pom.xml

<?xml version="1.0" encoding="UTF-8"?>
<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
                             https://maven.apache.org/xsd/maven-4.0.0.xsd">
    <modelVersion>4.0.0</modelVersion>

    <groupId>org.mskcc.oncokb.curation</groupId>
    <artifactId>oncokb-curation</artifactId>
    <version>2.0.11</version>
    <packaging>jar</packaging>
    <name>OncoKB Curation</name>
    <description>Description for oncokb-curation</description>

    <repositories>
        <!-- jhipster-needle-maven-repository -->
        <repository>
            <id>jitpack.io</id>
            <url>https://jitpack.io</url>
        </repository>
    </repositories>

    <pluginRepositories>
        <!-- jhipster-needle-maven-plugin-repository -->
    </pluginRepositories>

    <!-- jhipster-needle-distribution-management -->

    <properties>
        <!-- Build properties -->
        <maven.version>3.3.9</maven.version>
        <java.version>11</java.version>
        <node.version>v20.12.2</node.version>
        <yarn.version>v1.22.22</yarn.version>

        <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
        <project.reporting.outputEncoding>UTF-8</project.reporting.outputEncoding>
        <maven.build.timestamp.format>yyyyMMddHHmmss</maven.build.timestamp.format>
        <maven.compiler.source>${java.version}</maven.compiler.source>
        <maven.compiler.target>${java.version}</maven.compiler.target>
        <start-class>org.mskcc.oncokb.curation.OncokbCurationApp</start-class>
        <argLine>-Djava.security.egd=file:/dev/./urandom -Xmx256m</argLine>
        <m2e.apt.activation>jdt_apt</m2e.apt.activation>
        <run.addResources>false</run.addResources>
        <!-- These remain empty unless the corresponding profile is active -->
        <profile.no-liquibase />
        <profile.api-docs />
        <profile.tls />

        <!-- Dependency versions -->
        <jhipster-dependencies.version>7.2.0</jhipster-dependencies.version>
        <!-- The spring-boot version should match the one managed by
        https://mvnrepository.com/artifact/tech.jhipster/jhipster-dependencies/${jhipster-dependencies.version} -->
        <spring-boot.version>2.5.4</spring-boot.version>
        <!-- The hibernate version should match the one managed by
        https://mvnrepository.com/artifact/org.springframework.boot/spring-boot-dependencies/${spring-boot.version} -->
        <hibernate.version>5.4.32.Final</hibernate.version>
        <!-- The javassist version should match the one managed by
        https://mvnrepository.com/artifact/org.hibernate/hibernate-core/${hibernate.version} -->
        <javassist.version>3.27.0-GA</javassist.version>
        <!-- The liquibase version should match the one managed by
        https://mvnrepository.com/artifact/org.springframework.boot/spring-boot-dependencies/${spring-boot.version} -->
        <liquibase.version>4.4.3</liquibase.version>
        <liquibase-hibernate5.version>4.4.3</liquibase-hibernate5.version>
        <validation-api.version>2.0.1.Final</validation-api.version>
        <jaxb-runtime.version>2.3.3</jaxb-runtime.version>
        <archunit-junit5.version>0.21.0</archunit-junit5.version>
        <mapstruct.version>1.4.2.Final</mapstruct.version>
        <javers.version>6.5.3</javers.version>
        <!-- Plugin versions -->
        <maven-clean-plugin.version>3.1.0</maven-clean-plugin.version>
        <maven-site-plugin.version>3.9.1</maven-site-plugin.version>
        <maven-compiler-plugin.version>3.8.1</maven-compiler-plugin.version>
        <maven-javadoc-plugin.version>3.3.1</maven-javadoc-plugin.version>
        <maven-eclipse-plugin.version>2.10</maven-eclipse-plugin.version>
        <maven-enforcer-plugin.version>3.0.0</maven-enforcer-plugin.version>
        <maven-failsafe-plugin.version>3.0.0-M5</maven-failsafe-plugin.version>
        <maven-idea-plugin.version>2.2.1</maven-idea-plugin.version>
        <maven-resources-plugin.version>3.2.0</maven-resources-plugin.version>
        <maven-surefire-plugin.version>3.0.0-M5</maven-surefire-plugin.version>
        <maven-war-plugin.version>3.3.1</maven-war-plugin.version>
        <maven-checkstyle-plugin.version>3.1.2</maven-checkstyle-plugin.version>
        <checkstyle.version>9.0</checkstyle.version>
        <nohttp-checkstyle.version>0.0.9</nohttp-checkstyle.version>
        <frontend-maven-plugin.version>1.12.0</frontend-maven-plugin.version>
        <checksum-maven-plugin.version>1.11</checksum-maven-plugin.version>
        <maven-antrun-plugin.version>3.0.0</maven-antrun-plugin.version>
        <git-commit-id-plugin.version>5.0.0</git-commit-id-plugin.version>
        <modernizer-maven-plugin.version>2.3.0</modernizer-maven-plugin.version>
        <jacoco-maven-plugin.version>0.8.7</jacoco-maven-plugin.version>
        <jib-maven-plugin.version>3.3.1</jib-maven-plugin.version>
        <jib-maven-plugin.image>eclipse-temurin:11-jre-focal</jib-maven-plugin.image>
        <lifecycle-mapping.version>1.0.0</lifecycle-mapping.version>
        <properties-maven-plugin.version>1.0.0</properties-maven-plugin.version>
        <sonar-maven-plugin.version>3.9.0.2155</sonar-maven-plugin.version>
        <!-- jhipster-needle-maven-property -->
    </properties>

    <dependencyManagement>
        <dependencies>
            <dependency>
                <groupId>tech.jhipster</groupId>
                <artifactId>jhipster-dependencies</artifactId>
                <version>${jhipster-dependencies.version}</version>
                <type>pom</type>
                <scope>import</scope>
            </dependency>
            <!-- jhipster-needle-maven-add-dependency-management -->
        </dependencies>
    </dependencyManagement>

    <dependencies>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-websocket</artifactId>
        </dependency>
        <dependency>
            <groupId>tech.jhipster</groupId>
            <artifactId>jhipster-framework</artifactId>
        </dependency>
        <dependency>
            <groupId>javax.annotation</groupId>
            <artifactId>javax.annotation-api</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-cache</artifactId>
        </dependency>
        <dependency>
            <groupId>io.sentry</groupId>
            <artifactId>sentry-spring-boot-starter</artifactId>
            <version>7.8.0</version>
        </dependency>
        <dependency>
            <groupId>com.fasterxml.jackson.module</groupId>
            <artifactId>jackson-module-jaxb-annotations</artifactId>
        </dependency>
        <dependency>
            <groupId>com.fasterxml.jackson.datatype</groupId>
            <artifactId>jackson-datatype-hibernate5</artifactId>
        </dependency>
        <dependency>
            <groupId>com.fasterxml.jackson.datatype</groupId>
            <artifactId>jackson-datatype-hppc</artifactId>
        </dependency>
        <dependency>
            <groupId>com.fasterxml.jackson.datatype</groupId>
            <artifactId>jackson-datatype-jsr310</artifactId>
        </dependency>
        <dependency>
            <groupId>com.h2database</groupId>
            <artifactId>h2</artifactId>
            <scope>test</scope>
