benchling_sdk.services.v2.v2_stable_service module¶

class V2StableService¶

Bases: benchling_sdk.services.v2.base_service.BaseService

V2 Stable.

Namespace containing support for the V2 stable endpoints of the Benchling API.

__init__(client: benchling_api_client.v2.client.Client, retry_strategy: RetryStrategy = RetryStrategy())¶

Initialize a service.

Parameters

client – Underlying generated Client.
retry_strategy – Retry strategy for failed HTTP calls

property aa_sequences: AaSequenceService¶

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/reference#/AA%20Sequences

property api: ApiService¶

Make custom API calls with the underlying BenchlingApiClient.

A common use case for this is making calls to API endpoints which may not yet be supported in the current SDK release. It’s capable of making more “generic” calls utilizing our authorization scheme, as well as supporting some simple serialization and deserialization for custom models.

property apps: AppService¶

Apps.

Apps provide a framework for you to customize your teams’ experiences on Benchling with custom applications.

See https://benchling.com/api/reference#/Apps and https://docs.benchling.com/docs/getting-started-benchling-apps

property assay_results: AssayResultService¶

Assay Results.

Results represent the output of assays that have been performed. You can customize the schemas of results to fit your needs. Results can link to runs, batches, and other types.

See https://benchling.com/api/reference#/Assay%20Results

property assay_runs: AssayRunService¶

Assay Runs.

Runs capture the details / parameters of a run that was performed. Results are usually nested under a run.

See https://benchling.com/api/reference#/Assay%20Runs

property blobs: BlobService¶

Blobs.

Blobs are opaque files that can be linked to other items in Benchling, like assay runs or results. For example, you can upload a blob, then upload an assay result that links to that blob by ID. The blob will then appear as part of the assay result in the Benchling web UI.

See https://benchling.com/api/reference#/Blobs

property boxes: BoxService¶

Boxes.

Boxes are a structured storage type, consisting of a grid of positions that can each hold one container. Unlike locations, there are a maximum number of containers that a box can hold (one per position).

Boxes are all associated with schemas, which define the type of the box (e.g. “10x10 Cryo Box”) along with the fields that are tracked and the dimensions of the box.

Like all storage, every Box has a barcode that is unique across the registry.

See https://benchling.com/api/reference#/Boxes

property codon_usage_tables: CodonUsageTableService¶

Codon Usage Tables.

Benchling curates codon usage data for a variety of organisms to support operations such as Codon Optimization and Back Translation.

See https://benchling.com/api/reference#/Codon%20Usage%20Tables

property containers: ContainerService¶

Containers.

Containers are the backbone of sample management in Benchling. They represent physical containers, such as tubes or wells, that hold quantities of biological samples (represented by the batches inside the container). The container itself tracks its total volume, and the concentration of every batch inside of it.

Containers are all associated with schemas, which define the type of the container (e.g. “Tube”) along with the fields that are tracked.

Like all storage, every container has a barcode that is unique across the registry.

See https://benchling.com/api/reference#/Containers

property custom_entities: CustomEntityService¶

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/reference#/Custom%20Entities

property custom_notations: CustomNotationService¶

Custom Notations.

Benchling allows users to configure their own fully-custom string representation formats for import/export of nucleotide sequences (including chemical modifications).

See https://benchling.com/api/reference#/Custom%20Notations

property dna_alignments: DnaAlignmentsService¶

DNA Alignments.

A DNA alignment is a Benchling object representing an alignment of multiple DNA sequences.

See https://benchling.com/api/reference#/DNA%20Alignments

property dna_oligos: DnaOligoService¶

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/reference#/DNA%20Oligos

property dna_sequences: DnaSequenceService¶

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/reference#/DNA%20Sequences

property dropdowns: DropdownService¶

Dropdowns.

Dropdowns are registry-wide enums. Use dropdowns to standardize on spelling and naming conventions, especially for important metadata like resistance markers.

See https://benchling.com/api/reference#/Dropdowns

property entities: 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

property entries: EntryService¶

Entries.

Entries are rich text documents that allow you to capture all of your experimental data in one place.

See https://benchling.com/api/reference#/Entries

property enzymes: EnzymeService¶

Enzymes.

Restriction enzymes are curated by Benchling for operations such as Digests and Codon Optimization.

See https://benchling.com/api/reference#/Enzymes

property events: EventService¶

Events.

The Events system allows external services to subscribe to events that are triggered in Benchling (e.g. plasmid registration, request submission, etc).

See https://benchling.com/api/reference#/Events

property exports: ExportService¶

Exports.

Export a Notebook Entry.

See https://benchling.com/api/reference#/Exports

property feature_libraries: FeatureLibraryService¶

Feature Libraries.

