqih7YF74cJF_wsetJpM,4926
-benchling_sdk/services/v2/beta/v2_beta_rna_oligo_service.py,sha256=q6ckT2GOuytJaHj4hvu7aXLK5es8pq0HycmDwAhl2Xo,1704
 benchling_sdk/services/v2/beta/v2_beta_worklist_service.py,sha256=tFMe-7Wbw3qISe-T5EsnYVsmcd1P8Aw1NoWmNA5MroU,5544
 benchling_sdk/services/v2/stable/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-benchling_sdk/services/v2/stable/aa_sequence_service.py,sha256=3RCNwyFBrryQowC9fbLoQHSSqKyGA6TQ0VQYBUyeg1U,11782
+benchling_sdk/services/v2/stable/aa_sequence_service.py,sha256=ttiN9YeezeBmJW8RAyqwwSYRDk2i2EMDNvArgVPsM-w,12935
 benchling_sdk/services/v2/stable/api_service.py,sha256=e0RNp4Jne9UTaHOYMOxxXJpsyUO3WMSFPzN7hB8iliU,12371
 benchling_sdk/services/v2/stable/app_service.py,sha256=dy9FMVvMiJrkYbxZswKuB37EB9K_jCqQr9FfAa0BMgE,23126
 benchling_sdk/services/v2/stable/assay_result_service.py,sha256=_qtSpMznVrGHlB2VnHI87IPjVQHCX1pZbLPJ_LYuW7U,13362
@@ -76,12 +71,13 @@ benchling_sdk/services/v2/stable/assay_run_service.py,sha256=tLpG1pAztEoaDatqlgY
 benchling_sdk/services/v2/stable/blob_service.py,sha256=KwchH3FGzPLfZx85GEG3voQp_ZxyVL_dds_9awRWa0Q,17115
 benchling_sdk/services/v2/stable/box_service.py,sha256=M40smqG-jQlioyRfLBu9Cr9aQmdh06crsYbH1fiZ0BM,12359
 benchling_sdk/services/v2/stable/container_service.py,sha256=8g3gwcI5fSuSbEQCtrksAiqcksky9lHXxyoyf0lbAR0,18639
-benchling_sdk/services/v2/stable/custom_entity_service.py,sha256=cArRFDCDArC17ymUusCmjHjWl33f9Pjc7U9jEUEIHbU,11199
+benchling_sdk/services/v2/stable/custom_entity_service.py,sha256=LOATrTh7Vv6dXWlUqyH8Eet3bwBm0BNoVbCZYiqWu80,12188
 benchling_sdk/services/v2/stable/custom_notation_service.py,sha256=LCnt8hoCkkSRbz-bXUaYbuMaE-1XdYmXB0MgeQ30POc,2141
 benchling_sdk/services/v2/stable/dna_alignments_service.py,sha256=leJaPt7Uk1PyxfO9LXTVi2DjLyqcXgeMselftJaGJA4,7445
-benchling_sdk/services/v2/stable/dna_oligo_service.py,sha256=3noU06yPoA0bUedORyVS_Pvf_BqXP_oQoAN_KqiFkWc,10010
-benchling_sdk/services/v2/stable/dna_sequence_service.py,sha256=lEDrbJET1OGAEhHmeMsaq0BW1UF-nWTQXAcXm6tpU2s,12816
+benchling_sdk/services/v2/stable/dna_oligo_service.py,sha256=0D3X98UxWWolkCG_IxiPE3oiFMwyqC7vJlJCyEbNDt4,11128
+benchling_sdk/services/v2/stable/dna_sequence_service.py,sha256=YkcwrFmWDQpKDtMvdTdaMkiRD9-xd9BtNejb8VWVhnk,15203
 benchling_sdk/services/v2/stable/dropdown_service.py,sha256=AcnATXU_TChhSm9NX8dx9wnbxeBwACzThw5zM3yPYmk,4919
+benchling_sdk/services/v2/stable/entity_service.py,sha256=NGDjng4rwiL6EeDCEs5oy9ciKV6CPv71S1l7A8zM0Uk,2190
 benchling_sdk/services/v2/stable/entry_service.py,sha256=nGK8bctxpaeyHFNj-aY53TbTOwGvqbd8xqQgs-nncKI,12935
 benchling_sdk/services/v2/stable/event_service.py,sha256=--j-oqKR-Ld5d4QiJ6aofOr9LTBCM7maqwRvo2goSPA,2538