        </dependency>
        <dependency>
            <groupId>org.redisson</groupId>
            <artifactId>redisson</artifactId>
        </dependency>
        <dependency>
            <groupId>org.testcontainers</groupId>
            <artifactId>testcontainers</artifactId>
            <scope>test</scope>
        </dependency>
        <dependency>
            <groupId>org.springdoc</groupId>
            <artifactId>springdoc-openapi-webmvc-core</artifactId>
            <version>1.6.6</version>
        </dependency>
        <dependency>
            <groupId>org.springdoc</groupId>
            <artifactId>springdoc-openapi-ui</artifactId>
            <version>1.6.6</version>
        </dependency>
        <dependency>
            <groupId>com.zaxxer</groupId>
            <artifactId>HikariCP</artifactId>
        </dependency>
        <dependency>
            <groupId>org.apache.commons</groupId>
            <artifactId>commons-lang3</artifactId>
        </dependency>
        <dependency>
            <groupId>org.testcontainers</groupId>
            <artifactId>mysql</artifactId>
            <scope>test</scope>
        </dependency>
        <dependency>
            <groupId>mysql</groupId>
            <artifactId>mysql-connector-java</artifactId>
        </dependency>
        <dependency>
            <groupId>org.hibernate</groupId>
            <artifactId>hibernate-jpamodelgen</artifactId>
            <scope>provided</scope>
        </dependency>
        <dependency>
            <groupId>org.hibernate</groupId>
            <artifactId>hibernate-core</artifactId>
        </dependency>
        <dependency>
            <groupId>org.hibernate.validator</groupId>
            <artifactId>hibernate-validator</artifactId>
        </dependency>
        <dependency>
            <groupId>org.liquibase</groupId>
            <artifactId>liquibase-core</artifactId>
            <!-- Inherited version from Spring Boot can't be used because of regressions -->
            <version>${liquibase.version}</version>
        </dependency>
        <dependency>
            <groupId>org.mapstruct</groupId>
            <artifactId>mapstruct</artifactId>
            <version>${mapstruct.version}</version>
        </dependency>
        <dependency>
            <groupId>org.mapstruct</groupId>
            <artifactId>mapstruct-processor</artifactId>
            <version>${mapstruct.version}</version>
            <scope>provided</scope>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-configuration-processor</artifactId>
            <scope>provided</scope>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-loader-tools</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-actuator</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-data-jpa</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-logging</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-mail</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-thymeleaf</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-web</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-test</artifactId>
            <scope>test</scope>
            <exclusions>
                <exclusion>
                    <groupId>org.junit.vintage</groupId>
                    <artifactId>junit-vintage-engine</artifactId>
                </exclusion>
            </exclusions>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-test</artifactId>
            <scope>test</scope>
        </dependency>
        <dependency>
            <groupId>org.springframework.security</groupId>
            <artifactId>spring-security-test</artifactId>
            <scope>test</scope>
        </dependency>
        <dependency>
            <groupId>com.tngtech.archunit</groupId>
            <artifactId>archunit-junit5-api</artifactId>
            <version>${archunit-junit5.version}</version>
            <scope>test</scope>
        </dependency>
        <!-- Adding the engine dependency to the surefire-plugin unfortunately does not work in the current version. -->
        <!-- https://www.archunit.org/userguide/html/000_Index.html#_junit_5 -->
        <dependency>
            <groupId>com.tngtech.archunit</groupId>
            <artifactId>archunit-junit5-engine</artifactId>
            <version>${archunit-junit5.version}</version>
            <scope>test</scope>
        </dependency>
        <dependency>
            <groupId>org.zalando</groupId>
            <artifactId>problem-spring-web</artifactId>
        </dependency>
        <dependency>
            <groupId>org.javers</groupId>
            <artifactId>javers-spring-boot-starter-sql</artifactId>
            <version>${javers.version}</version>
        </dependency>
        <!-- Spring Security OAuth 2.0 -->
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-oauth2-client</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-oauth2-resource-server</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.boot</groupId>
            <artifactId>spring-boot-starter-data-redis</artifactId>
        </dependency>
        <dependency>
            <groupId>org.springframework.session</groupId>
            <artifactId>spring-session-data-redis</artifactId>
        </dependency>
        <dependency>
            <groupId>io.jsonwebtoken</groupId>
            <artifactId>jjwt-api</artifactId>
        </dependency>
        <dependency>
            <groupId>io.jsonwebtoken</groupId>
            <artifactId>jjwt-impl</artifactId>
            <scope>runtime</scope>
        </dependency>
        <dependency>
            <groupId>io.jsonwebtoken</groupId>
            <artifactId>jjwt-jackson</artifactId>
            <scope>runtime</scope>
        </dependency>
        <!-- Spring Cloud -->
        <dependency>
            <groupId>org.springframework.cloud</groupId>
            <artifactId>spring-cloud-starter-bootstrap</artifactId>
        </dependency>

        <dependency>
            <groupId>org.springframework.security</groupId>
            <artifactId>spring-security-data</artifactId>
        </dependency>
        <dependency>
            <groupId>io.micrometer</groupId>
            <artifactId>micrometer-registry-prometheus</artifactId>
        </dependency>
        <dependency>
            <groupId>io.dropwizard.metrics</groupId>
            <artifactId>metrics-core</artifactId>
        </dependency>
        <!-- jhipster-needle-maven-add-dependency -->
        <dependency>
            <groupId>com.github.genome-nexus</groupId>
            <artifactId>genome-nexus-java-api-client</artifactId>
            <version>0709b8232b</version>
        </dependency>
        <dependency>
            <groupId>com.github.oncokb</groupId>
            <artifactId>oncokb-java-api-client</artifactId>
            <version>d6420c10dd</version>
        </dependency>
        <dependency>
            <groupId>com.github.oncokb</groupId>
            <artifactId>oncokb-meta</artifactId>
            <version>b2d8daff89</version>
        </dependency>
        <dependency>
            <groupId>org.json</groupId>
            <artifactId>json</artifactId>
            <version>20201115</version>
        </dependency>
        <dependency>
            <groupId>org.jsoup</groupId>
