org.apache.beam.sdk.io.gcp.healthcare

Class HL7v2IO

java.lang.Object

org.apache.beam.sdk.io.gcp.healthcare.HL7v2IO

public class HL7v2IO
extends java.lang.Object

HL7v2IO provides an API for reading from and writing to Google Cloud Healthcare HL7v2 API.

Read

HL7v2 Messages can be fetched from the HL7v2 store in two ways Message Fetching and Message Listing.

Message Fetching

Message Fetching with HL7v2IO.Read supports use cases where you have a $PCollection of message IDS. This is appropriate for reading the HL7v2 notifications from a Pub/Sub subscription with PubsubIO.readStrings() or in cases where you have a manually prepared list of messages that you need to process (e.g. in a text file read with TextIO) .

Fetch Message contents from HL7v2 Store based on the PCollection of message ID strings HL7v2IO.Read.Result where one can call HL7v2IO.Read.Result.getMessages() to retrived a PCollection containing the successfully fetched HL7v2Messages and/or HL7v2IO.Read.Result.getFailedReads() to retrieve a PCollection of HealthcareIOError containing the msgID that could not be fetched and the exception as a HealthcareIOError, this can be used to write to the dead letter storage system of your choosing. This error handling is mainly to catch scenarios where the upstream PCollection contains IDs that are not valid or are not reachable due to permissions issues.

Message Listing Message Listing with HL7v2IO.ListHL7v2Messages supports batch use cases where you want to process all the messages in an HL7v2 store or those matching a filter

See Also:

https://cloud.google.com/healthcare/docs/reference/rest/v1/projects.locations.datasets.hl7V2Stores.messages/list#query-parameters This paginates through results of a Messages.List call @see https://cloud.google.com/healthcare/docs/reference/rest/v1/projects.locations.datasets.hl7V2Stores.messages/list and outputs directly to a {@link PCollection} of {@link HL7v2Message}. In these use cases, the error handling similar to above is unnecessary because we are listing from the source of truth the pipeline should fail transparently if this transform fails to paginate through all the results.

Write

A bounded or unbounded {@link PCollection} of {@link HL7v2Message} can be ingested into an HL7v2 store using {@link HL7v2IO#ingestMessages(String)}. This will return a {@link HL7v2IO.Write.Result} on which you can call {@link Write.Result#getFailedInsertsWithErr()} to retrieve a {@link PCollection} of {@link HealthcareIOError} containing the {@link HL7v2Message} that failed to be ingested and the exception. This can be used to write to the dead letter storage system of your chosing.

Unbounded Read Example:

{@code
 PipelineOptions options = ...;
 Pipeline p = Pipeline.create(options);

 HL7v2IO.Read.Result readResult = p
   .apply(
     "Read HL7v2 notifications",
     PubsubIO.readStrings().fromSubscription(options.getNotificationSubscription()))
   .apply(HL7v2IO.getAll());

 // Write errors to your favorite dead letter  queue (e.g. Pub/Sub, GCS, BigQuery)
 readResult.getFailedReads().apply("WriteToDeadLetterQueue", ...);


 // Go about your happy path transformations.
 PCollection out = readResult.getMessages().apply("ProcessFetchedMessages", ...);

 // Write using the Message.Ingest method of the HL7v2 REST API.
 out.apply(HL7v2IO.ingestMessages(options.getOutputHL7v2Store()));

 pipeline.run();

 }***
 

Bounded Read Example:

{@code
 PipelineOptions options = ...;
 Pipeline p = Pipeline.create(options);

 PCollection out = p
   .apply(
       "List messages in HL7v2 store with filter",
       ListHL7v2Messages(
           Collections.singletonList(options.getInputHL7v2Store()), option.getHL7v2Filter()))
    // Go about your happy path transformations.
   .apply("Process HL7v2 Messages", ...);
 pipeline.run().waitUntilFinish();
 }***
 

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	HL7v2IO.ListHL7v2Messages List HL7v2 messages in HL7v2 Stores with optional filter.
static class	HL7v2IO.Read The type Read that reads HL7v2 message contents given a PCollection of message IDs strings.
static class	HL7v2IO.Write The type Write that writes the given PCollection of HL7v2 messages.

