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pom.xml
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<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>
<groupId>org.ohdsi</groupId>
<artifactId>WebAPI</artifactId>
<packaging>war</packaging>
<version>1.0.0-SNAPSHOT</version>
<name>WebAPI</name>
<properties>
<webapi.version>2.8.0</webapi.version>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
<jersey.version>2.14</jersey.version>
<!-- Spring Boot manages spring.version as well -->
<spring.boot.version>1.5.2.RELEASE</spring.boot.version>
<spring.batch.version>3.0.8.RELEASE</spring.batch.version>
<flyway.version>4.2.0</flyway.version>
<waffle.version>1.7.3</waffle.version>
<start-class>org.ohdsi.webapi.WebApi</start-class>
<!-- Primary DataSource -->
<!-- default sql server - TODO How about making postgres the default (e.g. in line with open source tech)? -alexfranken -->
<datasource.driverClassName>com.microsoft.sqlserver.jdbc.SQLServerDriver</datasource.driverClassName>
<datasource.url>jdbc:sqlserver://serverName;databaseName=databaseName</datasource.url>
<datasource.username>user</datasource.username>
<datasource.password>password</datasource.password>
<!--<datasource.validationQuery>SELECT 1</datasource.validationQuery>-->
<datasource.dialect>sql server</datasource.dialect>
<datasource.ohdsi.schema>dbo</datasource.ohdsi.schema>
<datasource.dialect.source>sql server</datasource.dialect.source>
<!-- DB Change Management / Migration -->
<flyway.datasource.driverClassName>com.microsoft.sqlserver.jdbc.SQLServerDriver</flyway.datasource.driverClassName>
<flyway.datasource.url>jdbc:sqlserver://serverName</flyway.datasource.url>
<flyway.datasource.username>userWithWritePrivs</flyway.datasource.username>
<flyway.datasource.password>password</flyway.datasource.password>
<flyway.locations>classpath:db/migration/sqlserver</flyway.locations>
<!-- Note: Schema name is case-sensitive. -->
<flyway.schemas>${datasource.ohdsi.schema}</flyway.schemas>
<flyway.validateOnMigrate>false</flyway.validateOnMigrate>
<flyway.placeholders.ohdsiSchema>${datasource.ohdsi.schema}</flyway.placeholders.ohdsiSchema>
<!-- CDM properties -->
<source.name>CDM_NAME</source.name>
<cdm.version>5</cdm.version>
<!-- Person properties -->
<person.viewDates>false</person.viewDates>
<!-- Heracles properties -->
<heracles.smallcellcount>5</heracles.smallcellcount>
<!-- Kerberos properties -->
<kerberos.timeout>60</kerberos.timeout>
<kerberos.configPath>/etc/krb5.conf</kerberos.configPath>
<kerberos.kinitPath></kerberos.kinitPath>
<spring.batch.repository.tableprefix>${datasource.ohdsi.schema}.BATCH_</spring.batch.repository.tableprefix>
<spring.batch.repository.isolationLevelForCreate>ISOLATION_READ_COMMITTED</spring.batch.repository.isolationLevelForCreate>
<spring.profiles.active>default</spring.profiles.active>
<security.provider>DisabledSecurity</security.provider>
<security.token.expiration>43200</security.token.expiration>
<security.origin>http://localhost</security.origin>
<security.ssl.enabled>false</security.ssl.enabled>
<security.oauth.callback.ui>http://localhost/Atlas/#/welcome</security.oauth.callback.ui>
<security.oauth.callback.api>http://localhost:8080/WebAPI/user/oauth/callback</security.oauth.callback.api>
<security.oauth.google.apiKey></security.oauth.google.apiKey>
<security.oauth.google.apiSecret></security.oauth.google.apiSecret>
<security.oauth.facebook.apiKey></security.oauth.facebook.apiKey>
<security.oauth.facebook.apiSecret></security.oauth.facebook.apiSecret>
<security.oauth.github.apiKey></security.oauth.github.apiKey>
<security.oauth.github.apiSecret></security.oauth.github.apiSecret>
<security.oid.clientId></security.oid.clientId>
<security.oid.apiSecret></security.oid.apiSecret>
<security.oid.url></security.oid.url>
<security.oid.redirectUrl>http://localhost/index.html#/welcome/</security.oid.redirectUrl>
<security.ldap.dn>cn={0},dc=example,dc=org</security.ldap.dn>
<security.ldap.url>ldap://localhost:389</security.ldap.url>