            <artifactId>jsoup</artifactId>
            <version>1.14.3</version>
        </dependency>
        <dependency>
            <groupId>org.apache.commons</groupId>
            <artifactId>commons-text</artifactId>
            <version>1.10.0</version>
        </dependency>
        <dependency>
            <groupId>com.google.firebase</groupId>
            <artifactId>firebase-admin</artifactId>
            <version>9.1.1</version>
        </dependency>
        <dependency>
            <groupId>org.apache.commons</groupId>
            <artifactId>commons-text</artifactId>
            <version>1.10.0</version>
        </dependency>
    </dependencies>

    <build>
        <defaultGoal>spring-boot:run</defaultGoal>
        <plugins>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-compiler-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-checkstyle-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-javadoc-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-eclipse-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-enforcer-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-failsafe-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-idea-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-resources-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.apache.maven.plugins</groupId>
                <artifactId>maven-surefire-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.jacoco</groupId>
                <artifactId>jacoco-maven-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.sonarsource.scanner.maven</groupId>
                <artifactId>sonar-maven-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.liquibase</groupId>
                <artifactId>liquibase-maven-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.springframework.boot</groupId>
                <artifactId>spring-boot-maven-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>com.google.cloud.tools</groupId>
                <artifactId>jib-maven-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.codehaus.mojo</groupId>
                <artifactId>properties-maven-plugin</artifactId>
            </plugin>
            <plugin>
                <groupId>org.gaul</groupId>
                <artifactId>modernizer-maven-plugin</artifactId>
            </plugin>
            <!-- jhipster-needle-maven-add-plugin -->
        </plugins>
        <pluginManagement>
            <plugins>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-checkstyle-plugin</artifactId>
                    <version>${maven-checkstyle-plugin.version}</version>
                    <dependencies>
                        <dependency>
                            <groupId>com.puppycrawl.tools</groupId>
                            <artifactId>checkstyle</artifactId>
                            <version>${checkstyle.version}</version>
                        </dependency>
                        <dependency>
                            <groupId>io.spring.nohttp</groupId>
                            <artifactId>nohttp-checkstyle</artifactId>
                            <version>${nohttp-checkstyle.version}</version>
                        </dependency>
                    </dependencies>
                    <configuration>
                        <configLocation>checkstyle.xml</configLocation>
                        <includes>pom.xml,README.md</includes>
                        <excludes>.git/**/*,target/**/*,node_modules/**/*,node/**/*</excludes>
                        <sourceDirectories>./</sourceDirectories>
                    </configuration>
                    <executions>
                        <execution>
                            <goals>
                                <goal>check</goal>
                            </goals>
                        </execution>
                    </executions>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-compiler-plugin</artifactId>
                    <version>${maven-compiler-plugin.version}</version>
                    <configuration>
                        <source>${java.version}</source>
                        <target>${java.version}</target>
                        <annotationProcessorPaths>
                            <path>
                                <groupId>org.springframework.boot</groupId>
                                <artifactId>spring-boot-configuration-processor</artifactId>
                                <version>${spring-boot.version}</version>
                            </path>
                            <path>
                                <groupId>org.mapstruct</groupId>
                                <artifactId>mapstruct-processor</artifactId>
                                <version>${mapstruct.version}</version>
                            </path>
                            <!-- For JPA static metamodel generation -->
                            <path>
                                <groupId>org.hibernate</groupId>
                                <artifactId>hibernate-jpamodelgen</artifactId>
                                <version>${hibernate.version}</version>
                            </path>
                            <path>
                                <groupId>org.glassfish.jaxb</groupId>
                                <artifactId>jaxb-runtime</artifactId>
                                <version>${jaxb-runtime.version}</version>
                            </path>
                            <!-- jhipster-needle-maven-add-annotation-processor -->
                        </annotationProcessorPaths>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-javadoc-plugin</artifactId>
                    <version>${maven-javadoc-plugin.version}</version>
                    <configuration>
                        <source>${maven.compiler.source}</source>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-war-plugin</artifactId>
                    <version>${maven-war-plugin.version}</version>
                    <executions>
                        <execution>
                            <id>default-war</id>
                            <goals>
                                <goal>war</goal>
                            </goals>
                            <phase>package</phase>
                        </execution>
                    </executions>
                    <configuration>
                        <warSourceIncludes>WEB-INF/**,META-INF/**</warSourceIncludes>
                        <failOnMissingWebXml>false</failOnMissingWebXml>
                        <warSourceDirectory>target/classes/static/</warSourceDirectory>
                        <webResources>
                            <resource>
                                <directory>src/main/webapp</directory>
                                <includes>
                                    <include>WEB-INF/**</include>
                                </includes>
                            </resource>
                        </webResources>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>com.github.eirslett</groupId>
                    <artifactId>frontend-maven-plugin</artifactId>
