Make BioJava compile under java9

sbliven · sbliven · commit 0a3d660677d3 · 2018-06-18T16:11:58.000+02:00
diff --git a/biojava-core/src/main/java/org/biojava/nbio/core/sequence/io/embl/EmblId.java b/biojava-core/src/main/java/org/biojava/nbio/core/sequence/io/embl/EmblId.java
@@ -20,8 +20,6 @@
  */
 package org.biojava.nbio.core.sequence.io.embl;
 
-import jdk.nashorn.internal.ir.annotations.Immutable;
-
 /**
  * This class contains the processed data of embl file
  * Primary accession number
@@ -35,7 +33,6 @@
  * @author Noor Aldeen Al Mbaidin
  * @since 5.0.0
  */
-@Immutable
 public class EmblId {
 
 
diff --git a/biojava-protein-disorder/pom.xml b/biojava-protein-disorder/pom.xml
@@ -84,6 +84,10 @@
 			<groupId>org.apache.logging.log4j</groupId>
 			<artifactId>log4j-core</artifactId>
 		</dependency>
+		<dependency>
+		    <groupId>javax.xml.bind</groupId>
+		    <artifactId>jaxb-api</artifactId>
+		</dependency>
 	</dependencies>
 
 	<properties>
diff --git a/biojava-structure/pom.xml b/biojava-structure/pom.xml
@@ -62,6 +62,11 @@
   			<version>1.1.0</version>
 		</dependency>
 
+		<dependency>
+		    <groupId>javax.xml.bind</groupId>
+		    <artifactId>jaxb-api</artifactId>
+		</dependency>
+
 		<!-- logging dependencies (managed by parent pom, don't set versions or 
 			scopes here) -->
 		<dependency>
diff --git a/pom.xml b/pom.xml
@@ -32,8 +32,8 @@
 		</license>
 	</licenses>
 	<properties>
-		<jdk.version>1.8</jdk.version>
-		<maven.enforcer.jdk-version>1.8</maven.enforcer.jdk-version>
+		<jdk.version>9</jdk.version>
+		<maven.enforcer.jdk-version>9</maven.enforcer.jdk-version>
 		<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
 		<project.build.targetEncoding>UTF-8</project.build.targetEncoding>
 		<!-- needed for failsafe plugin in integrationtest module - JD 2018-03-08 -->
@@ -507,6 +507,11 @@
 				<artifactId>forester</artifactId>
 				<version>1.038</version>
 			</dependency>
+			<dependency>
+			    <groupId>javax.xml.bind</groupId>
+			    <artifactId>jaxb-api</artifactId>
+			    <version>2.3.0</version>
+			</dependency>
 		</dependencies>
 	</dependencyManagement>
 
@@ -518,7 +523,7 @@
 					<aggregate>true</aggregate>
 					<breakiterator>true</breakiterator>
 					<quiet>true</quiet>
-					<source>1.8</source>
+					<source>${jdk.version}</source>
 					<verbose>false</verbose>
 					<linksource>true</linksource>
 