<security.ldap.baseDn></security.ldap.baseDn>
<security.ldap.system.username></security.ldap.system.username>
<security.ldap.system.password></security.ldap.system.password>
<security.ad.url>ldap://localhost:389</security.ad.url>
<security.ad.searchBase>CN=Users,DC=example,DC=org</security.ad.searchBase>
<security.ad.principalSuffix>@example.org</security.ad.principalSuffix>
<security.ad.system.username></security.ad.system.username>
<security.ad.system.password></security.ad.system.password>
<security.ad.searchFilter></security.ad.searchFilter>
<security.ad.ignore.partial.result.exception>true</security.ad.ignore.partial.result.exception>
<security.ad.result.count.limit>30000</security.ad.result.count.limit> <!-- 0 means no limit -->
<security.ad.default.import.group>public</security.ad.default.import.group>
<security.cas.loginUrl></security.cas.loginUrl>
<security.cas.callbackUrl></security.cas.callbackUrl>
<security.cas.serverUrl></security.cas.serverUrl>
<security.cas.cassvcs></security.cas.cassvcs>
<security.cas.casticket>casticket</security.cas.casticket>
<security.db.datasource.schema>${datasource.ohdsi.schema}</security.db.datasource.schema>
<security.db.datasource.url>${datasource.url}</security.db.datasource.url>
<security.db.datasource.driverClassName>${datasource.driverClassName}</security.db.datasource.driverClassName>
<security.db.datasource.username>${datasource.username}</security.db.datasource.username>
<security.db.datasource.password>${datasource.password}</security.db.datasource.password>
<security.db.datasource.authenticationQuery>select password from ${security.db.datasource.schema}.users where lower(email) = lower(?)</security.db.datasource.authenticationQuery>
<use.single.connect.datasource.for.testing>true</use.single.connect.datasource.for.testing>
<security.googleIap.cloudProjectId></security.googleIap.cloudProjectId>
<security.googleIap.backendServiceId></security.googleIap.backendServiceId>
<security.cors.enabled>true</security.cors.enabled>
<security.maxLoginAttempts>3</security.maxLoginAttempts>
<security.duration.initial>10</security.duration.initial>
<security.duration.increment>10</security.duration.increment>
<spring.datasource.hikari.connection-test-query>SELECT 1</spring.datasource.hikari.connection-test-query>
<spring.datasource.hikari.connection-test-query-timeout>2000</spring.datasource.hikari.connection-test-query-timeout>
<spring.datasource.hikari.maximum-pool-size>5</spring.datasource.hikari.maximum-pool-size>
<spring.datasource.hikari.minimum-idle>1</spring.datasource.hikari.minimum-idle>
<!-- EMBEDDED SERVER CONFIGURATION (ServerProperties) -->
<server.port>8080</server.port>
<server.ssl.key-store></server.ssl.key-store>
<server.ssl.key-store-password></server.ssl.key-store-password>
<server.ssl.key-password></server.ssl.key-password>
<arachne.version>1.14.0-SNAPSHOT</arachne.version>
<jersey-media-multipart.version>2.25.1</jersey-media-multipart.version>
<execution.invalidation.period>600000</execution.invalidation.period>
<execution.status.period>10000</execution.status.period>
<executionengine.url>https://localhost:8888/api/v1/analyze</executionengine.url>
<executionengine.token>Basic YWRtaW5Ab2R5c3NldXNpbmMuY29tOnBhc3N3b3Jk</executionengine.token>
<executionengine.updateStatusCallback>http://localhost:8080/WebAPI/executionservice/callbacks/submission/{id}/status/update/{password}</executionengine.updateStatusCallback>
<executionengine.resultCallback>http://localhost:8080/WebAPI/executionservice/callbacks/submission/{id}/result/{password}</executionengine.resultCallback>
<!-- PASSWORD ENCRYPTION -->
<jasypt.encryptor.enabled>false</jasypt.encryptor.enabled>
<jasypt.encryptor.password></jasypt.encryptor.password>
<jasypt.encryptor.algorithm>PBEWithMD5AndDES</jasypt.encryptor.algorithm>
<!-- ORGANIZATION SETTINGS -->
<organization.name>OHDSI</organization.name>
<!-- JdbcTemplate -->
<jdbc.suppressInvalidApiException>true</jdbc.suppressInvalidApiException>