                    <version>${frontend-maven-plugin.version}</version>
                    <configuration>
                        <installDirectory>target</installDirectory>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.codehaus.mojo</groupId>
                    <artifactId>properties-maven-plugin</artifactId>
                    <version>${properties-maven-plugin.version}</version>
                    <executions>
                        <execution>
                            <phase>initialize</phase>
                            <goals>
                                <goal>read-project-properties</goal>
                            </goals>
                            <configuration>
                                <files>
                                    <file>sonar-project.properties</file>
                                </files>
                            </configuration>
                        </execution>
                    </executions>
                </plugin>

                <plugin>
                    <groupId>io.github.git-commit-id</groupId>
                    <artifactId>git-commit-id-maven-plugin</artifactId>
                    <version>${git-commit-id-plugin.version}</version>
                    <executions>
                        <execution>
                            <goals>
                                <goal>revision</goal>
                            </goals>
                        </execution>
                    </executions>
                    <configuration>
                        <failOnNoGitDirectory>false</failOnNoGitDirectory>
                        <failOnUnableToExtractRepoInfo>false</failOnUnableToExtractRepoInfo>
                        <generateGitPropertiesFile>true</generateGitPropertiesFile>
                        <includeOnlyProperties>
                            <includeOnlyProperty>^git.commit.id.abbrev$</includeOnlyProperty>
                            <includeOnlyProperty>^git.commit.id.describe$</includeOnlyProperty>
                            <includeOnlyProperty>^git.branch$</includeOnlyProperty>
                        </includeOnlyProperties>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.gaul</groupId>
                    <artifactId>modernizer-maven-plugin</artifactId>
                    <version>${modernizer-maven-plugin.version}</version>
                    <executions>
                        <execution>
                            <id>modernizer</id>
                            <phase>package</phase>
                            <goals>
                                <goal>modernizer</goal>
                            </goals>
                        </execution>
                    </executions>
                    <configuration>
                      <javaVersion>${java.version}</javaVersion>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.jacoco</groupId>
                    <artifactId>jacoco-maven-plugin</artifactId>
                    <version>${jacoco-maven-plugin.version}</version>
                    <executions>
                        <execution>
                            <id>pre-unit-tests</id>
                            <goals>
                                <goal>prepare-agent</goal>
                            </goals>
                        </execution>
                        <!-- Ensures that the code coverage report for unit tests is created after unit tests have been run -->
                        <execution>
                            <id>post-unit-test</id>
                            <phase>test</phase>
                            <goals>
                                <goal>report</goal>
                            </goals>
                        </execution>
                        <execution>
                            <id>pre-integration-tests</id>
                            <goals>
                                <goal>prepare-agent-integration</goal>
                            </goals>
                        </execution>
                        <!-- Ensures that the code coverage report for integration tests is created after integration tests have been run -->
                        <execution>
                            <id>post-integration-tests</id>
                            <phase>post-integration-test</phase>
                            <goals>
                                <goal>report-integration</goal>
                            </goals>
                        </execution>
                    </executions>
                </plugin>
                <plugin>
                    <groupId>com.google.cloud.tools</groupId>
                    <artifactId>jib-maven-plugin</artifactId>
                    <version>${jib-maven-plugin.version}</version>
                    <configuration>
                        <from>
                            <image>${jib-maven-plugin.image}</image>
                            <platforms>
                                <platform>
                                    <architecture>amd64</architecture>
                                    <os>linux</os>
                                </platform>
                                <platform>
                                    <architecture>arm64</architecture>
                                    <os>linux</os>
                                </platform>
                            </platforms>
                        </from>
                        <to>
                            <image>oncokb/oncokb-curation:latest</image>
                        </to>
                        <container>
                            <entrypoint>
                                <shell>bash</shell>
                                <option>-c</option>
                                <arg>/entrypoint.sh</arg>
                            </entrypoint>
                            <ports>
                                <port>9090</port>
                            </ports>
                            <environment>
                                <SPRING_OUTPUT_ANSI_ENABLED>ALWAYS</SPRING_OUTPUT_ANSI_ENABLED>
                                <JHIPSTER_SLEEP>0</JHIPSTER_SLEEP>
                            </environment>
                            <creationTime>USE_CURRENT_TIMESTAMP</creationTime>
                            <user>1000</user>
                        </container>
                        <extraDirectories>
                            <paths>src/main/docker/jib</paths>
                            <permissions>
                                <permission>
                                    <file>/entrypoint.sh</file>
                                    <mode>755</mode>
                                </permission>
                            </permissions>
                        </extraDirectories>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.liquibase</groupId>
                    <artifactId>liquibase-maven-plugin</artifactId>
                    <version>${liquibase.version}</version>
                    <configuration>
                        <changeLogFile>${project.basedir}/src/main/resources/config/liquibase/master.xml</changeLogFile>
