benchling-sdk 1.13.0a1__py3-none-any.whl → 1.14.0a0__py3-none-any.whl

benchling_sdk/services/v2/stable/aa_sequence_service.py

@@ -8,6 +8,7 @@ from benchling_api_client.v2.stable.api.aa_sequences import (
     bulk_update_aa_sequences,
     bulk_upsert_aa_sequences,
     create_aa_sequence,
+    find_matching_regions_aa_sequences,
     get_aa_sequence,
     list_aa_sequences,
     unarchive_aa_sequences,
@@ -37,6 +38,7 @@ from benchling_sdk.models import (
     AaSequencesBulkCreateRequest,
     AaSequencesBulkUpdateRequest,
     AaSequencesBulkUpsertRequest,
+    AaSequencesFindMatchingRegion,
     AaSequencesPaginatedList,
     AaSequencesUnarchive,
     AaSequenceUpdate,
@@ -312,3 +314,15 @@ class AaSequenceService(BaseService):
             client=self.client, json_body=body, returning=none_as_unset(returning_string)
         )
         return model_from_detailed(response)
+
+    @api_method
+    def find_matching_regions(self, find_matching_region: AaSequencesFindMatchingRegion) -> AsyncTaskLink:
+        """
+        Find matching regions for AA sequences.
+
+        See https://benchling.com/api/v2/reference#/AA%20Sequences/findMatchingRegionsAaSequences
+        """
+        response = find_matching_regions_aa_sequences.sync_detailed(
+            client=self.client, json_body=find_matching_region
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/dna_sequence_service.py

@@ -4,12 +4,14 @@ from benchling_api_client.v2.stable.api.dna_sequences import (
     archive_dna_sequences,
     auto_annotate_dna_sequences,
     autofill_dna_sequence_parts,
+    autofill_dna_sequence_transcriptions,
     autofill_dna_sequence_translations,
     bulk_create_dna_sequences,
     bulk_get_dna_sequences,
     bulk_update_dna_sequences,
     bulk_upsert_dna_sequences,
     create_dna_sequence,
+    find_matching_regions_dna_sequences,
     get_dna_sequence,
     list_dna_sequences,
     match_bases_dna_sequences,
@@ -44,6 +46,7 @@ from benchling_sdk.models import (
     DnaSequencesBulkCreateRequest,
     DnaSequencesBulkUpdateRequest,
     DnaSequencesBulkUpsertRequest,
+    DnaSequencesFindMatchingRegion,
     DnaSequencesPaginatedList,
     DnaSequencesUnarchive,
     DnaSequenceUpdate,
@@ -294,6 +297,17 @@ class DnaSequenceService(BaseService):
         response = autofill_dna_sequence_parts.sync_detailed(client=self.client, json_body=body)
         return model_from_detailed(response)
 
+    @api_method
+    def autofill_transcriptions(self, dna_sequence_ids: Iterable[str]) -> AsyncTaskLink:
+        """
+        Autofill DNA sequence transcriptions.
+
+        See https://benchling.com/api/reference#/DNA%20Sequences/autofillDNASequenceTranscriptions
+        """
+        body = AutofillSequences(dna_sequence_ids=list(dna_sequence_ids))
+        response = autofill_dna_sequence_transcriptions.sync_detailed(client=self.client, json_body=body)
+        return model_from_detailed(response)
+
     @api_method
     def autofill_translations(self, dna_sequence_ids: Iterable[str]) -> AsyncTaskLink:
         """
@@ -372,3 +386,15 @@ class DnaSequenceService(BaseService):
             json_body=search_bases_request,
         )
         return model_from_detailed(response)
+
+    @api_method
+    def find_matching_regions(self, find_matching_region: DnaSequencesFindMatchingRegion) -> AsyncTaskLink:
+        """
+        Find matching regions for DNA sequences.
+
+        See https://benchling.com/api/v2/reference#/DNA%20Sequences/findMatchingRegionsDnaSequences
+        """
+        response = find_matching_regions_dna_sequences.sync_detailed(
+            client=self.client, json_body=find_matching_region
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/stable/entry_service.py

@@ -11,6 +11,7 @@ from benchling_api_client.v2.stable.api.entries import (
     list_entry_templates,
     unarchive_entries,
     update_entry,
+    update_entry_template,
 )
 from benchling_api_client.v2.types import Response
 