<!-- Logging -->
<spring.jpa.show-sql>false</spring.jpa.show-sql>
<logging.level.root>info</logging.level.root>
<logging.level.org.ohdsi>info</logging.level.org.ohdsi>
<logging.level.org.springframework.orm>info</logging.level.org.springframework.orm>
<logging.level.org.springframework.jdbc>info</logging.level.org.springframework.jdbc>
<logging.level.org.apache.shiro>warn</logging.level.org.apache.shiro>
<spring.batch.taskExecutor.corePoolSize>10</spring.batch.taskExecutor.corePoolSize>
<spring.batch.taskExecutor.maxPoolSize>20</spring.batch.taskExecutor.maxPoolSize>
<!-- Sensitive Info settings -->
<sensitiveinfo.admin.role>admin</sensitiveinfo.admin.role>
<hydra.externalPackage.prediction></hydra.externalPackage.prediction>
<hydra.externalPackage.estimation></hydra.externalPackage.estimation>
</properties>
<build>
<finalName>WebAPI</finalName>
<resources>
<resource>
<directory>src/main/resources</directory>
<filtering>true</filtering>
<includes>
<include>**/*.properties</include>
<include>log4j.xml</include>
</includes>
</resource>
<resource>
<directory>src/main/resources</directory>
<filtering>false</filtering>
<includes>
<include>**/*.*</include>
</includes>
<excludes>
<exclude>**/*.properties</exclude>
<exclude>log4j.xml</exclude>
</excludes>
</resource>
<resource>
<directory>src/test/resources</directory>
<filtering>true</filtering>
<includes>
<include>**/*.properties</include>
</includes>
</resource>
<resource>
<directory>src/test/resources</directory>
<filtering>false</filtering>
<includes>
<include>**/*.*</include>
</includes>
<excludes>
<exclude>**/*.properties</exclude>
</excludes>
</resource>
</resources>
<plugins>
<plugin>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-maven-plugin</artifactId>
<version>${spring.boot.version}</version>
<!-- executable-war via 'java -jar WebAPI-exec.war' currently fails with Jersey FileNotFound exception. TODO -->
<configuration>
<!-- Since we filter properties files via Maven, do not add resources. -->
<addResources>false</addResources>
<!-- executable-jar
<classifier>exec</classifier>
-->
</configuration>
<!-- executable-jar
<executions>
<execution>
<goals>
<goal>repackage</goal>
</goals>
</execution>
</executions>
-->
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-surefire-plugin</artifactId>
<version>2.18.1</version>
<configuration>
<skipTests>true</skipTests>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-compiler-plugin</artifactId>
<version>2.5.1</version>
<inherited>true</inherited>
<configuration>
<source>1.8</source>
<target>1.8</target>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-war-plugin</artifactId>
<version>2.2</version>
<configuration>
<failOnMissingWebXml>false</failOnMissingWebXml>
</configuration>
</plugin>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-failsafe-plugin</artifactId>
<version>2.18.1</version>
<executions>
<execution>
<id>failsafe-integration-tests</id>
<phase>integration-test</phase>
<goals>
<goal>integration-test</goal>
</goals>
<configuration>
<includes>
<include>**/*IT.java</include>
</includes>
<excludes>
<exclude>**/SecurityIT.java</exclude>
</excludes>
</configuration>
</execution>
<execution>
<phase>test</phase>
<goals>
<goal>integration-test</goal>
</goals>
<configuration>
<includes>
<include>**/SecurityIT.java</include>
</includes>
</configuration>
</execution>
</executions>
</plugin>
<plugin>
<groupId>com.qmino</groupId>
<artifactId>miredot-plugin</artifactId>
<version>2.1.2</version>
<executions>
<execution>
<phase>package</phase>
<goals>
<goal>restdoc</goal>
</goals>
</execution>
</executions>
<configuration>
<licence>cHJvamVjdHxvcmcub2hkc2kuV2ViQVBJfDIwMjAtMDMtMzF8dHJ1ZXwtMSNNQzBDRkNNQ2R2ZEhjbDg0Z2tONVI3bHlmQ2Y4SnNkYUFoVUFoMkdtOUVFdy9RelpLVzM1V2p6a2FsdzJZV009</licence>
<restModel>
<httpStatusCodes>
<httpStatusCode>
<httpCode>200</httpCode>
<document>always</document>
<defaultMessage>The service call has completed successfully.</defaultMessage>
</httpStatusCode>
<httpStatusCode>
<httpCode>401</httpCode>