 benchling_sdk/services/v2/stable/export_service.py,sha256=T8ir9yRyA8rMUXagLAWYR4cYtOzxt6JxjlnQwExk_HU,1080
@@ -92,30 +88,30 @@ benchling_sdk/services/v2/stable/lab_automation_service.py,sha256=vfKLrH6eZn9v2u
 benchling_sdk/services/v2/stable/label_template_service.py,sha256=VS25LUpUsJnkU_AFTTKjwMruVgE5-izLoc-_wrqr4Pk,1300
 benchling_sdk/services/v2/stable/location_service.py,sha256=4RVFEBRQZnNOm2AXdJcBYHVVPEtDsvihlKskbtez_d0,8026
 benchling_sdk/services/v2/stable/mixture_service.py,sha256=nNwh67Or1BQYZxcatcg-OEEw82Jr6UnxsYVRB9Y18GY,9952
-benchling_sdk/services/v2/stable/molecule_service.py,sha256=L_JtJTBxyPwVt68O8nOUJcBqg3XXAmFqvOFpSNgHGNg,10149
+benchling_sdk/services/v2/stable/molecule_service.py,sha256=7BiurkHuS1ufMeZdRQ7UDb9Z7iTpcVeUIs2i9afHIdQ,10530
 benchling_sdk/services/v2/stable/nucleotide_alignments_service.py,sha256=ab52E-PVeBF693QA8R8OxwtsppyDiehvrkveNPIhjTI,6100
 benchling_sdk/services/v2/stable/oligo_service.py,sha256=0cmQIpsijY-X2-6Bd33NVk5JRdS0OSoLjgTrZHIOra8,12173
 benchling_sdk/services/v2/stable/organization_service.py,sha256=j9B2cUCgPPTMjtFW70-dMUFQJAqpUXNTh8LJ7gvcOGo,4927
-benchling_sdk/services/v2/stable/plate_service.py,sha256=P5k_PMTRcWlbwDbEI0S159gJdzlSxpmBRH1qsOYOGfw,11006
+benchling_sdk/services/v2/stable/plate_service.py,sha256=2KU9sZ7x3niQQQHlhQ_yFKy4GoddJQ5v-kxG808T1mE,13226
 benchling_sdk/services/v2/stable/printer_service.py,sha256=XhXCwbNAamndWLuHn9UE2ehkkl6vCN5hhxBUvr93Uzk,1181
 benchling_sdk/services/v2/stable/project_service.py,sha256=Mb3ibiOQJ3uRnJLoDLYgPgrFE80N1bdYQz9LwpbrMtg,4140
 benchling_sdk/services/v2/stable/registry_service.py,sha256=DtftbhKoxruV9H8ksvQRUYXakv1nQ92uu17iKVOlZnY,4627
 benchling_sdk/services/v2/stable/request_service.py,sha256=EzXuIXE4mnGtEXiLYKqUApDbXp8ODq35FP-egVEXZC8,9500
-benchling_sdk/services/v2/stable/rna_oligo_service.py,sha256=lgP4z_r0C7eh5D6X3cOA45neTyBXszTqg8x4CeD7AJk,10240
-benchling_sdk/services/v2/stable/rna_sequence_service.py,sha256=IC5YTc76oaThtFHsMAd0C6qPLgUiQ4q1WTa2LaNMrqE,12951
+benchling_sdk/services/v2/stable/rna_oligo_service.py,sha256=16Q2ijthmpbkDm6_9EeXZ_QfVDOb5vgAWum33QKQ8Kw,11358
+benchling_sdk/services/v2/stable/rna_sequence_service.py,sha256=F1_wx7t4SOsb_yswH-X4cLeqhqZTQe1oE6D7dg52Fcw,14163
 benchling_sdk/services/v2/stable/schema_service.py,sha256=W64obUUqBcDbMbBOtDVb_bl-VUQGARoeb2u4I96k9Tk,23509
 benchling_sdk/services/v2/stable/task_service.py,sha256=61vimlvZf2R93SitGyd883Yk5pmStavnPDkxuwFvzfU,4983
 benchling_sdk/services/v2/stable/team_service.py,sha256=SYwI2Bv3rWDYnoEKb-MX_yhe39fErewJ4Sx0aon-ej0,4723
