Cannot transform *class as its containing application archive could not be found

[chris-asl]

I have created an MCVE where I have the classic greeting resource and I've added a Utility class (private constructor w. one static method).

When using jacoco-extension the tests run just fine, but when adding quarkus-smallrye-openapi, dependency, I get these warnings when running tests:

[INFO] Running org.acme.testcoverage.UtilTest
2021-04-26 16:21:52,863 WARN  [io.qua.dep.ste.ClassTransformingBuildStep] (build-33) Cannot transform java.lang.Deprecated as its containing application archive could not be found.
2021-04-26 16:21:52,884 WARN  [io.qua.dep.ste.ClassTransformingBuildStep] (build-33) Cannot transform java.lang.Object as its containing application archive could not be found.
2021-04-26 16:21:52,885 WARN  [io.qua.dep.ste.ClassTransformingBuildStep] (build-33) Cannot transform jdk.internal.HotSpotIntrinsicCandidate as its containing application archive could not be found.
2021-04-26 16:21:52,897 WARN  [io.qua.dep.ste.ClassTransformingBuildStep] (build-33) Cannot transform java.util.Map as its containing application archive could not be found.
2021-04-26 16:21:52,898 WARN  [io.qua.dep.ste.ClassTransformingBuildStep] (build-33) Cannot transform java.lang.SafeVarargs as its containing application archive could not be found.
2021-04-26 16:21:52,928 WARN  [io.qua.dep.ste.ClassTransformingBuildStep] (build-33) Cannot transform java.util.Collection as its containing application archive could not be found.
2021-04-26 16:21:55,075 INFO  [io.quarkus] (main) Quarkus 1.13.2.Final on JVM started in 3.428s. Listening on: http://localhost:8081
2021-04-26 16:21:55,076 INFO  [io.quarkus] (main) Profile test activated. 
2021-04-26 16:21:55,076 INFO  [io.quarkus] (main) Installed features: [cdi, config-yaml, hibernate-validator, jacoco, jaeger, kubernetes-client, logging-gelf, resteasy, resteasy-jackson, smallrye-openapi, smallrye-opentracing, swagger-ui]
[INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.467 s - in org.acme.testcoverage.UtilTest
[INFO] Running org.acme.testcoverage.GreetingResourceTest
[INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.38 s - in org.acme.testcoverage.GreetingResourceTest
2021-04-26 16:21:57,005 INFO  [io.quarkus] (main) Quarkus stopped in 0.029s

Are the warnings valid (and thus I am misusing something)?
Is such a utility class to be avoided in CDI?
In our project, the warning is actually generated in non utility classes, as well.

To Reproduce

Steps to reproduce the behavior:

1. git clone [email protected]:chris-asl/quarkus-jacoco-smallrye-openapi.git
2. ./mvnw clean verify

Configuration

Defaults

Environment:

Output of uname -a or ver

Linux homer 5.8.0-48-generic #54~20.04.1-Ubuntu SMP Sat Mar 20 13:40:25 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux

Output of java -version

openjdk version "11.0.10" 2021-01-19
OpenJDK Runtime Environment (build 11.0.10+9-Ubuntu-0ubuntu1.20.04)
OpenJDK 64-Bit Server VM (build 11.0.10+9-Ubuntu-0ubuntu1.20.04, mixed mode, sharing)

Quarkus version or git rev

1.13.2.Final

Build tool (ie. output of mvnw --version or gradlew --version)

Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f)
Maven home: /home/chris/.m2/wrapper/dists/apache-maven-3.6.3-bin/1iopthnavndlasol9gbrbg6bf2/apache-maven-3.6.3
Java version: 11.0.10, vendor: Ubuntu, runtime: /usr/lib/jvm/java-11-openjdk-amd64
Default locale: en_US, platform encoding: UTF-8
OS name: "linux", version: "5.8.0-48-generic", arch: "amd64", family: "unix"

FYI @el10686

[quarkus-bot]

/cc @geoand

[geoand]

Mind sharing a small reproducer?

Thanks

[chris-asl]

@geoand I had posted a reproducer in the OP :-)
[email protected]:chris-asl/quarkus-jacoco-smallrye-openapi.git

Here's the link to the repository https://github.com/chris-asl/quarkus-jacoco-smallrye-openapi

[geoand]

Thanks!

@phillip-kruger mind taking a look please?

[phillip-kruger]

Public holiday today, I'll have a look tomorrow, except if @MikeEdgar wants to have a look today.

[geoand]

Thanks 👍

[phillip-kruger]

@geoand @chris-asl I had a look at this. I am not sure what the issue is, or if it's an OpenAPI issue.

In the OpenAPI extension we add some classes to the index that is not typically there (see

quarkus/extensions/smallrye-openapi/deployment/src/main/java/io/quarkus/smallrye/openapi/deployment/SmallRyeOpenApiProcessor.java

Line 177 in 45b205c

void contributeClassesToIndex(BuildProducer<AdditionalIndexedClassesBuildItem> additionalIndexedClasses) {

)

That might cause the warnings, but the warning comes from somewhere else. Maybe @stuartwdouglas can help ?

[stuartwdouglas]

Pretty sure this is fixed upstream: #16667

[stuartwdouglas]

Hmm, actually that is a different issue: #16666 should be the fix for this one

[phillip-kruger]

Thanks @stuartwdouglas . I'll confirm against upstream.

[phillip-kruger]

Confirmed !! Thanks @stuartwdouglas . Fix and available in 1.13.3.Final