                        <diffChangeLogFile>${project.basedir}/src/main/resources/config/liquibase/changelog/${maven.build.timestamp}_changelog.xml</diffChangeLogFile>
                        <driver>com.mysql.cj.jdbc.Driver</driver>
                        <url>jdbc:mysql://localhost:3306/oncokb-curation</url>
                        <defaultSchemaName>oncokb-curation</defaultSchemaName>
                        <username>root</username>
                        <password>root</password>
                        <referenceUrl>hibernate:spring:org.mskcc.oncokb.curation.domain?dialect=org.hibernate.dialect.MySQL8Dialect&amp;hibernate.physical_naming_strategy=org.springframework.boot.orm.jpa.hibernate.SpringPhysicalNamingStrategy&amp;hibernate.implicit_naming_strategy=org.springframework.boot.orm.jpa.hibernate.SpringImplicitNamingStrategy</referenceUrl>
                        <verbose>true</verbose>
                        <logging>debug</logging>
                        <contexts>!test</contexts>
                        <diffExcludeObjects>oauth_access_token, oauth_approvals, oauth_client_details, oauth_client_token, oauth_code, oauth_refresh_token</diffExcludeObjects>
                    </configuration>
                    <dependencies>
                        <dependency>
                            <groupId>org.liquibase</groupId>
                            <artifactId>liquibase-core</artifactId>
                            <version>${liquibase.version}</version>
                        </dependency>
                        <dependency>
                            <groupId>org.liquibase.ext</groupId>
                            <artifactId>liquibase-hibernate5</artifactId>
                            <version>${liquibase-hibernate5.version}</version>
                        </dependency>
                        <dependency>
                            <groupId>org.springframework.boot</groupId>
                            <artifactId>spring-boot-starter-data-jpa</artifactId>
                            <version>${spring-boot.version}</version>
                        </dependency>
                        <dependency>
                            <groupId>javax.validation</groupId>
                            <artifactId>validation-api</artifactId>
                            <version>${validation-api.version}</version>
                        </dependency>
                        <dependency>
                            <groupId>org.javassist</groupId>
                            <artifactId>javassist</artifactId>
                            <version>${javassist.version}</version>
                        </dependency>
                    </dependencies>
                </plugin>
                <plugin>
                    <artifactId>maven-clean-plugin</artifactId>
                    <version>${maven-clean-plugin.version}</version>
                </plugin>
                <plugin>
                    <artifactId>maven-site-plugin</artifactId>
                    <version>${maven-site-plugin.version}</version>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-eclipse-plugin</artifactId>
                    <version>${maven-eclipse-plugin.version}</version>
                    <configuration>
                        <downloadSources>true</downloadSources>
                        <downloadJavadocs>true</downloadJavadocs>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-enforcer-plugin</artifactId>
                    <version>${maven-enforcer-plugin.version}</version>
                    <executions>
                        <execution>
                            <id>enforce-versions</id>
                            <goals>
                                <goal>enforce</goal>
                            </goals>
                        </execution>
                        <execution>
                            <id>enforce-dependencyConvergence</id>
                            <configuration>
                                <rules>
                                    <DependencyConvergence />
                                </rules>
                                <fail>false</fail>
                            </configuration>
                            <goals>
                                <goal>enforce</goal>
                            </goals>
                        </execution>
                    </executions>
                    <configuration>
                        <rules>
                            <requireMavenVersion>
                                <message>You are running an older version of Maven. JHipster requires at least Maven ${maven.version}</message>
                                <version>[${maven.version},)</version>
                            </requireMavenVersion>
                            <requireJavaVersion>
                                <message>You are running an incompatible version of Java. JHipster supports JDK 8 to 16.</message>
                                <version>[1.8,17)</version>
                            </requireJavaVersion>
                        </rules>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-idea-plugin</artifactId>
                    <version>${maven-idea-plugin.version}</version>
                    <configuration>
                        <exclude>node_modules</exclude>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-resources-plugin</artifactId>
                    <version>${maven-resources-plugin.version}</version>
                    <executions>
                        <execution>
                            <id>default-resources</id>
                            <phase>validate</phase>
                            <goals>
                                <goal>copy-resources</goal>
                            </goals>
                            <configuration>
                                <outputDirectory>${project.build.directory}/classes</outputDirectory>
                                <useDefaultDelimiters>false</useDefaultDelimiters>
                                <delimiters>
                                    <delimiter>#</delimiter>
                                </delimiters>
                                <resources>
                                    <resource>
                                        <directory>src/main/resources/</directory>
                                        <filtering>true</filtering>
                                        <includes>
                                            <include>config/*.yml</include>
                                        </includes>
                                    </resource>
                                    <resource>
                                        <directory>src/main/resources/</directory>
                                        <filtering>false</filtering>
                                        <excludes>
                                            <exclude>config/*.yml</exclude>
                                        </excludes>
                                    </resource>
                                </resources>
                            </configuration>
                        </execution>