-benchling_sdk/services/v2/stable/user_service.py,sha256=7rIcB7Bf_lSr0TSVch08DXQED90ElAd1-N8pAgtgsh4,7035
+benchling_sdk/services/v2/stable/user_service.py,sha256=NkMPz2rPaF6iXNWTBAOWSiXVif2rHYGbYAzaHg4Fhig,7528
 benchling_sdk/services/v2/stable/warehouse_service.py,sha256=_gVTwJZ5BcaNBG0k8I0a4MRahajkV7TNtREfuQGwR74,1286
 benchling_sdk/services/v2/stable/workflow_output_service.py,sha256=VD0RvOBCkgX_YwUoQYQPR_PyGJXuIau5beq9bK75VXM,9993
 benchling_sdk/services/v2/stable/workflow_task_group_service.py,sha256=SSfHDH-Eniz09HG_qSPSfSVHU3BpvTbgGhOQS4iWcAw,8848
 benchling_sdk/services/v2/stable/workflow_task_service.py,sha256=pOhwFmWVk1jh3A9C70LpLhYjlgk2DcGCfjO8Uup9ScQ,12819
 benchling_sdk/services/v2/v2_alpha_service.py,sha256=vNfYK0Dheml9ozR_0tzTlA3blPDTdfTQR8ppaQ6xuu4,2609
-benchling_sdk/services/v2/v2_beta_service.py,sha256=0vbjFFfPQNUGUhckR_cnzGjypRMBpBP6c5c49zrA3mk,11564
-benchling_sdk/services/v2/v2_stable_service.py,sha256=YIc-_0p6x1NQqj7awnWgCTHxbxYO7ZOolePZyW90whc,35246
+benchling_sdk/services/v2/v2_beta_service.py,sha256=URRSAdNuoSg322Ej18st0Z4SPBw7-y0udOeBpw2Lomg,7149
+benchling_sdk/services/v2/v2_stable_service.py,sha256=zZ9Mrx0TkDwPG62uNAzz79wI2hUwcaSO3qAJX29Fij0,36051
 benchling_sdk/services/v2_service.py,sha256=3eoIjYEmGLPdWCpBN0pl7q7_HNWCsUvfvTn3Hcz0wSM,2860
-benchling_sdk-1.11.0a5.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
-benchling_sdk-1.11.0a5.dist-info/METADATA,sha256=6Mg-68OY6r_xy0xNmjEGyzsxqBAYHN2xhLuPlLruA9A,2126
-benchling_sdk-1.11.0a5.dist-info/WHEEL,sha256=d2fvjOD7sXsVzChCqf0Ty0JbHKBaLYwDbGQDwQTnJ50,88
-benchling_sdk-1.11.0a5.dist-info/RECORD,,
+benchling_sdk-1.12.0.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
+benchling_sdk-1.12.0.dist-info/METADATA,sha256=grV7rGrGhxzw7zLQjBR0sfAqHQhku_VBYRlKjPrn7ho,2116
+benchling_sdk-1.12.0.dist-info/WHEEL,sha256=d2fvjOD7sXsVzChCqf0Ty0JbHKBaLYwDbGQDwQTnJ50,88
+benchling_sdk-1.12.0.dist-info/RECORD,,

benchling_sdk/services/v2/beta/v2_beta_custom_entity_service.py

@@ -1,43 +0,0 @@
-from benchling_api_client.v2.beta.api.custom_entities import bulk_upsert_custom_entities, upsert_custom_entity
-from benchling_api_client.v2.beta.models.custom_entities_bulk_upsert_request import (
-    CustomEntitiesBulkUpsertRequest,
-)
-from benchling_api_client.v2.beta.models.custom_entity_upsert_request import CustomEntityUpsertRequest
-
-from benchling_sdk.helpers.decorators import api_method
-from benchling_sdk.helpers.response_helpers import model_from_detailed
-from benchling_sdk.models import AsyncTaskLink, CustomEntity
-from benchling_sdk.services.v2.base_service import BaseService
-
-
-class V2BetaCustomEntityService(BaseService):
-    """
-    V2-Beta Custom Entities.