@@ -31,6 +32,7 @@ from benchling_sdk.models import (
     EntryExternalFile,
     EntryTemplate,
     EntryTemplatesPaginatedList,
+    EntryTemplateUpdate,
     EntryUpdate,
     ListEntriesReviewStatus,
     ListEntriesSort,
@@ -332,3 +334,24 @@ class EntryService(BaseService):
             client=self.client, entry_template_id=entry_template_id, returning=none_as_unset(returning_string)
         )
         return model_from_detailed(response)
+
+    @api_method
+    def update_entry_template(
+        self,
+        entry_template_id: str,
+        entry_template: EntryTemplateUpdate,
+        returning: Optional[Iterable[str]] = None,
+    ) -> EntryTemplate:
+        """
+        Update a notebook entry template's metadata.
+
+        See https://benchling.com/api/reference#/Entries/updateEntryTemplate
+        """
+        returning_string = optional_array_query_param(returning)
+        response = update_entry_template.sync_detailed(
+            client=self.client,
+            entry_template_id=entry_template_id,
+            json_body=entry_template,
+            returning=none_as_unset(returning_string),
+        )
+        return model_from_detailed(response)

benchling_sdk/services/v2/v2_alpha_service.py

@@ -9,7 +9,6 @@ from benchling_sdk.helpers.retry_helpers import RetryStrategy
 
 if TYPE_CHECKING:
     from benchling_sdk.services.v2.alpha.v2_alpha_app_service import V2AlphaAppService
-    from benchling_sdk.services.v2.alpha.v2_alpha_dna_sequence_service import V2AlphaDnaSequenceService
 
 from benchling_sdk.services.v2.base_service import BaseService
 
@@ -24,7 +23,6 @@ class V2AlphaService(BaseService):
     """
 
     _app_service: Optional[V2AlphaAppService]
-    _dna_sequence_service: Optional[V2AlphaDnaSequenceService]
     _alpha_client: Client
 
     def __init__(self, client: Client, retry_strategy: RetryStrategy = RetryStrategy()):
@@ -53,21 +51,3 @@ class V2AlphaService(BaseService):
 
             self._app_service = V2AlphaAppService(self._alpha_client, self._retry_strategy)
         return self._app_service
-
-    @property
-    def dna_sequences(self) -> V2AlphaDnaSequenceService:
-        """
-        V2-Alpha 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-alpha/reference#/DNA%20Sequences
-        """
-        if self._dna_sequence_service is None:
-            from benchling_sdk.services.v2.alpha.v2_alpha_dna_sequence_service import (
-                V2AlphaDnaSequenceService,
-            )
-
-            self._dna_sequence_service = V2AlphaDnaSequenceService(self._alpha_client, self._retry_strategy)
-        return self._dna_sequence_service

benchling_sdk/services/v2/v2_beta_service.py

@@ -10,7 +10,6 @@ from benchling_sdk.services.v2.base_service import BaseService
 from benchling_sdk.services.v2.beta.v2_beta_data_frame_service import V2BetaDataFrameService
 
 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_entry_service import V2BetaEntryService
@@ -28,7 +27,6 @@ class V2BetaService(BaseService):
     See https://benchling.com/api/v2-beta/reference
     """
 
-    _aa_sequence_service: Optional[V2BetaAaSequenceService]
     _app_service: Optional[V2BetaAppService]
     _collaboration_service: Optional[V2BetaCollaborationService]
     _data_frame_service: Optional[V2BetaDataFrameService]
@@ -56,23 +54,6 @@ class V2BetaService(BaseService):
         self._project_service = None
         self._worklist_service = None
 
-    @property
-    def aa_sequences(self) -> V2BetaAaSequenceService:
-        """
-        V2-Beta AA Sequences.
-
-        AA Sequences are the working units of cells that make everything run (they help make structures, catalyze
-        reactions and allow for signaling - a kind of internal cell communication). On Benchling, these are comprised
-        of a string of amino acids and collections of other attributes, such as annotations.
-
-        See https://benchling.com/api/v2-beta/reference#/AA%20Sequences
-        """
-        if self._aa_sequence_service is None:
-            from benchling_sdk.services.v2.beta.v2_beta_aa_sequence_service import V2BetaAaSequenceService
-
-            self._aa_sequence_service = V2BetaAaSequenceService(self._beta_client, self.retry_strategy)
-        return self._aa_sequence_service
-
     @property
     def apps(self) -> V2BetaAppService:
         """

