import jalview.datamodel.SequenceI;
import jalview.gui.JvOptionPane;
-import jalview.io.AppletFormatAdapter;
+import jalview.io.DataSourceType;
import java.io.File;
import java.io.IOException;
import org.testng.annotations.BeforeClass;
-import MCview.PDBfile;
+import mc_view.PDBfile;
/**
* This is not a unit test, rather it is a bulk End-to-End scan for sequences
JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
}
+ /**
+ *
+ * @param args
+ * @j2sIgnore
+ */
public static void main(String[] args)
{
if (args == null || args[0] == null)
public static void testFileParser(String testDir, String[] testFiles)
{
- Set<String> failedFiles = new HashSet<String>();
+ Set<String> failedFiles = new HashSet<>();
int totalSeqScanned = 0, totalFail = 0;
for (String pdbStr : testFiles)
{
JmolParser jtest = null;
try
{
- mctest = new PDBfile(false, false, false, testFile,
- AppletFormatAdapter.FILE);
- jtest = new JmolParser(testFile, AppletFormatAdapter.FILE);
+ mctest = new PDBfile(false, false, false, testFile, DataSourceType.FILE);
+ jtest = new JmolParser(testFile, DataSourceType.FILE);
} catch (IOException e)
{
System.err.println("Exception thrown while parsing : " + pdbStr);