Updates to the pom and refactoring due to mmtf-java

abradle · abradle · commit 978efc7b9cf5 · 2016-04-21T10:45:34.000-07:00
diff --git a/biojava-structure/pom.xml b/biojava-structure/pom.xml
@@ -23,25 +23,25 @@
 		<dependency>
 			<groupId>org.rcsb</groupId>
 			<artifactId>mmtf-api</artifactId>
-			<version>0.0.1-alpha4-SNAPSHOT</version>
+			<version>0.0.1-alpha5-SNAPSHOT</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
 			<groupId>org.rcsb</groupId>
-			<artifactId>mmtf-common</artifactId>
-			<version>0.0.1-alpha4-SNAPSHOT</version>
+			<artifactId>mmtf-serialization</artifactId>
+			<version>0.0.1-alpha5-SNAPSHOT</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
 			<groupId>org.rcsb</groupId>
 			<artifactId>mmtf-decoder</artifactId>
-			<version>0.0.1-alpha4-SNAPSHOT</version>
+			<version>0.0.1-alpha5-SNAPSHOT</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
 			<groupId>org.rcsb</groupId>
 			<artifactId>mmtf-encoder</artifactId>
-			<version>0.0.1-alpha4-SNAPSHOT</version>
+			<version>0.0.1-alpha5-SNAPSHOT</version>
 			<scope>compile</scope>
 		</dependency>
 		<dependency>
diff --git a/biojava-structure/src/main/java/org/biojava/nbio/structure/io/mmtf/MmtfStructureReader.java b/biojava-structure/src/main/java/org/biojava/nbio/structure/io/mmtf/MmtfStructureReader.java
@@ -31,7 +31,7 @@
 import org.biojava.nbio.structure.xtal.CrystalCell;
 import org.biojava.nbio.structure.xtal.SpaceGroup;
 import org.rcsb.mmtf.api.StructureAdapterInterface;
-import org.rcsb.mmtf.dataholders.MmtfEncodedStructure;
+import org.rcsb.mmtf.dataholders.MmtfStructure;
 
 
 /**
@@ -180,7 +180,7 @@ public void setGroupInfo(String groupName, int groupNumber,
 		}
 		group.setChemComp(chemComp);
 		group.setPDBName(groupName);
-		if (insertionCode == MmtfEncodedStructure.UNAVAILABLE_CHAR_VALUE) {
+		if (insertionCode == MmtfStructure.UNAVAILABLE_CHAR_VALUE) {
 			group.setResidueNumber(chain.getChainID().trim(), groupNumber, null);
 		} else {
 			group.setResidueNumber(chain.getChainID().trim(),
