De-identifies data from the source store and writes it to the destination store. The metadata field type is OperationMetadata. If the request is successful, the response field type is DeidentifyFhirStoreSummary. If errors occur, error is set. Error details are also logged to Cloud Logging (see Viewing error logs in Cloud Logging).

Scopes

You will need authorization for at least one of the following scopes to make a valid call:

  • https://www.googleapis.com/auth/cloud-healthcare
  • https://www.googleapis.com/auth/cloud-platform

If unset, the scope for this method defaults to https://www.googleapis.com/auth/cloud-healthcare. You can set the scope for this method like this: healthcare1 --scope <scope> projects locations-datasets-fhir-stores-deidentify ...

Required Scalar Argument

  • <source-store> (string)
    • Required. Source FHIR store resource name. For example, projects/{project_id}/locations/{location_id}/datasets/{dataset_id}/fhirStores/{fhir_store_id}.

Required Request Value

The request value is a data-structure with various fields. Each field may be a simple scalar or another data-structure. In the latter case it is advised to set the field-cursor to the data-structure's field to specify values more concisely.

For example, a structure like this:

DeidentifyFhirStoreRequest:
  config:
    dicom:
      filter-profile: string
      keep-list:
        tags: [string]
      remove-list:
        tags: [string]
      skip-id-redaction: boolean
    fhir:
      default-keep-extensions: boolean
    image:
      text-redaction-mode: string
    text:
      exclude-info-types: [string]
    use-regional-data-processing: boolean
  destination-store: string
  gcs-config-uri: string
  resource-filter:
    resources:
      resources: [string]
  skip-modified-resources: boolean

can be set completely with the following arguments which are assumed to be executed in the given order. Note how the cursor position is adjusted to the respective structures, allowing simple field names to be used most of the time.

  • -r .config.dicom filter-profile=eos
    • Tag filtering profile that determines which tags to keep/remove.

  • keep-list tags=at

    • Tags to be filtered. Tags must be DICOM Data Elements, File Meta Elements, or Directory Structuring Elements, as defined at: http://dicom.nema.org/medical/dicom/current/output/html/part06.html#table_6-1,. They may be provided by "Keyword" or "Tag". For example "PatientID", "00100010".
    • Each invocation of this argument appends the given value to the array.

  • ..remove-list tags=dolores

    • Tags to be filtered. Tags must be DICOM Data Elements, File Meta Elements, or Directory Structuring Elements, as defined at: http://dicom.nema.org/medical/dicom/current/output/html/part06.html#table_6-1,. They may be provided by "Keyword" or "Tag". For example "PatientID", "00100010".
    • Each invocation of this argument appends the given value to the array.

  • .. skip-id-redaction=true

    • If true, skip replacing StudyInstanceUID, SeriesInstanceUID, SOPInstanceUID, and MediaStorageSOPInstanceUID and leave them untouched. The Cloud Healthcare API regenerates these UIDs by default based on the DICOM Standard's reasoning: "Whilst these UIDs cannot be mapped directly to an individual out of context, given access to the original images, or to a database of the original images containing the UIDs, it would be possible to recover the individual's identity." http://dicom.nema.org/medical/dicom/current/output/chtml/part15/sect_E.3.9.html

  • ..fhir default-keep-extensions=true

    • The behaviour for handling FHIR extensions that aren't otherwise specified for de-identification. If true, all extensions are preserved during de-identification by default. If false or unspecified, all extensions are removed during de-identification by default.

  • ..image text-redaction-mode=dolor

    • Determines how to redact text from image.

  • ..text exclude-info-types=aliquyam

    • InfoTypes to skip transforming, overriding additional_transformations.
    • Each invocation of this argument appends the given value to the array.

  • .. use-regional-data-processing=true

    • Ensures in-flight data remains in the region of origin during de-identification. Using this option results in a significant reduction of throughput, and is not compatible with LOCATION or ORGANIZATION_NAME infoTypes. LOCATION must be excluded within TextConfig, and must also be excluded within ImageConfig if image redaction is required.

  • .. destination-store=amet.

    • Required. The name of the FHIR store to create and write the redacted data to. For example, projects/{project_id}/locations/{location_id}/datasets/{dataset_id}/fhirStores/{fhir_store_id}. * The destination dataset must exist. * The source dataset and destination dataset must both reside in the same location. De-identifying data across multiple locations is not supported. * The destination FHIR store must exist. * The caller must have the healthcare.fhirResources.update permission to write to the destination FHIR store.
  • gcs-config-uri=ipsum
    • Cloud Storage location to read the JSON cloud.healthcare.deidentify.DeidentifyConfig from, overriding the default config. Must be of the form gs://{bucket_id}/path/to/object. The Cloud Storage location must grant the Cloud IAM role roles/storage.objectViewer to the project's Cloud Healthcare Service Agent service account. Only one of config and gcs_config_uri can be specified.

  • resource-filter.resources resources=lorem

    • List of resources IDs. For example, "Patient/1234".
    • Each invocation of this argument appends the given value to the array.

  • ... skip-modified-resources=false

    • If true, skips resources that are created or modified after the de-identify operation is created.

About Cursors

The cursor position is key to comfortably set complex nested structures. The following rules apply:

  • The cursor position is always set relative to the current one, unless the field name starts with the . character. Fields can be nested such as in -r f.s.o .
  • The cursor position is set relative to the top-level structure if it starts with ., e.g. -r .s.s
  • You can also set nested fields without setting the cursor explicitly. For example, to set a value relative to the current cursor position, you would specify -r struct.sub_struct=bar.
  • You can move the cursor one level up by using ... Each additional . moves it up one additional level. E.g. ... would go three levels up.

Optional Output Flags

The method's return value a JSON encoded structure, which will be written to standard output by default.

  • -o out
    • out specifies the destination to which to write the server's result to. It will be a JSON-encoded structure. The destination may be - to indicate standard output, or a filepath that is to contain the received bytes. If unset, it defaults to standard output.

Optional General Properties

The following properties can configure any call, and are not specific to this method.

  • -p $-xgafv=string

    • V1 error format.

  • -p access-token=string

    • OAuth access token.

  • -p alt=string

    • Data format for response.

  • -p callback=string

    • JSONP

  • -p fields=string

    • Selector specifying which fields to include in a partial response.

  • -p key=string

    • API key. Your API key identifies your project and provides you with API access, quota, and reports. Required unless you provide an OAuth 2.0 token.

  • -p oauth-token=string

    • OAuth 2.0 token for the current user.

  • -p pretty-print=boolean

    • Returns response with indentations and line breaks.

  • -p quota-user=string

    • Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters.

  • -p upload-type=string

    • Legacy upload protocol for media (e.g. "media", "multipart").

  • -p upload-protocol=string

    • Upload protocol for media (e.g. "raw", "multipart").