-
-    Benchling supports custom entities for biological entities that are neither sequences or proteins. Custom
-    entities must have an entity schema set and can have both schema fields and custom fields.
-
-    See https://benchling.com/api/v2-beta/reference#/Custom%20Entities
-    """
-
-    @api_method
-    def upsert(self, entity_registry_id: str, entity: CustomEntityUpsertRequest) -> CustomEntity:
-        """
-        Create or modify a custom entity.
-
-        See https://benchling.com/api/v2-beta/reference#/Custom%20Entities/upsertCustomEntity
-        """
-        response = upsert_custom_entity.sync_detailed(
-            client=self.client, entity_registry_id=entity_registry_id, json_body=entity
-        )
-        return model_from_detailed(response)
-
-    @api_method
-    def bulk_upsert(self, body: CustomEntitiesBulkUpsertRequest) -> AsyncTaskLink:
-        """
-        Bulk update custom entities.
-
-        See https://benchling.com/api/v2-beta/reference#/Custom%20Entities/bulkUpsertCustomEntities
-        """
-        response = bulk_upsert_custom_entities.sync_detailed(client=self.client, json_body=body)
-        return model_from_detailed(response)

benchling_sdk/services/v2/beta/v2_beta_dna_oligo_service.py

@@ -1,41 +0,0 @@
-from benchling_api_client.v2.beta.api.dna_oligos import bulk_upsert_dna_oligos, upsert_dna_oligo
-from benchling_api_client.v2.beta.models.dna_oligos_bulk_upsert_request import DnaOligosBulkUpsertRequest
-from benchling_api_client.v2.beta.models.oligo_upsert_request import OligoUpsertRequest
-
-from benchling_sdk.helpers.decorators import api_method
-from benchling_sdk.helpers.response_helpers import model_from_detailed
-from benchling_sdk.models import AsyncTaskLink, DnaOligo
-from benchling_sdk.services.v2.base_service import BaseService
-
-
-class V2BetaDnaOligoService(BaseService):
-    """
-    V2-Beta DNA Oligos.
-
-    DNA Oligos are short linear DNA sequences that can be attached as primers to full DNA sequences. Just like other
-    entities, they support schemas, tags, and aliases.
-
-    See https://benchling.com/api/v2-beta/reference#/DNA%20Oligos
-    """
-
-    @api_method
-    def upsert(self, entity_registry_id: str, dna_oligo: OligoUpsertRequest) -> DnaOligo:
-        """
-        Create or modify a DNA Oligo.
-
-        See https://benchling.com/api/v2-beta/reference#/DNA%20Oligos/upsertDNAOligo
-        """
-        response = upsert_dna_oligo.sync_detailed(
-            client=self.client, entity_registry_id=entity_registry_id, json_body=dna_oligo
-        )
-        return model_from_detailed(response)
-
-    @api_method
-    def bulk_upsert(self, body: DnaOligosBulkUpsertRequest) -> AsyncTaskLink:
-        """
-        Bulk create or update DNA Oligos.