<document>Authorization Exception</document>
<defaultMessage>The user is not authorized to use this service.</defaultMessage>
</httpStatusCode>
<httpStatusCode>
<httpCode>412</httpCode>
<document>put,post</document>
<defaultMessage>Invalid JSON/XML input.</defaultMessage>
</httpStatusCode>
<httpStatusCode>
<httpCode>500</httpCode>
<document>always</document>
<defaultMessage>The service call has not succeeded.</defaultMessage>
</httpStatusCode>
</httpStatusCodes>
</restModel>
<output>
<html>
<intro>api.html</intro>
</html>
</output>
</configuration>
</plugin>
</plugins>
</build>
<repositories>
<repository>
<id>central</id>
<name>Central Repository</name>
<url>http://repo.maven.apache.org/maven2/ </url>
</repository>
<repository>
<id>ohdsi</id>
<name>repo.ohdsi.org</name>
<url>http://repo.ohdsi.org:8085/nexus/content/repositories/releases</url>
</repository>
<repository>
<id>ohdsi.thirdparty</id>
<name>repo.ohdsi.org</name>
<url>http://repo.ohdsi.org:8085/nexus/content/repositories/thirdparty</url>
</repository>
<repository>
<id>ohdsi.snapshots</id>
<name>repo.ohdsi.org-snapshots</name>
<url>http://repo.ohdsi.org:8085/nexus/content/repositories/snapshots</url>
<releases>
<enabled>false</enabled>
</releases>
<snapshots>
<enabled>true</enabled>
</snapshots>
</repository>
<repository>
<id>springsource.releases</id>
<name>SpringSource GA Repository</name>
<url>http://repo.springsource.org/release</url>
<releases>
<enabled>true</enabled>
</releases>
<snapshots>
<enabled>false</enabled>
</snapshots>
</repository>
<repository>
<id>redshift</id>
<url>http://redshift-maven-repository.s3-website-us-east-1.amazonaws.com/release</url>
</repository>
</repositories>
<pluginRepositories>
<pluginRepository>
<id>miredot</id>
<name>MireDot Releases</name>
<url>http://nexus.qmino.com/content/repositories/miredot</url>
</pluginRepository>
</pluginRepositories>
<dependencyManagement>
<dependencies>
<dependency>
<!-- Import dependency management from Spring Boot -->
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-dependencies</artifactId>
<version>${spring.boot.version}</version>
<type>pom</type>
<scope>import</scope>
</dependency>
<dependency>
<groupId>com.amazon.redshift</groupId>
<artifactId>redshift-jdbc4-no-awssdk</artifactId>
<version>1.2.10.1009</version>
</dependency>
</dependencies>
</dependencyManagement>
<dependencies>
<!-- <dependency> <groupId>org.springframework.boot</groupId> <artifactId>spring-boot-starter-actuator</artifactId>
<version>${spring.boot.version}</version> </dependency> -->
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter</artifactId>
<version>${spring.boot.version}</version>
<exclusions>
<exclusion>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-logging</artifactId>
</exclusion>
</exclusions>
</dependency>
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-web</artifactId>
<version>${spring.boot.version}</version>
</dependency>
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-tomcat</artifactId>
<version>${spring.boot.version}</version>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.springframework.batch</groupId>
<artifactId>spring-batch-core</artifactId>
<version>${spring.batch.version}</version>
</dependency>
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-jdbc</artifactId>
<version>${spring.boot.version}</version>
</dependency>
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-jersey</artifactId>
<version>${spring.boot.version}</version>
</dependency>
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-data-jpa</artifactId>
<version>${spring.boot.version}</version>
</dependency>
<dependency>
<groupId>org.hibernate</groupId>
<artifactId>hibernate-core</artifactId>
<version>5.2.13.Final</version>
</dependency>
<dependency>
<groupId>org.hibernate</groupId>
<artifactId>hibernate-entitymanager</artifactId>
<version>5.2.13.Final</version>
</dependency>
<dependency>
<groupId>javax.servlet</groupId>
<artifactId>javax.servlet-api</artifactId>
<version>3.1.0</version>