                    </executions>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-surefire-plugin</artifactId>
                    <version>${maven-surefire-plugin.version}</version>
                    <configuration>
                        <!-- Force alphabetical order to have a reproducible build -->
                        <runOrder>alphabetical</runOrder>
                        <excludes>
                            <exclude>**/*IT*</exclude>
                            <exclude>**/*IntTest*</exclude>
                        </excludes>
                    </configuration>
                </plugin>
                <plugin>
                    <groupId>org.apache.maven.plugins</groupId>
                    <artifactId>maven-failsafe-plugin</artifactId>
                    <version>${maven-failsafe-plugin.version}</version>
                    <configuration>
                        <!-- Due to spring-boot repackage, without adding this property test classes are not found
                             See https://github.com/spring-projects/spring-boot/issues/6254 -->
                        <classesDirectory>${project.build.outputDirectory}</classesDirectory>
                        <!-- Force alphabetical order to have a reproducible build -->
                        <runOrder>alphabetical</runOrder>
                        <includes>
                            <include>**/*IT*</include>
                            <include>**/*IntTest*</include>
                        </includes>
                    </configuration>
                    <executions>
                        <execution>
                            <id>integration-test</id>
                            <goals>
                                <goal>integration-test</goal>
                            </goals>
                        </execution>
                        <execution>
                            <id>verify</id>
                            <goals>
                                <goal>verify</goal>
                            </goals>
                        </execution>
                    </executions>
                </plugin>
                <plugin>
                    <groupId>org.sonarsource.scanner.maven</groupId>
                    <artifactId>sonar-maven-plugin</artifactId>
                    <version>${sonar-maven-plugin.version}</version>
                </plugin>
                <plugin>
                    <groupId>org.springframework.boot</groupId>
                    <artifactId>spring-boot-maven-plugin</artifactId>
                    <version>${spring-boot.version}</version>
                    <executions>
                        <execution>
                            <goals>
                                <goal>repackage</goal>
                            </goals>
                        </execution>
                    </executions>
                    <configuration>
                        <mainClass>${start-class}</mainClass>
                        <fork>true</fork>
                        <!--
                        Enable the line below to have remote debugging of your application on port 5005
                        <jvmArguments>-agentlib:jdwp=transport=dt_socket,server=y,suspend=n,address=5005</jvmArguments>
                        -->
                    </configuration>

                </plugin>
                <!-- jhipster-needle-maven-add-plugin-management -->
            </plugins>
        </pluginManagement>
    </build>
    <profiles>
        <profile>
            <id>no-liquibase</id>
            <properties>
                <profile.no-liquibase>,no-liquibase</profile.no-liquibase>
            </properties>
        </profile>
        <profile>
            <id>api-docs</id>
            <properties>
                <profile.api-docs>,api-docs</profile.api-docs>
            </properties>
        </profile>
        <profile>
            <id>tls</id>
            <properties>
                <profile.tls>,tls</profile.tls>
            </properties>
        </profile>
        <profile>
            <id>webapp</id>
            <activation>
                <activeByDefault>true</activeByDefault>
            </activation>
            <dependencies>
            </dependencies>
            <build>
                <plugins>
                    <plugin>
                        <groupId>net.nicoulaj.maven.plugins</groupId>
                        <artifactId>checksum-maven-plugin</artifactId>
                        <version>${checksum-maven-plugin.version}</version>
                        <executions>
                            <execution>
                                <id>create-pre-compiled-webapp-checksum</id>
                                <goals>
                                    <goal>files</goal>
                                </goals>
                                <phase>generate-resources</phase>
                            </execution>
                            <execution>
                                <id>create-compiled-webapp-checksum</id>
                                <goals>
                                    <goal>files</goal>
                                </goals>
                                <phase>compile</phase>
                                <configuration>
                                    <csvSummaryFile>checksums.csv.old</csvSummaryFile>
                                </configuration>
                            </execution>
                        </executions>
                        <configuration>
                            <fileSets>
                                <fileSet>
                                    <directory>${project.basedir}</directory>
                                    <includes>
                                        <include>src/main/webapp/**/*.*</include>
                                        <include>target/classes/static/**/*.*</include>
                                        <include>package-lock.json</include>
                                        <include>package.json</include>
                                        <include>webpack/*.*</include>
                                        <include>tsconfig.json</include>
                                        <include>.postcss.config.js</include>
                                    </includes>
                                    <excludes>
                                        <exclude>**/app/**/service-worker.js</exclude>
                                        <exclude>**/app/**/vendor.css</exclude>
                                    </excludes>
                                </fileSet>
                            </fileSets>
                            <failOnError>false</failOnError>
                            <failIfNoFiles>false</failIfNoFiles>
                            <individualFiles>false</individualFiles>
                            <algorithms>
                                <algorithm>SHA-1</algorithm>
                            </algorithms>
                            <includeRelativePath>true</includeRelativePath>
                            <quiet>true</quiet>
                        </configuration>
                    </plugin>
