omics {paws.storage}

Amazon Omics

Description

This is the AWS HealthOmics API Reference. For an introduction to the service, see What is AWS HealthOmics? in the AWS HealthOmics User Guide.

Usage

omics(config = list(), credentials = list(), endpoint = NULL, region = NULL)

Arguments

config

Optional configuration of credentials, endpoint, and/or region.

• credentials:

  • creds:

    • access_key_id: AWS access key ID

    • secret_access_key: AWS secret access key

    • session_token: AWS temporary session token

  • profile: The name of a profile to use. If not given, then the default profile is used.

  • anonymous: Set anonymous credentials.

• endpoint: The complete URL to use for the constructed client.

• region: The AWS Region used in instantiating the client.

• close_connection: Immediately close all HTTP connections.

• timeout: The time in seconds till a timeout exception is thrown when attempting to make a connection. The default is 60 seconds.

• s3_force_path_style: Set this to true to force the request to use path-style addressing, i.e. ⁠http://s3.amazonaws.com/BUCKET/KEY⁠.

• sts_regional_endpoint: Set sts regional endpoint resolver to regional or legacy https://docs.aws.amazon.com/sdkref/latest/guide/feature-sts-regionalized-endpoints.html

credentials

Optional credentials shorthand for the config parameter

• creds:

  • access_key_id: AWS access key ID

  • secret_access_key: AWS secret access key

  • session_token: AWS temporary session token

• profile: The name of a profile to use. If not given, then the default profile is used.

• anonymous: Set anonymous credentials.

endpoint

Optional shorthand for complete URL to use for the constructed client.

region

Optional shorthand for AWS Region used in instantiating the client.

Value

A client for the service. You can call the service's operations using syntax like svc$operation(...), where svc is the name you've assigned to the client. The available operations are listed in the Operations section.

Service syntax

svc <- omics(
  config = list(
    credentials = list(
      creds = list(
        access_key_id = "string",
        secret_access_key = "string",
        session_token = "string"
      ),
      profile = "string",
      anonymous = "logical"
    ),
    endpoint = "string",
    region = "string",
    close_connection = "logical",
    timeout = "numeric",
    s3_force_path_style = "logical",
    sts_regional_endpoint = "string"
  ),
  credentials = list(
    creds = list(
      access_key_id = "string",
      secret_access_key = "string",
      session_token = "string"
    ),
    profile = "string",
    anonymous = "logical"
  ),
  endpoint = "string",
  region = "string"
)

Operations

abort_multipart_read_set_upload	Stops a multipart upload
accept_share	Accept a resource share request
batch_delete_read_set	Deletes one or more read sets
cancel_annotation_import_job	Cancels an annotation import job
cancel_run	Cancels a run
cancel_variant_import_job	Cancels a variant import job
complete_multipart_read_set_upload	Concludes a multipart upload once you have uploaded all the components
create_annotation_store	Creates an annotation store
create_annotation_store_version	Creates a new version of an annotation store
create_multipart_read_set_upload	Begins a multipart read set upload
create_reference_store	Creates a reference store
create_run_group	Creates a run group
create_sequence_store	Creates a sequence store
create_share	Creates a cross-account shared resource
create_variant_store	Creates a variant store
create_workflow	Creates a workflow
delete_annotation_store	Deletes an annotation store
delete_annotation_store_versions	Deletes one or multiple versions of an annotation store
delete_reference	Deletes a genome reference
delete_reference_store	Deletes a genome reference store
delete_run	Deletes a workflow run
delete_run_group	Deletes a workflow run group
delete_sequence_store	Deletes a sequence store
delete_share	Deletes a resource share
delete_variant_store	Deletes a variant store
delete_workflow	Deletes a workflow
get_annotation_import_job	Gets information about an annotation import job
get_annotation_store	Gets information about an annotation store
get_annotation_store_version	Retrieves the metadata for an annotation store version
get_read_set	Gets a file from a read set
get_read_set_activation_job	Gets information about a read set activation job
get_read_set_export_job	Gets information about a read set export job
get_read_set_import_job	Gets information about a read set import job
get_read_set_metadata	Gets details about a read set
get_reference	Gets a reference file
get_reference_import_job	Gets information about a reference import job
get_reference_metadata	Gets information about a genome reference's metadata
get_reference_store	Gets information about a reference store
get_run	Gets information about a workflow run
get_run_group	Gets information about a workflow run group
get_run_task	Gets information about a workflow run task
get_sequence_store	Gets information about a sequence store
get_share	Retrieves the metadata for the specified resource share
get_variant_import_job	Gets information about a variant import job
get_variant_store	Gets information about a variant store
get_workflow	Gets information about a workflow
list_annotation_import_jobs	Retrieves a list of annotation import jobs
list_annotation_stores	Retrieves a list of annotation stores
list_annotation_store_versions	Lists the versions of an annotation store
list_multipart_read_set_uploads	Lists multipart read set uploads and for in progress uploads
list_read_set_activation_jobs	Retrieves a list of read set activation jobs
list_read_set_export_jobs	Retrieves a list of read set export jobs
list_read_set_import_jobs	Retrieves a list of read set import jobs
list_read_sets	Retrieves a list of read sets
list_read_set_upload_parts	This operation will list all parts in a requested multipart upload for a sequence store
list_reference_import_jobs	Retrieves a list of reference import jobs
list_references	Retrieves a list of references
list_reference_stores	Retrieves a list of reference stores
list_run_groups	Retrieves a list of run groups
list_runs	Retrieves a list of runs
list_run_tasks	Retrieves a list of tasks for a run
list_sequence_stores	Retrieves a list of sequence stores
list_shares	Retrieves the resource shares associated with an account
list_tags_for_resource	Retrieves a list of tags for a resource
list_variant_import_jobs	Retrieves a list of variant import jobs
list_variant_stores	Retrieves a list of variant stores
list_workflows	Retrieves a list of workflows
start_annotation_import_job	Starts an annotation import job
start_read_set_activation_job	Activates an archived read set
start_read_set_export_job	Exports a read set to Amazon S3
start_read_set_import_job	Starts a read set import job
start_reference_import_job	Starts a reference import job
start_run	Starts a workflow run
start_variant_import_job	Starts a variant import job
tag_resource	Tags a resource
untag_resource	Removes tags from a resource
update_annotation_store	Updates an annotation store
update_annotation_store_version	Updates the description of an annotation store version
update_run_group	Updates a run group
update_variant_store	Updates a variant store
update_workflow	Updates a workflow
upload_read_set_part	This operation uploads a specific part of a read set

Examples

## Not run: 
svc <- omics()
svc$abort_multipart_read_set_upload(
  Foo = 123
)

## End(Not run)