hapi-fhir-cli for upload of custom terminology

[ozhyrenkov]

Hello,
Recently I set up a new fresh installation of Snowowl and trying to upload few basic terminologies using popular hapi-fhir-cli tool:

hapi-fhir-cli upload-terminology  -b PROMPT -l -s 1GB -d Loinc_2.72.zip -v r4 -u http://loinc.org -t http://myserver:8080/snowowl/fhir 

However this gives me an error which makes me think fhir/CodeSystem/$upload-external-code-system is not implemented in SnowOwl or I might be doing something totally wrong.

Could anyone please advise me whether I am doing something wrong or what is the way to upload e.g. official Loinc terminology package?

Stacktrace:

hapi-fhir-cli upload-terminology  -b PROMPT -l -s 1GB -d Loinc_2.72.zip -v r4 -u http://loinc.org -t http://myserver:8080/snowowl/fhir
------------------------------------------------------------
🔥  HAPI FHIR 6.4.4 - Command Line Tool
------------------------------------------------------------
Max configured JVM memory (Xmx) : 4.0GB
Detected Java version           : 20.0.1
------------------------------------------------------------
2023-06-02 00:05:49.88 [main] INFO  c.u.f.c.LogbackUtil Logging configuration set from file /logback-cli-on.xml
Enter Basic Auth Credentials (format is "username:password"):
2023-06-02 00:05:57.95 [main] INFO  c.u.f.c.UploadTerminologyCommand Reading /Users/$me/Downloads/Loinc_2.72.zip
2023-06-02 00:05:57.95 [main] INFO  c.u.f.c.UploadTerminologyCommand Adding ZIP file: Loinc_2.72.zip
2023-06-02 00:05:59.33 [main] INFO  c.u.f.c.UploadTerminologyCommand Beginning upload - This may take a while...
2023-06-02 00:06:02.08 [main] ERROR ca.uhn.fhir.cli.App Error during execution:
ca.uhn.fhir.rest.client.exceptions.FhirClientConnectionException: HAPI-1361: Failed to parse response from server when performing POST to URL http://myserver:8080/snowowl/fhir/CodeSystem/$upload-external-code-system - java.net.SocketException: Broken pipe
	at ca.uhn.fhir.rest.client.impl.BaseClient.invokeClient(BaseClient.java:419)
	at ca.uhn.fhir.rest.client.impl.GenericClient$BaseClientExecutable.invoke(GenericClient.java:541)
	at ca.uhn.fhir.rest.client.impl.GenericClient$OperationInternal.execute(GenericClient.java:1320)
	at ca.uhn.fhir.cli.UploadTerminologyCommand.invokeOperation(UploadTerminologyCommand.java:230)
	at ca.uhn.fhir.cli.UploadTerminologyCommand.run(UploadTerminologyCommand.java:134)
	at ca.uhn.fhir.cli.BaseApp.run(BaseApp.java:266)
	at ca.uhn.fhir.cli.App.main(App.java:43)
Caused by: java.net.SocketException: Broken pipe
	at java.base/sun.nio.ch.NioSocketImpl.implWrite(NioSocketImpl.java:413)
	at java.base/sun.nio.ch.NioSocketImpl.write(NioSocketImpl.java:433)
	at java.base/sun.nio.ch.NioSocketImpl$2.write(NioSocketImpl.java:812)
	at java.base/java.net.Socket$SocketOutputStream.write(Socket.java:1120)
	at org.apache.http.impl.io.SessionOutputBufferImpl.streamWrite(SessionOutputBufferImpl.java:124)
	at org.apache.http.impl.io.SessionOutputBufferImpl.write(SessionOutputBufferImpl.java:160)
	at org.apache.http.impl.io.ContentLengthOutputStream.write(ContentLengthOutputStream.java:113)
	at org.apache.http.entity.ByteArrayEntity.writeTo(ByteArrayEntity.java:112)
	at org.apache.http.impl.DefaultBHttpClientConnection.sendRequestEntity(DefaultBHttpClientConnection.java:156)
	at org.apache.http.impl.conn.CPoolProxy.sendRequestEntity(CPoolProxy.java:152)
	at org.apache.http.protocol.HttpRequestExecutor.doSendRequest(HttpRequestExecutor.java:238)
	at org.apache.http.protocol.HttpRequestExecutor.execute(HttpRequestExecutor.java:123)
	at org.apache.http.impl.execchain.MainClientExec.execute(MainClientExec.java:272)
	at org.apache.http.impl.execchain.ProtocolExec.execute(ProtocolExec.java:186)
	at org.apache.http.impl.execchain.RetryExec.execute(RetryExec.java:89)
	at org.apache.http.impl.execchain.RedirectExec.execute(RedirectExec.java:110)
	at org.apache.http.impl.client.InternalHttpClient.doExecute(InternalHttpClient.java:185)
	at org.apache.http.impl.client.CloseableHttpClient.execute(CloseableHttpClient.java:83)
	at org.apache.http.impl.client.CloseableHttpClient.execute(CloseableHttpClient.java:108)
	at org.apache.http.impl.client.CloseableHttpClient.execute(CloseableHttpClient.java:56)
	at ca.uhn.fhir.rest.client.apache.ApacheHttpRequest.execute(ApacheHttpRequest.java:70)
	at ca.uhn.fhir.rest.client.impl.BaseClient.invokeClient(BaseClient.java:322)
	... 6 common frames omitted
2023-06-02 00:06:02.09 [Thread-0] INFO  ca.uhn.fhir.cli.App HAPI FHIR is shutting down...

[cmark]

Hi @ozhyrenkov,

The open-source version of Snow Owl does not support write operations from the FHIR API specification. That requires additional modules and a license of our Snow Owl Pro version. Please contact us here if you'd like to know more.

Best,
Mark