skip invalid cell designer files

converter-SBGNML/src/test/java/lcsb/mapviewer/converter/model/sbgnml/CellDesigner2SbgnmlConversionTest.java

@@ -8,6 +8,7 @@ import java.nio.file.Paths;
 import java.util.ArrayList;
 import java.util.Collection;
 
+import org.apache.commons.io.FileUtils;
 import org.apache.log4j.Logger;
 import org.junit.Test;
 import org.junit.runner.RunWith;
@@ -22,9 +23,9 @@ import lcsb.mapviewer.model.map.model.Model;
 @RunWith(Parameterized.class)
 public class CellDesigner2SbgnmlConversionTest {
 
-	Logger			 logger	= Logger.getLogger(CellDesigner2SbgnmlConversionTest.class.getName());
+	private static Logger	logger = Logger.getLogger(CellDesigner2SbgnmlConversionTest.class.getName());
 
-	private Path testPath;
+	private Path					testPath;
 
 	public CellDesigner2SbgnmlConversionTest(Path testPath) {
 		this.testPath = testPath;
@@ -32,15 +33,19 @@ public class CellDesigner2SbgnmlConversionTest {
 
 	@Parameters(name = "{index} : {0}")
 	public static Collection<Object[]> data() throws IOException {
-		Collection<Object[]> data = new ArrayList<Object[]>();
+		Collection<Object[]> data = new ArrayList<>();
 		Files.walk(Paths.get("../converter-CellDesigner/testFiles")).forEach(fPath -> {
-			if (Files.isRegularFile(fPath) && fPath.toString().endsWith(".xml")) {
-				String tempPath = fPath.toString().substring(fPath.toString().indexOf("testFiles") + "testFiles".length() + 1);
-				if (!tempPath.contains("_full")) {
-					// String tName =
-					// fPath.toString().substring(fPath.toString().indexOf("testFiles") +
-					// "testFiles".length(), fPath.toString().indexOf(".xml"));
-					data.add(new Object[] { fPath });
+			if (Files.isRegularFile(fPath) && fPath.toString().endsWith(".xml")&& fPath.toString().indexOf("invalid")==-1) {
+				try {
+					String tempPath = fPath.toString().substring(fPath.toString().indexOf("testFiles") + "testFiles".length() + 1);
+					if (!tempPath.contains("_full")) {
+						String content = FileUtils.readFileToString(fPath.toFile());
+						if (content.indexOf("xmlns:celldesigner") >= 0) {
+							data.add(new Object[] { fPath });
+						}
+					}
+				} catch (Exception e) {
+					throw new RuntimeException();
 				}
 			}
 		});