                    <plugin>
                        <groupId>org.apache.maven.plugins</groupId>
                        <artifactId>maven-antrun-plugin</artifactId>
                        <version>${maven-antrun-plugin.version}</version>
                        <executions>
                            <execution>
                                <id>eval-frontend-checksum</id>
                                <phase>generate-resources</phase>
                                <goals>
                                    <goal>run</goal>
                                </goals>
                                <configuration>
                                    <target>
                                        <condition property="skip.yarn" value="true" else="false" >
                                            <and>
                                                <available file="checksums.csv" filepath="${project.build.directory}" />
                                                <available file="checksums.csv.old" filepath="${project.build.directory}" />
                                                <filesmatch file1="${project.build.directory}/checksums.csv" file2="${project.build.directory}/checksums.csv.old" />
                                            </and>
                                        </condition>
                                    </target>
                                    <exportAntProperties>true</exportAntProperties>
                                </configuration>
                            </execution>
                        </executions>
                    </plugin>
                    <plugin>
                        <groupId>com.github.eirslett</groupId>
                        <artifactId>frontend-maven-plugin</artifactId>
                        <executions>
                            <execution>
                                <id>install-node-and-yarn</id>
                                <goals>
                                    <goal>install-node-and-yarn</goal>
                                </goals>
                                <configuration>
                                    <nodeVersion>${node.version}</nodeVersion>
                                    <yarnVersion>${yarn.version}</yarnVersion>
                                </configuration>
                            </execution>
                            <execution>
                                <id>yarn install</id>
                                <goals>
                                    <goal>yarn</goal>
                                </goals>
                            </execution>
                            <execution>
                                <id>webapp build dev</id>
                                <goals>
                                    <goal>yarn</goal>
                                </goals>
                                <phase>generate-resources</phase>
                                <configuration>
                                    <arguments>run webapp:build</arguments>
                                    <environmentVariables>
                                        <APP_VERSION>${project.version}</APP_VERSION>
                                    </environmentVariables>
                                    <yarnInheritsProxyConfigFromMaven>false</yarnInheritsProxyConfigFromMaven>
                                </configuration>
                            </execution>
                        </executions>
                    </plugin>
                </plugins>
            </build>
            <properties>
                <!-- default Spring profiles -->
                <spring.profiles.active>dev${profile.no-liquibase}</spring.profiles.active>
            </properties>
        </profile>
        <profile>
            <id>dev</id>
            <activation>
                <activeByDefault>true</activeByDefault>
            </activation>
            <dependencies>
                <dependency>
                    <groupId>org.springframework.boot</groupId>
                    <artifactId>spring-boot-starter-undertow</artifactId>
                </dependency>
                <dependency>
                    <groupId>org.springframework.boot</groupId>
                    <artifactId>spring-boot-devtools</artifactId>
                    <optional>true</optional>
                </dependency>
            </dependencies>
            <properties>
                <!-- default Spring profiles -->
                <spring.profiles.active>dev${profile.tls}${profile.no-liquibase}</spring.profiles.active>
            </properties>
        </profile>
        <profile>
            <id>prod</id>
            <dependencies>
                <dependency>
                    <groupId>org.springframework.boot</groupId>
                    <artifactId>spring-boot-starter-undertow</artifactId>
                </dependency>
            </dependencies>
            <build>
                <plugins>
                    <plugin>
                        <artifactId>maven-clean-plugin</artifactId>
                        <configuration>
                            <filesets>
                                <fileset>
                                    <directory>target/classes/static/</directory>
                                </fileset>
                            </filesets>
                        </configuration>
                    </plugin>
                    <plugin>
                        <groupId>org.springframework.boot</groupId>
                        <artifactId>spring-boot-maven-plugin</artifactId>
                        <executions>
                            <execution>
                                <goals>
                                    <goal>build-info</goal>
                                </goals>
                            </execution>
                        </executions>
                    </plugin>
                    <plugin>
                        <groupId>com.github.eirslett</groupId>
                        <artifactId>frontend-maven-plugin</artifactId>
                        <executions>
                            <execution>
                                <id>install-node-and-yarn</id>
                                <goals>
                                    <goal>install-node-and-yarn</goal>
                                </goals>
                                <configuration>
                                    <nodeVersion>${node.version}</nodeVersion>
                                    <yarnVersion>${yarn.version}</yarnVersion>
                                </configuration>
                            </execution>
                            <execution>
                                <id>yarn install</id>
                                <goals>
                                    <goal>yarn</goal>
                                </goals>
                            </execution>
                            <execution>
                                <id>webapp build test</id>
                                <goals>
                                    <goal>yarn</goal>
                                </goals>