<scope>provided</scope>
</dependency>
<dependency>
<groupId>org.ohdsi.sql</groupId>
<artifactId>SqlRender</artifactId>
<version>1.6.1-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>commons-dbutils</groupId>
<artifactId>commons-dbutils</artifactId>
<version>1.6</version>
</dependency>
<dependency>
<groupId>commons-io</groupId>
<artifactId>commons-io</artifactId>
<version>2.4</version>
</dependency>
<dependency>
<groupId>com.sun.xml.security</groupId>
<artifactId>xml-security-impl</artifactId>
<version>1.0</version>
</dependency>
<dependency>
<groupId>org.springframework.boot</groupId>
<artifactId>spring-boot-starter-test</artifactId>
<version>${spring.boot.version}</version>
<scope>test</scope>
</dependency>
<dependency>
<groupId>org.apache.commons</groupId>
<artifactId>commons-lang3</artifactId>
<version>3.3.2</version>
</dependency>
<dependency>
<groupId>org.flywaydb</groupId>
<artifactId>flyway-core</artifactId>
<version>${flyway.version}</version>
</dependency>
<dependency>
<groupId>org.apache.httpcomponents</groupId>
<artifactId>httpclient</artifactId>
<version>4.3.6</version>
</dependency>
<dependency>
<groupId>commons-httpclient</groupId>
<artifactId>commons-httpclient</artifactId>
<version>3.1</version>
</dependency>
<dependency>
<groupId>org.springframework.batch</groupId>
<artifactId>spring-batch-admin-manager</artifactId>
<version>2.0.0.M1</version>
<exclusions>
<exclusion>
<artifactId>freemarker</artifactId>
<groupId>org.freemarker</groupId>
</exclusion>
<exclusion>
<artifactId>commons-dbcp</artifactId>
<groupId>commons-dbcp</groupId>
</exclusion>
</exclusions>
</dependency>
<dependency>
<groupId>org.postgresql</groupId>
<artifactId>postgresql</artifactId>
<version>9.4-1201-jdbc41</version>
<type>jar</type>
</dependency>
<dependency>
<groupId>com.microsoft.sqlserver</groupId>
<artifactId>mssql-jdbc</artifactId>
<version>7.0.0.jre8</version>
</dependency>
<dependency>
<groupId>com.opencsv</groupId>
<artifactId>opencsv</artifactId>
<version>3.7</version>
<type>jar</type>
</dependency>
<dependency>
<groupId>org.eclipse.collections</groupId>
<artifactId>eclipse-collections-api</artifactId>
<version>8.0.0</version>
</dependency>
<dependency>
<groupId>org.eclipse.collections</groupId>
<artifactId>eclipse-collections</artifactId>
<version>8.0.0</version>
</dependency>
<dependency>
<groupId>org.apache.commons</groupId>
<artifactId>commons-collections4</artifactId>
<version>4.1</version>
<type>jar</type>
</dependency>
<dependency>
<groupId>org.apache.shiro</groupId>
<artifactId>shiro-core</artifactId>
<version>1.2.4</version>
</dependency>
<dependency>
<groupId>org.apache.shiro</groupId>
<artifactId>shiro-web</artifactId>
<version>1.2.4</version>
</dependency>
<dependency>
<groupId>org.apache.shiro</groupId>
<artifactId>shiro-spring</artifactId>
<version>1.2.4</version>
</dependency>
<dependency>
<groupId>com.github.dblock.waffle</groupId>
<artifactId>waffle-shiro</artifactId>
<version>1.7.4</version>
</dependency>
<dependency>
<groupId>com.github.dblock.waffle</groupId>
<artifactId>waffle-jna</artifactId>
<version>${waffle.version}</version>
</dependency>
<dependency>
<groupId>io.jsonwebtoken</groupId>
<artifactId>jjwt</artifactId>
<version>0.6.0</version>
</dependency>
<dependency>
<groupId>io.buji</groupId>
<artifactId>buji-pac4j</artifactId>
<version>2.0.2</version>
</dependency>
<dependency>
<groupId>org.pac4j</groupId>
<artifactId>pac4j-oauth</artifactId>
<version>1.9.2</version>
</dependency>
<dependency>
<groupId>org.pac4j</groupId>
<artifactId>pac4j-oidc</artifactId>
<version>1.9.2</version>
</dependency>
<dependency>
<groupId>org.ohdsi</groupId>
<artifactId>circe</artifactId>
<version>1.8.0-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>org.ohdsi</groupId>
<artifactId>hydra</artifactId>
<version>0.0.4-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>org.json</groupId>
<artifactId>json</artifactId>
<version>20170516</version>
</dependency>
<dependency>
<groupId>org.ohdsi</groupId>