{benchling_sdk-1.13.0a1.dist-info → benchling_sdk-1.14.0a0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: benchling-sdk
-Version: 1.13.0a1
+Version: 1.14.0a0
 Summary: SDK for interacting with the Benchling Platform.
 License: Apache-2.0
 Author: Benchling Support
@@ -17,7 +17,7 @@ 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 (==2.0.302)
+Requires-Dist: benchling-api-client (==2.0.305)
 Requires-Dist: certifi (>=2022.12.7)
 Requires-Dist: cryptography (>=42.0.0) ; extra == "cryptography"
 Requires-Dist: dataclasses-json (>=0.5.2,<0.6.0)

{benchling_sdk-1.13.0a1.dist-info → benchling_sdk-1.14.0a0.dist-info}/RECORD

@@ -43,18 +43,16 @@ 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=KwJzBoEQ9XdYb9ruYRhS1tR3DetDimXkOfNMq2zm3f4,351530
+benchling_sdk/models/__init__.py,sha256=V7obyEeyaj8miIgnsu22nGUijWRsc7vL4XgtyKnhfJA,353074
 benchling_sdk/models/webhooks/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-benchling_sdk/models/webhooks/v0/__init__.py,sha256=fapR6_IeCW11ITYy1ScOFufqgu0EWq3jHD-Dr4rCIHE,9700
+benchling_sdk/models/webhooks/v0/__init__.py,sha256=tEHA5YxF_WPBjvOIT8UxQjxFAnX--fQmReATINpTz7Y,48834
 benchling_sdk/py.typed,sha256=8ZJUsxZiuOy1oJeVhsTWQhTG_6pTVHVXk5hJL79ebTk,25
 benchling_sdk/services/__init__.py,sha256=K7N-sxMKhIsFroLe_tJIRcKJJuoShTCxiD_bfUz9958,85
 benchling_sdk/services/v2/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 benchling_sdk/services/v2/alpha/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 benchling_sdk/services/v2/alpha/v2_alpha_app_service.py,sha256=cR3nk6oxV2B-ewcUooQ4iqMZJQaj_wvwGyON2eL08Hc,1443
-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=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_data_frame_service.py,sha256=oqCVyYBK7YECXYIDWJ5VIaiAO-W7GXC7xd0Wy1swTmU,14853
@@ -63,7 +61,7 @@ benchling_sdk/services/v2/beta/v2_beta_folder_service.py,sha256=b6-D_eDTF1e2l2YL
 benchling_sdk/services/v2/beta/v2_beta_project_service.py,sha256=8Wk0u6dtiewytfuJ2RaybMOfqih7YF74cJF_wsetJpM,4926
 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=ttiN9YeezeBmJW8RAyqwwSYRDk2i2EMDNvArgVPsM-w,12935
+benchling_sdk/services/v2/stable/aa_sequence_service.py,sha256=75l2QsE6WZ5EJvSDmImZhGi-kc6TPYCFnVpojOKpB1c,13492
 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
@@ -75,10 +73,10 @@ benchling_sdk/services/v2/stable/custom_entity_service.py,sha256=LOATrTh7Vv6dXWl
 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=0D3X98UxWWolkCG_IxiPE3oiFMwyqC7vJlJCyEbNDt4,11128
-benchling_sdk/services/v2/stable/dna_sequence_service.py,sha256=YkcwrFmWDQpKDtMvdTdaMkiRD9-xd9BtNejb8VWVhnk,15203
+benchling_sdk/services/v2/stable/dna_sequence_service.py,sha256=8s4Lgitf4k-Ma0XuXhvG-68A1v4YXZzvtqt9VgukOUQ,16310
 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/entry_service.py,sha256=7HypcoX0vWDi5hFMtqFO6RpKc6IclO3HMQaWdvKNXyQ,13706
 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
 benchling_sdk/services/v2/stable/feature_library_service.py,sha256=h3vdttbJzWWG-297FedtmDXSFEUP0KVGU5Y2D_VW-KA,9767
@@ -107,11 +105,11 @@ benchling_sdk/services/v2/stable/warehouse_service.py,sha256=_gVTwJZ5BcaNBG0k8I0
 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=URRSAdNuoSg322Ej18st0Z4SPBw7-y0udOeBpw2Lomg,7149
+benchling_sdk/services/v2/v2_alpha_service.py,sha256=tlGZTudMaMIgzwHGDJiHB5YVPDOwuQ8PxWYgnc2wfeI,1665
+benchling_sdk/services/v2/v2_beta_service.py,sha256=B68EANGivafp67dWuXO1Rcl_mqmIX6-rSjd62t6mniI,6168
 benchling_sdk/services/v2/v2_stable_service.py,sha256=zZ9Mrx0TkDwPG62uNAzz79wI2hUwcaSO3qAJX29Fij0,36051
 benchling_sdk/services/v2_service.py,sha256=3eoIjYEmGLPdWCpBN0pl7q7_HNWCsUvfvTn3Hcz0wSM,2860
-benchling_sdk-1.13.0a1.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
-benchling_sdk-1.13.0a1.dist-info/METADATA,sha256=EVq5yV_BBQ4QRahzuF9KhzibTR1U9iCgUGQ_ZzVXIno,2118
-benchling_sdk-1.13.0a1.dist-info/WHEEL,sha256=d2fvjOD7sXsVzChCqf0Ty0JbHKBaLYwDbGQDwQTnJ50,88
-benchling_sdk-1.13.0a1.dist-info/RECORD,,
+benchling_sdk-1.14.0a0.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
+benchling_sdk-1.14.0a0.dist-info/METADATA,sha256=SQJ4L_5y9WW7Inm-sa_X6sNNdWZk4p7eL36w8i_vOP4,2118
+benchling_sdk-1.14.0a0.dist-info/WHEEL,sha256=d2fvjOD7sXsVzChCqf0Ty0JbHKBaLYwDbGQDwQTnJ50,88
+benchling_sdk-1.14.0a0.dist-info/RECORD,,

