added codecov GH action

.github/workflows/codecov.yml

@@ -0,0 +1,24 @@
+# This is based on:
+# https://github.com/codecov/example-java-maven/blob/main/.github/workflows/ci.yml
+name: Codecov
+on: [push, pull_request]
+jobs:
+  run:
+    runs-on: ubuntu-latest
+    steps:
+    - name: Checkout
+      uses: actions/checkout@v4
+    - name: Set up JDK 17
+      uses: actions/setup-java@v1
+      with:
+        java-version: 17
+    - name: Install dependencies
+      run: mvn install -DskipTests=true -Dmaven.javadoc.skip=true -B -V
+    - name: Run tests and collect coverage
+      run: mvn -B test
+    - name: Upload coverage to Codecov
+      uses: codecov/codecov-action@v4
+      env:
+        # To find this token, and how it is stored in the repo, see:
+        # https://docs.codecov.com/docs/adding-the-codecov-token
+        CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}

cloudbuild.yaml

@@ -34,17 +34,6 @@ steps:
   - mvn --no-transfer-progress -e install -Dlicense.skip=true -Dspotless.apply.skip=true
   waitFor: ['-']
 
-# - name: 'gcr.io/cloud-builders/curl'
-#   id: 'Upload coverage reports to codecov.io'
-#   entrypoint: bash
-#   args: ['-c', 'bash <(curl -s https://codecov.io/bash)']
-#   env:
-#     - 'VCS_COMMIT_ID=$COMMIT_SHA'
-#     - 'VCS_BRANCH_NAME=$BRANCH_NAME'
-#     - 'VCS_PULL_REQUEST=$_PR_NUMBER'
-#     - 'CI_BUILD_ID=$BUILD_ID'
-#     - 'CODECOV_TOKEN=$_CODECOV_TOKEN' # This token is generated when you setup your repo on codecov: https://docs.codecov.com/docs
-
 - name: 'gcr.io/cloud-builders/docker'
   id: 'Build Uploader Image'
   entrypoint: /bin/bash

coverage/pom.xml

@@ -0,0 +1,109 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!--
+    Copyright 2020-2023 Google LLC
+    Licensed under the Apache License, Version 2.0 (the "License");
+    you may not use this file except in compliance with the License.
+    You may obtain a copy of the License at
+         http://www.apache.org/licenses/LICENSE-2.0
+    Unless required by applicable law or agreed to in writing, software
+    distributed under the License is distributed on an "AS IS" BASIS,
+    WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+    See the License for the specific language governing permissions and
+    limitations under the License.
+-->
+<project xmlns="http://maven.apache.org/POM/4.0.0"
+    xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
+    xsi:schemaLocation="http://maven.apache.org/POM/4.0.0
+    http://maven.apache.org/maven-v4_0_0.xsd">
+  <modelVersion>4.0.0</modelVersion>
+
+  <parent>
+    <groupId>com.google.fhir.analytics</groupId>
+    <artifactId>root</artifactId>
+    <version>0.2.7-SNAPSHOT</version>
+  </parent>
+
+  <groupId>org.openmrs.analytics</groupId>
+  <artifactId>coverage</artifactId>
+  <name>coverage</name>
+  <description>Compute aggregated test code coverage</description>
+  <packaging>pom</packaging>
+
+  <properties>
+    <maven.deploy.skip>true</maven.deploy.skip>
+  </properties>
+
+  <dependencies>
+    <dependency>
+      <groupId>com.cerner.bunsen</groupId>
+      <artifactId>bunsen-avro</artifactId>
+      <version>0.5.14-SNAPSHOT</version>
+    </dependency>
+
+    <dependency>
+      <groupId>com.cerner.bunsen</groupId>
+      <artifactId>bunsen-core</artifactId>
+      <version>0.5.14-SNAPSHOT</version>
+    </dependency>
+
+    <dependency>
+      <groupId>com.cerner.bunsen</groupId>
+      <artifactId>bunsen-core-r4</artifactId>
+      <version>0.5.14-SNAPSHOT</version>
+    </dependency>
+
+    <dependency>
+      <groupId>com.cerner.bunsen</groupId>
+      <artifactId>bunsen-core-stu3</artifactId>
+      <version>0.5.14-SNAPSHOT</version>
+    </dependency>
+
+    <dependency>
+      <groupId>com.cerner.bunsen</groupId>
+      <artifactId>bunsen-uscore-resources</artifactId>
+      <version>0.5.14-SNAPSHOT</version>
+    </dependency>
+    <dependency>
+      <groupId>com.google.fhir.analytics</groupId>
+      <artifactId>batch</artifactId>
+      <version>${project.parent.version}</version>
+    </dependency>
+
+    <dependency>
+      <groupId>com.google.fhir.analytics</groupId>
+      <artifactId>common</artifactId>
+      <version>${project.parent.version}</version>
+    </dependency>
+
+    <dependency>
+      <groupId>com.google.fhir.analytics</groupId>
+      <artifactId>controller</artifactId>
+      <version>${project.parent.version}</version>
+    </dependency>
+
+    <dependency>
+      <groupId>com.google.fhir.analytics</groupId>
+      <artifactId>streaming</artifactId>
+      <version>${project.parent.version}</version>
+    </dependency>
+  </dependencies>
+
+  <build>
+    <plugins>
+      <plugin>
+        <groupId>org.jacoco</groupId>
+        <artifactId>jacoco-maven-plugin</artifactId>
+        <executions>
+          <execution>
+            <id>report-aggregate</id>
+            <phase>verify</phase>
+            <goals>
+              <goal>report-aggregate</goal>
+            </goals>
+          </execution>
+        </executions>
+      </plugin>
+    </plugins>
+  </build>
+
+</project>

pom.xml

@@ -27,6 +27,9 @@
   <modules>
     <module>bunsen</module>
     <module>pipelines</module>
+    <!-- This module is only for collecting all coverage data, see:
+      https://github.com/jacoco/jacoco/wiki/MavenMultiModule -->
+    <module>coverage</module>
   </modules>
 
   <properties>