                                <phase>test</phase>
                                <configuration>
                                    <arguments>run webapp:test</arguments>
                                    <yarnInheritsProxyConfigFromMaven>false</yarnInheritsProxyConfigFromMaven>
                                </configuration>
                            </execution>
                            <execution>
                                <id>webapp build prod</id>
                                <goals>
                                    <goal>yarn</goal>
                                </goals>
                                <phase>generate-resources</phase>
                                <configuration>
                                    <arguments>run webapp:prod</arguments>
                                    <environmentVariables>
                                        <APP_VERSION>${project.version}</APP_VERSION>
                                    </environmentVariables>
                                    <yarnInheritsProxyConfigFromMaven>false</yarnInheritsProxyConfigFromMaven>
                                </configuration>
                            </execution>
                        </executions>
                    </plugin>
                    <plugin>
                        <groupId>io.github.git-commit-id</groupId>
                        <artifactId>git-commit-id-maven-plugin</artifactId>
                    </plugin>
                </plugins>
            </build>
            <properties>
                <!-- default Spring profiles -->
                <spring.profiles.active>prod${profile.api-docs}${profile.tls}${profile.no-liquibase}</spring.profiles.active>
            </properties>
        </profile>
        <profile>
            <id>war</id>
            <build>
                <plugins>
                    <plugin>
                        <groupId>org.apache.maven.plugins</groupId>
                        <artifactId>maven-war-plugin</artifactId>
                    </plugin>
                </plugins>
            </build>
        </profile>
        <profile>
            <!--
                Profile for tracing requests with Zipkin.
            -->
            <id>zipkin</id>
            <dependencies>
                <dependency>
                    <groupId>org.springframework.cloud</groupId>
                    <artifactId>spring-cloud-starter-zipkin</artifactId>
                </dependency>
            </dependencies>
        </profile>
        <profile>
            <!--
                Profile for applying IDE-specific configuration.
                At the moment it configures MapStruct and Hibernate JPA Metamodel Generator, which you need when working
                with DTOs and entity filtering.
            -->
            <id>IDE</id>
            <dependencies>
                <dependency>
                    <groupId>org.mapstruct</groupId>
                    <artifactId>mapstruct-processor</artifactId>
                    <version>${mapstruct.version}</version>
                </dependency>
                <dependency>
                    <groupId>org.hibernate</groupId>
                    <artifactId>hibernate-jpamodelgen</artifactId>
                </dependency>
            </dependencies>
        </profile>
        <profile>
            <!-- This is automatically activated when working in Eclipse -->
            <id>eclipse</id>
            <activation>
                <property>
                    <name>m2e.version</name>
                </property>
            </activation>
            <dependencies>
                <!-- The following dependency is added due to issue #9175-->
                <dependency>
                    <groupId>org.springframework.boot</groupId>
                    <artifactId>spring-boot-starter-undertow</artifactId>
                </dependency>
            </dependencies>
            <build>
                <pluginManagement>
                    <plugins>
                        <!--
                            This plugin's configuration is used to store Eclipse m2e settings only.
                            It has no influence on the Maven build itself.
                            Remove when the m2e plugin can correctly bind to Maven lifecycle
                        -->
                        <plugin>
                            <groupId>org.eclipse.m2e</groupId>
                            <artifactId>lifecycle-mapping</artifactId>
                            <version>${lifecycle-mapping.version}</version>
                            <configuration>
                                <lifecycleMappingMetadata>
                                    <pluginExecutions>
                                        <pluginExecution>
                                            <pluginExecutionFilter>
                                                <groupId>org.jacoco</groupId>
                                                <artifactId>
                                                    jacoco-maven-plugin
                                                </artifactId>
                                                <versionRange>
                                                    ${jacoco-maven-plugin.version}
                                                </versionRange>
                                                <goals>
                                                    <goal>prepare-agent</goal>
                                                </goals>
                                            </pluginExecutionFilter>
                                            <action>
                                                <ignore/>
                                            </action>
                                        </pluginExecution>
                                        <pluginExecution>
                                            <pluginExecutionFilter>
                                                <groupId>com.github.eirslett</groupId>
                                                <artifactId>frontend-maven-plugin</artifactId>
                                                <versionRange>${frontend-maven-plugin.version}</versionRange>
                                                <goals>
                                                    <goal>install-node-and-yarn</goal>
                                                    <goal>yarn</goal>
                                                </goals>
                                            </pluginExecutionFilter>
                                            <action>
                                                <ignore/>
                                            </action>
                                        </pluginExecution>
                                    </pluginExecutions>
                                </lifecycleMappingMetadata>
                            </configuration>
                        </plugin>
                    </plugins>
                </pluginManagement>
            </build>
        </profile>
        <!-- jhipster-needle-maven-add-profile -->
    </profiles>
</project>