benchling_sdk/services/v2/alpha/v2_alpha_dna_sequence_service.py

@@ -1,32 +0,0 @@
-from benchling_api_client.v2.alpha.api.dna_sequences import find_matching_regions_dna_sequences
-from benchling_api_client.v2.alpha.api.dna_sequences.find_matching_regions_dna_sequences import (
-    DnaSequencesFindMatchingRegion,
-)
-
-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.services.v2.base_service import BaseService
-
-
-class V2AlphaDnaSequenceService(BaseService):
-    """
-    V2-Alpha 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-alpha/reference#/DNA%20Sequences
-    """
-
-    @api_method
-    def find_matching_regions(self, find_matching_region: DnaSequencesFindMatchingRegion) -> AsyncTaskLink:
-        """
-        Find matching regions for DNA sequences.
-
-        See https://benchling.com/api/v2-alpha/reference#/DNA%20Sequences/findMatchingRegionsDnaSequences
-        """
-        response = find_matching_regions_dna_sequences.sync_detailed(
-            client=self.client, json_body=find_matching_region
-        )
-        return model_from_detailed(response)

benchling_sdk/services/v2/beta/v2_beta_aa_sequence_service.py

@@ -1,33 +0,0 @@
-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 AsyncTaskLink
-from benchling_sdk.services.v2.base_service import BaseService
-
-
-class V2BetaAaSequenceService(BaseService):
-    """
-    V2-Beta AA Sequences.
-
-    AA Sequences are the working units of cells that make everything run (they help make structures, catalyze
-    reactions and allow for signaling - a kind of internal cell communication). On Benchling, these are comprised
-    of a string of amino acids and collections of other attributes, such as annotations.
-
-    See https://benchling.com/api/v2-beta/reference#/AA%20Sequences
-    """
-
-    @api_method
-    def find_matching_regions(self, find_matching_region: AaSequencesFindMatchingRegion) -> AsyncTaskLink:
-        """
-        Find matching regions for AA sequences.
-
-        See https://benchling.com/api/v2-beta/reference#/AA%20Sequences/findMatchingRegionsAaSequences
-        """
-        response = find_matching_regions_aa_sequences.sync_detailed(
-            client=self.client, json_body=find_matching_region
-        )
-        return model_from_detailed(response)