<artifactId>featureExtraction</artifactId>
<version>2.2.0-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>com.amazon.redshift</groupId>
<artifactId>redshift-jdbc4-no-awssdk</artifactId>
</dependency>
<dependency>
<groupId>org.springframework.security</groupId>
<artifactId>spring-security-crypto</artifactId>
<version>4.2.3.RELEASE</version>
</dependency>
<dependency>
<groupId>com.zaxxer</groupId>
<artifactId>HikariCP</artifactId>
<version>2.7.2</version>
</dependency>
<dependency>
<groupId>com.google.code.gson</groupId>
<artifactId>gson</artifactId>
</dependency>
<dependency>
<groupId>org.jasypt</groupId>
<artifactId>jasypt-hibernate4</artifactId>
<version>1.9.2</version>
</dependency>
<dependency>
<groupId>org.bouncycastle</groupId>
<artifactId>bcprov-jdk15on</artifactId>
<version>1.59</version>
</dependency>
<dependency>
<groupId>com.odysseusinc.arachne</groupId>
<artifactId>execution-engine-commons</artifactId>
<version>${arachne.version}</version>
</dependency>
<dependency>
<groupId>com.odysseusinc</groupId>
<artifactId>logging</artifactId>
<version>${arachne.version}</version>
</dependency>
<dependency>
<groupId>com.odysseusinc.arachne</groupId>
<artifactId>arachne-scheduler</artifactId>
<version>${arachne.version}</version>
</dependency>
<dependency>
<groupId>org.glassfish.jersey.media</groupId>
<artifactId>jersey-media-multipart</artifactId>
<version>${jersey-media-multipart.version}</version>
</dependency>
<dependency>
<groupId>org.springframework.ldap</groupId>
<artifactId>spring-ldap-core</artifactId>
<version>2.3.2.RELEASE</version>
</dependency>
<dependency>
<groupId>com.odysseusinc</groupId>
<artifactId>data-source-manager</artifactId>
<version>${arachne.version}</version>
</dependency>
<dependency>
<groupId>org.ohdsi</groupId>
<artifactId>standardized-analysis-specs</artifactId>
<version>1.2.0-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>org.ohdsi</groupId>
<artifactId>standardized-analysis-utils</artifactId>
<version>1.2.0-SNAPSHOT</version>
</dependency>
<dependency>
<groupId>org.ohdsi</groupId>
<artifactId>SkeletonCohortCharacterization</artifactId>
<version>1.0.0-SNAPSHOT</version>
<exclusions>
<exclusion>
<groupId>org.ohdsi</groupId>
<artifactId>standardized-analysis-api</artifactId>
</exclusion>
</exclusions>
</dependency>
<dependency>
<groupId>com.cosium.spring.data</groupId>
<artifactId>spring-data-jpa-entity-graph</artifactId>
<version>1.11.03</version>
</dependency>
<dependency>
<groupId>org.pac4j</groupId>
<artifactId>pac4j-cas</artifactId>
<version>1.9.2</version>
</dependency>
<dependency>
<groupId>com.fasterxml.jackson.core</groupId>
<artifactId>jackson-annotations</artifactId>
<version>2.8.7</version>
<type>jar</type>
</dependency>
</dependencies>
<profiles>
<profile>
<id>webapi-oracle</id>
<properties>
<datasource.driverClassName>oracle.jdbc.OracleDriver</datasource.driverClassName>
<datasource.url>jdbc:oracle:thin:@127.0.0.1:1521/ohdsi</datasource.url>
<datasource.username>user</datasource.username>
<datasource.password>password</datasource.password>
<datasource.dialect>oracle</datasource.dialect>
<flyway.datasource.driverClassName>${datasource.driverClassName}</flyway.datasource.driverClassName>
<flyway.datasource.url>${datasource.url}</flyway.datasource.url>
<flyway.datasource.username>user</flyway.datasource.username>
<flyway.datasource.password>pass</flyway.datasource.password>
<datasource.ohdsi.schema>OHDSI</datasource.ohdsi.schema>
<flyway.schemas>${datasource.ohdsi.schema}</flyway.schemas>
<flyway.placeholders.ohdsiSchema>${datasource.ohdsi.schema}</flyway.placeholders.ohdsiSchema>
<spring.batch.repository.tableprefix>${datasource.ohdsi.schema}.BATCH_</spring.batch.repository.tableprefix>
<!--<datasource.validationQuery>SELECT 1 FROM DUAL</datasource.validationQuery>-->
<flyway.locations>classpath:db/migration/oracle</flyway.locations>
<hibernate.dialect>org.hibernate.dialect.Oracle10gDialect</hibernate.dialect>
<security.db.datasource.url>${datasource.url}</security.db.datasource.url>