-
-        See https://benchling.com/api/v2-beta/reference#/DNA%20Oligos/bulkUpsertDnaOligos
-        """
-        response = bulk_upsert_dna_oligos.sync_detailed(client=self.client, json_body=body)
-        return model_from_detailed(response)

benchling_sdk/services/v2/beta/v2_beta_dna_sequence_service.py

@@ -1,43 +0,0 @@
-from benchling_api_client.v2.beta.api.dna_sequences import bulk_upsert_dna_sequences, upsert_dna_sequence
-from benchling_api_client.v2.beta.models.dna_sequence_upsert_request import DnaSequenceUpsertRequest
-from benchling_api_client.v2.beta.models.dna_sequences_bulk_upsert_request import (
-    DnaSequencesBulkUpsertRequest,
-)
-
-from benchling_sdk.helpers.decorators import api_method
-from benchling_sdk.helpers.response_helpers import model_from_detailed
-from benchling_sdk.models import AsyncTaskLink, DnaSequence
-from benchling_sdk.services.v2.base_service import BaseService
-
-
-class V2BetaDnaSequenceService(BaseService):
-    """
-    V2-Beta DNA Sequences.
-
-    DNA sequences are the bread and butter of the Benchling Molecular Biology suite. On Benchling, these are
-    comprised of a string of nucleotides and collections of other attributes, such as annotations and primers.
-
-    See https://benchling.com/api/v2-beta/reference#/DNA%20Sequences
-    """
-
-    @api_method
-    def upsert(self, entity_registry_id: str, dna_sequence: DnaSequenceUpsertRequest) -> DnaSequence:
-        """
-        Create or modify a DNA sequence.
-
-        See https://benchling.com/api/v2-beta/reference#/DNA%20Sequences/upsertDNASequence
-        """
-        response = upsert_dna_sequence.sync_detailed(
-            client=self.client, entity_registry_id=entity_registry_id, json_body=dna_sequence
-        )
-        return model_from_detailed(response)
-
-    @api_method
-    def bulk_upsert(self, body: DnaSequencesBulkUpsertRequest) -> AsyncTaskLink:
-        """
-        Bulk create or update DNA sequences.
-
-        See https://benchling.com/api/v2-beta/reference#/DNA%20Sequences/bulkUpsertDnaSequences
-        """
-        response = bulk_upsert_dna_sequences.sync_detailed(client=self.client, json_body=body)
-        return model_from_detailed(response)

benchling_sdk/services/v2/beta/v2_beta_rna_oligo_service.py

@@ -1,41 +0,0 @@
-from benchling_api_client.v2.beta.api.rna_oligos import bulk_upsert_rna_oligos, upsert_rna_oligo
-from benchling_api_client.v2.beta.models.oligo_upsert_request import OligoUpsertRequest
-from benchling_api_client.v2.beta.models.rna_oligos_bulk_upsert_request import RnaOligosBulkUpsertRequest
-
-from benchling_sdk.helpers.decorators import api_method
-from benchling_sdk.helpers.response_helpers import model_from_detailed
-from benchling_sdk.models import AsyncTaskLink, RnaOligo
-from benchling_sdk.services.v2.base_service import BaseService
-
-
-class V2BetaRnaOligoService(BaseService):
-    """
-    V2-Beta RNA Oligos.
-
-    RNA Oligos are short linear RNA sequences that can be attached as primers to full DNA sequences. Just like other
-    entities, they support schemas, tags, and aliases.
-
-    See https://benchling.com/api/v2-beta/reference#/RNA%20Oligos
-    """
-
-    @api_method
-    def upsert(self, entity_registry_id: str, rna_oligo: OligoUpsertRequest) -> RnaOligo:
-        """
-        Create or modify a RNA Oligo.
-
-        See https://benchling.com/api/v2-beta/reference#/RNA%20Oligos/upsertRNAOligo
-        """
-        response = upsert_rna_oligo.sync_detailed(
-            client=self.client, entity_registry_id=entity_registry_id, json_body=rna_oligo
-        )
-        return model_from_detailed(response)
-
-    @api_method
-    def bulk_upsert(self, body: RnaOligosBulkUpsertRequest) -> AsyncTaskLink:
-        """
-        Bulk create or update RNA Oligos.
-
-        See https://benchling.com/api/v2-beta/reference#/RNA%20Oligos/bulkUpsertRnaOligos
-        """
-        response = bulk_upsert_rna_oligos.sync_detailed(client=self.client, json_body=body)
-        return model_from_detailed(response)