Constructor Summary

Constructors

Constructor and Description
HL7v2IO()

Method Summary

Modifier and Type	Method and Description
static HL7v2IO.Read	getAll() Retrieve all HL7v2 Messages from a PCollection of message IDs (such as from PubSub notification subscription).
static HL7v2IO.Write	ingestMessages(java.lang.String hl7v2Store) Write with Messages.Ingest method.
static HL7v2IO.ListHL7v2Messages	read(java.lang.String hl7v2Store) Read all HL7v2 Messages from a single store.
static HL7v2IO.ListHL7v2Messages	read(ValueProvider<java.lang.String> hl7v2Store) Read all HL7v2 Messages from a single store.
static HL7v2IO.ListHL7v2Messages	readAll(java.util.List<java.lang.String> hl7v2Stores) Read all HL7v2 Messages from multiple stores.
static HL7v2IO.ListHL7v2Messages	readAll(ValueProvider<java.util.List<java.lang.String>> hl7v2Stores) Read all HL7v2 Messages from multiple stores.
static HL7v2IO.ListHL7v2Messages	readAllWithFilter(java.util.List<java.lang.String> hl7v2Stores, java.lang.String filter) Read all HL7v2 Messages from a multiple stores matching a filter.
static HL7v2IO.ListHL7v2Messages	readAllWithFilter(ValueProvider<java.util.List<java.lang.String>> hl7v2Stores, ValueProvider<java.lang.String> filter) Read all HL7v2 Messages from a multiple stores matching a filter.
static HL7v2IO.ListHL7v2Messages	readWithFilter(java.lang.String hl7v2Store, java.lang.String filter) Read all HL7v2 Messages from a single store matching a filter.
static HL7v2IO.ListHL7v2Messages	readWithFilter(ValueProvider<java.lang.String> hl7v2Store, ValueProvider<java.lang.String> filter) Read all HL7v2 Messages from a single store matching a filter.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

HL7v2IO

public HL7v2IO()

Method Detail

getAll

public static HL7v2IO.Read getAll()

Retrieve all HL7v2 Messages from a PCollection of message IDs (such as from PubSub notification subscription).

readAll

public static HL7v2IO.ListHL7v2Messages readAll(java.util.List<java.lang.String> hl7v2Stores)

Read all HL7v2 Messages from multiple stores.

readAll

public static HL7v2IO.ListHL7v2Messages readAll(ValueProvider<java.util.List<java.lang.String>> hl7v2Stores)

Read all HL7v2 Messages from multiple stores.

read

public static HL7v2IO.ListHL7v2Messages read(java.lang.String hl7v2Store)

Read all HL7v2 Messages from a single store.

read

public static HL7v2IO.ListHL7v2Messages read(ValueProvider<java.lang.String> hl7v2Store)

Read all HL7v2 Messages from a single store.

readWithFilter

public static HL7v2IO.ListHL7v2Messages readWithFilter(java.lang.String hl7v2Store,
                                                       java.lang.String filter)

Read all HL7v2 Messages from a single store matching a filter.

See Also:

readWithFilter

public static HL7v2IO.ListHL7v2Messages readWithFilter(ValueProvider<java.lang.String> hl7v2Store,
                                                       ValueProvider<java.lang.String> filter)

Read all HL7v2 Messages from a single store matching a filter.

See Also:

readAllWithFilter

public static HL7v2IO.ListHL7v2Messages readAllWithFilter(java.util.List<java.lang.String> hl7v2Stores,
                                                          java.lang.String filter)

Read all HL7v2 Messages from a multiple stores matching a filter.

See Also:

readAllWithFilter

public static HL7v2IO.ListHL7v2Messages readAllWithFilter(ValueProvider<java.util.List<java.lang.String>> hl7v2Stores,
                                                          ValueProvider<java.lang.String> filter)

Read all HL7v2 Messages from a multiple stores matching a filter.

See Also:

ingestMessages

public static HL7v2IO.Write ingestMessages(java.lang.String hl7v2Store)

Write with Messages.Ingest method. @see

Parameters:

hl7v2Store - the hl 7 v 2 store

Returns:

the write