Feature Libraries are collections of shared canonical patterns that can be used to generate annotations on matching regions of DNA Sequences or AA Sequences.

See https://benchling.com/api/reference#/Feature%20Libraries

property folders: FolderService¶

Folders.

Manage folder objects.

See https://benchling.com/api/reference#/Folders

property instrument_queries: InstrumentQueryService¶

Instrument Queries.

Instrument Queries are used to query the instrument service.

See https://benchling.com/api/reference#/Instrument%20Queries

property inventory: InventoryService¶

Inventory.

Manage inventory wide objects.

See https://benchling.com/api/reference#/Inventory

property lab_automation: LabAutomationService¶

Lab Automation.

Lab Automation endpoints support integration with lab instruments, and liquid handlers to create samples or results, and capture transfers between containers at scale.

See https://benchling.com/api/reference#/Lab%20Automation

property label_templates: LabelTemplateService¶

Label Templates.

List label templates.

See https://benchling.com/api/reference#/Label%20Templates

property locations: LocationService¶

Locations.

Manage locations objects. Like all storage, every Location has a barcode that is unique across the registry.

See https://benchling.com/api/reference#/Locations

property mixtures: MixtureService¶

Mixtures.

Mixtures are solutions comprised of multiple ingredients where the exact quantities of each ingredient are important to track. Each ingredient is uniquely identified by its component entity.

See https://benchling.com/api/reference#/Mixtures

property molecules: MoleculeService¶

Molecules.

Molecules are groups of atoms held together by bonds, representing entities smaller than DNA Sequences and AA Sequences. Just like other entities, they support schemas, tags, and aliases.

See https://benchling.com/api/reference#/Molecules

property monomers: MonomerService¶

Monomers.

Monomers are chemical building blocks with specified structures used to compose modified nucleotides. Note that monomer write endpoints require tenant admin permissions.

See https://benchling.com/api/reference#/Monomers

property nucleotide_alignments: NucleotideAlignmentsService¶

Nucleotide Alignments.

A Nucleotide Alignment is a Benchling object representing an alignment of multiple DNA and/or RNA sequences.

See https://benchling.com/api/reference#/Nucleotide%20Alignments

property oligos: OligoService¶

Oligos.

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.

Please migrate to the corresponding DNA Oligos endpoints so that we can support RNA Oligos.

See https://benchling.com/api/reference#/Oligos

property organizations: OrganizationService¶

Organizations.

View organization objects.

See https://benchling.com/api/reference#/Organizations

property plates: PlateService¶

Plates.

Plates are a structured storage type, grids of wells that each function like containers. Plates come in two types: a traditional “fixed” type, where the wells cannot move, and a “matrix” type. A matrix plate has similar functionality to a box, where the containers inside can be moved around and removed altogether.

Plates are all associated with schemas, which define the type of the plate (e.g. “96 Well Plate”) along with the fields that are tracked, the dimensions of the plate, and whether or not the plate is a matrix plate or a traditional well plate.

Like all storage, every Plate has a barcode that is unique across the registry.

See https://benchling.com/api/reference#/Plates

property printers: PrinterService¶

Printers.

List printers.

See https://benchling.com/api/reference#/Printers

property projects: ProjectService¶

Projects.

Manage project objects.

See https://benchling.com/api/reference#/Projects

property registry: RegistryService¶

Registry.

Manage registry objects.

See https://benchling.com/api/reference#/Registry

property requests: RequestService¶

Requests.

Requests allow scientists and teams to collaborate around experimental assays and workflows.

See https://benchling.com/api/reference#/Requests

property rna_oligos: RnaOligoService¶

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/reference#/RNA%20Oligos

property rna_sequences: RnaSequenceService¶

RNA Sequences.

Chains of linear, single stranded RNA that support most capabilities and attributes of DNA Sequences.

See https://benchling.com/api/reference#/RNA%20Sequences

property schemas: SchemaService¶

Schemas.

Schemas represent custom configuration of objects in Benchling. See https://docs.benchling.com/docs/schemas in our documentation on how Schemas impact our developers

See https://benchling.com/api/reference#/Schemas

property tasks: TaskService¶

Tasks.

Endpoints that perform expensive computations launch long-running tasks. These endpoints return the task ID (a UUID) in the response body.

After launching a task, periodically invoke the Get a task endpoint with the task UUID (e.g., every 10 seconds), until the status is no longer RUNNING.

You can access a task for up to 30 minutes after its completion, after which its data will no longer be available.

See https://benchling.com/api/reference#/Tasks

property teams: TeamService¶

Teams.

View team objects.

See https://benchling.com/api/reference#/Teams

property users: UserService¶

Benchling users.

See https://benchling.com/api/reference#/Users

property warehouse: WarehouseService¶

Warehouse.

Manage warehouse credentials.