<security.db.datasource.driverClassName>${datasource.driverClassName}</security.db.datasource.driverClassName>
<security.db.datasource.username>${datasource.username}</security.db.datasource.username>
<security.db.datasource.password>${datasource.password}</security.db.datasource.password>
<security.db.datasource.authenticationQuery>select password from ${security.db.datasource.schema}.user where \
lower(email) = lower(?)</security.db.datasource.authenticationQuery>
</properties>
<dependencies>
<dependency>
<groupId>com.oracle</groupId>
<artifactId>ojdbc6</artifactId>
<version>12.1.0.1</version>
</dependency>
</dependencies>
</profile>
<profile>
<id>webapi-postgresql</id>
<properties>
<datasource.driverClassName>org.postgresql.Driver</datasource.driverClassName>
<datasource.url>jdbc:postgresql://54.209.111.128:5432/vocabularyv5</datasource.url>
<datasource.username>USER</datasource.username>
<datasource.password>PASS</datasource.password>
<datasource.dialect>postgresql</datasource.dialect>
<datasource.ohdsi.schema>ohdsi</datasource.ohdsi.schema>
<flyway.datasource.driverClassName>${datasource.driverClassName}</flyway.datasource.driverClassName>
<flyway.datasource.url>${datasource.url}</flyway.datasource.url>
<flyway.datasource.username>userWithWritesToOhdsiSchema</flyway.datasource.username>
<flyway.datasource.password>PASS</flyway.datasource.password>
<flyway.schemas>${datasource.ohdsi.schema}</flyway.schemas>
<flyway.placeholders.ohdsiSchema>${datasource.ohdsi.schema}</flyway.placeholders.ohdsiSchema>
<flyway.locations>classpath:db/migration/postgresql</flyway.locations>
<spring.batch.repository.tableprefix>${datasource.ohdsi.schema}.BATCH_</spring.batch.repository.tableprefix>
<hibernate.dialect>org.hibernate.dialect.PostgreSQL9Dialect</hibernate.dialect>
<security.db.datasource.url>${datasource.url}</security.db.datasource.url>
<security.db.datasource.driverClassName>${datasource.driverClassName}</security.db.datasource.driverClassName>
<security.db.datasource.username>${datasource.username}</security.db.datasource.username>
<security.db.datasource.password>${datasource.password}</security.db.datasource.password>
<security.db.datasource.authenticationQuery>select password from ${security.db.datasource.schema}.users_data where \
lower(email) = lower(?)</security.db.datasource.authenticationQuery>
</properties>
</profile>
<profile>
<id>webapi-mssql</id>
<properties>
<datasource.driverClassName>com.microsoft.sqlserver.jdbc.SQLServerDriver</datasource.driverClassName>
<datasource.url>jdbc:sqlserver://server</datasource.url>
<datasource.username>USER</datasource.username>
<datasource.password>PASS</datasource.password>
<datasource.dialect>sql server</datasource.dialect>
<datasource.ohdsi.schema>OHDSI_schema</datasource.ohdsi.schema>
<flyway.datasource.driverClassName>${datasource.driverClassName}</flyway.datasource.driverClassName>
<flyway.datasource.url>${datasource.url}</flyway.datasource.url>
<flyway.datasource.username>FLYWAY_USER</flyway.datasource.username>
<flyway.datasource.password>FLYWAY_PASS</flyway.datasource.password>
<flyway.schemas>${datasource.ohdsi.schema}</flyway.schemas>
<flyway.placeholders.ohdsiSchema>${datasource.ohdsi.schema}</flyway.placeholders.ohdsiSchema>
<flyway.locations>classpath:db/migration/sqlserver</flyway.locations>
<spring.batch.repository.tableprefix>${datasource.ohdsi.schema}.BATCH_</spring.batch.repository.tableprefix>
<hibernate.dialect>org.hibernate.dialect.SQLServer2012Dialect</hibernate.dialect>
<security.db.datasource.url>${datasource.url}</security.db.datasource.url>
<security.db.datasource.driverClassName>${datasource.driverClassName}</security.db.datasource.driverClassName>
<security.db.datasource.username>${datasource.username}</security.db.datasource.username>
<security.db.datasource.password>${datasource.password}</security.db.datasource.password>
<security.db.datasource.authenticationQuery>select password from ${security.db.datasource.schema}.user where \
lower(email) = lower(?)</security.db.datasource.authenticationQuery>
</properties>
</profile>
<profile>
<id>webapi-netezza</id>
<properties>
<netezza.enabled>true</netezza.enabled>
</properties>
<dependencies>
<dependency>
<groupId>org.netezza</groupId>
<artifactId>nzjdbc</artifactId>
<version>1.0</version>
</dependency>
</dependencies>
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-install-plugin</artifactId>
<version>2.5.2</version>
<executions>
<execution>
<id>netezza-jdbc</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>org.netezza</groupId>
<artifactId>nzjdbc</artifactId>
<version>1.0</version>
<packaging>jar</packaging>
<file>${basedir}/src/main/extras/netezza/nzjdbc.jar</file>
</configuration>
</execution>
</executions>
</plugin>
</plugins>
</build>
</profile>
<profile>
<id>webapi-impala</id>
<properties>
<impala.enabled>true</impala.enabled>
<!-- Impala JDBC driver path -->
<impala.classpath>...path/to/impala/jdbc/drivers...</impala.classpath>
</properties>
<dependencies>
<dependency>
<groupId>hive</groupId>
<artifactId>hive_metastore</artifactId>
<version>1.0.0</version>
</dependency>
<dependency>
<groupId>hive</groupId>
<artifactId>hive_service</artifactId>
<version>1.0.0</version>
</dependency>
<dependency>
<groupId>com.cloudera</groupId>
<artifactId>ImpalaJDBC41</artifactId>
<version>2.5.42</version>
</dependency>
<dependency>
<groupId>libfb</groupId>
<artifactId>libfb303</artifactId>
<version>0.9.0</version>
</dependency>
<dependency>
<groupId>libthrift</groupId>
<artifactId>libthrift</artifactId>
<version>0.9.0</version>
</dependency>
<dependency>
<groupId>ql</groupId>
<artifactId>ql</artifactId>
<version>1.0.0</version>
</dependency>
<dependency>
<groupId>TCLI</groupId>
<artifactId>TCLI</artifactId>
<version>1.0.0</version>
</dependency>
<dependency>
<groupId>org.apache.zookeeper</groupId>
<artifactId>zookeeper</artifactId>
<version>3.4.6</version>
<type>pom</type>
</dependency>
</dependencies>
<build>
<plugins>
<plugin>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-install-plugin</artifactId>
<version>2.5.2</version>
<executions>
<execution>
<id>impala-jdbc</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>com.cloudera</groupId>
<artifactId>ImpalaJDBC41</artifactId>
<version>2.5.41</version>
<packaging>jar</packaging>
<file>${impala.classpath}/ImpalaJDBC41.jar</file>
</configuration>
</execution>
<execution>
<id>hive_metastore</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>hive</groupId>
<artifactId>hive_metastore</artifactId>
<version>1.0.0</version>
<packaging>jar</packaging>
<file>${impala.classpath}/hive_metastore.jar</file>
</configuration>
</execution>
<execution>
<id>hive_service</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>hive</groupId>
<artifactId>hive_service</artifactId>
<version>1.0.0</version>
<packaging>jar</packaging>
<file>${impala.classpath}/hive_service.jar</file>
</configuration>
</execution>
<execution>
<id>libfb</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>libfb</groupId>
<artifactId>libfb303</artifactId>
<version>0.9.0</version>
<packaging>jar</packaging>
<file>${impala.classpath}/libfb303-0.9.0.jar</file>
</configuration>
</execution>
<execution>
<id>libthrift</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>libthrift</groupId>
<artifactId>libthrift</artifactId>
<version>0.9.0</version>
<packaging>jar</packaging>
<file>${impala.classpath}/libthrift-0.9.0.jar</file>
</configuration>
</execution>
<execution>
<id>ql</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>ql</groupId>
<artifactId>ql</artifactId>
<version>1.0.0</version>
<packaging>jar</packaging>
<file>${impala.classpath}/ql.jar</file>
</configuration>
</execution>
<execution>
<id>TCLI</id>
<phase>initialize</phase>
<goals>
<goal>install-file</goal>
</goals>
<configuration>
<groupId>TCLI</groupId>
<artifactId>TCLI</artifactId>
<version>1.0.0</version>
<packaging>jar</packaging>
<file>${impala.classpath}/TCLIServiceClient.jar</file>
</configuration>
</execution>
</executions>
</plugin>