/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
*/
package jalview.io;
-import static org.junit.Assert.*;
+import jalview.gui.JvOptionPane;
import java.io.File;
import java.io.IOException;
-import org.junit.AfterClass;
-import org.junit.BeforeClass;
-import org.junit.Test;
+import org.testng.AssertJUnit;
+import org.testng.annotations.AfterClass;
+import org.testng.annotations.BeforeClass;
+import org.testng.annotations.Test;
/**
* @author jimp
- *
+ *
*/
public class FileIOTester
{
+ @BeforeClass(alwaysRun = true)
+ public void setUpJvOptionPane()
+ {
+ JvOptionPane.setInteractiveMode(false);
+ JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+ }
+
/**
* @throws java.lang.Exception
*/
- @BeforeClass
+ @BeforeClass(alwaysRun = true)
public static void setUpBeforeClass() throws Exception
{
}
/**
* @throws java.lang.Exception
*/
- @AfterClass
+ @AfterClass(alwaysRun = true)
public static void tearDownAfterClass() throws Exception
{
}
+
// TODO: make a better/more comprehensive test harness for identify/io
-
- final static File ALIGN_FILE = new File("test/jalview/io/test_gz_fasta.gz");
- final static File NOTGZALIGN_FILE = new File("test/jalview/io/test_gz_fasta_notgz.gz");
- final static File STARS_FA_FILE1 = new File("test/jalview/io/test_fasta_stars.fa");
- final static File STARS_FA_FILE2 = new File("test/jalview/io/test_fasta_stars2.fa");
- private void assertValidFormat(String fmt, String src, FileParse fp)
+ final static File ALIGN_FILE = new File(
+ "test/jalview/io/test_gz_fasta.gz");
+
+ final static File NOTGZALIGN_FILE = new File(
+ "test/jalview/io/test_gz_fasta_notgz.gz");
+
+ final static File STARS_FA_FILE1 = new File(
+ "test/jalview/io/test_fasta_stars.fa");
+
+ final static File STARS_FA_FILE2 = new File(
+ "test/jalview/io/test_fasta_stars2.fa");
+
+ private void assertValidFormat(FileFormatI fmt, String src, FileParse fp)
+ throws FileFormatException
{
- assertTrue("Couldn't resolve "+src+" as a valid file",fp.isValid());
- String type = new IdentifyFile().Identify(fp);
- assertTrue("Data from '"+src+"' Expected to be '"+fmt+"' identified as '"+type+"'",type.equalsIgnoreCase(fmt));
+ AssertJUnit.assertTrue("Couldn't resolve " + src + " as a valid file",
+ fp.isValid());
+ FileFormatI type = new IdentifyFile().identify(fp);
+ AssertJUnit.assertSame("Data from '" + src + "' Expected to be '" + fmt
+ + "' identified as '" + type + "'", type, fmt);
}
- @Test
+
+ @Test(groups = { "Functional" })
public void testStarsInFasta1() throws IOException
{
String uri;
- FileParse fp = new FileParse(uri=STARS_FA_FILE1.getAbsoluteFile().toString(),AppletFormatAdapter.FILE);
- assertValidFormat("FASTA", uri, fp);
+ FileParse fp = new FileParse(uri = STARS_FA_FILE1.getAbsoluteFile()
+ .toString(), DataSourceType.FILE);
+ assertValidFormat(FileFormat.Fasta, uri, fp);
}
- @Test
+
+ @Test(groups = { "Functional" })
public void testStarsInFasta2() throws IOException
{
String uri;
- FileParse fp = new FileParse(uri=STARS_FA_FILE2.getAbsoluteFile().toString(),AppletFormatAdapter.FILE);
- assertValidFormat("FASTA", uri, fp);
+ FileParse fp = new FileParse(uri = STARS_FA_FILE2.getAbsoluteFile()
+ .toString(), DataSourceType.FILE);
+ assertValidFormat(FileFormat.Fasta, uri, fp);
}
- @Test
+
+ @Test(groups = { "Functional" })
public void testGzipIo() throws IOException
- {
+ {
String uri;
- FileParse fp = new FileParse(uri=ALIGN_FILE.getAbsoluteFile().toURI().toString(),AppletFormatAdapter.URL);
- assertValidFormat("FASTA", uri, fp);
+ FileParse fp = new FileParse(uri = ALIGN_FILE.getAbsoluteFile().toURI()
+ .toString(), DataSourceType.URL);
+ assertValidFormat(FileFormat.Fasta, uri, fp);
}
- @Test
+ @Test(groups = { "Functional" })
public void testGziplocalFileIO() throws IOException
{
String filepath;
- FileParse fp = new FileParse(filepath=ALIGN_FILE.getAbsoluteFile().toString(), AppletFormatAdapter.FILE);
- assertValidFormat("FASTA",filepath, fp);
+ FileParse fp = new FileParse(filepath = ALIGN_FILE.getAbsoluteFile()
+ .toString(), DataSourceType.FILE);
+ assertValidFormat(FileFormat.Fasta, filepath, fp);
}
- @Test
+
+ @Test(groups = { "Functional" })
public void testNonGzipURLIO() throws IOException
{
String uri;
- FileParse fp = new FileParse(uri=NOTGZALIGN_FILE.getAbsoluteFile().toURI().toString(),AppletFormatAdapter.URL);
- assertValidFormat("FASTA",uri, fp);
+ FileParse fp = new FileParse(uri = NOTGZALIGN_FILE.getAbsoluteFile()
+ .toURI().toString(), DataSourceType.URL);
+ assertValidFormat(FileFormat.Fasta, uri, fp);
}
- @Test
+
+ @Test(groups = { "Functional" })
public void testNonGziplocalFileIO() throws IOException
{
String filepath;
- FileParse fp = new FileParse(filepath=NOTGZALIGN_FILE.getAbsoluteFile().toString(), AppletFormatAdapter.FILE);
- assertValidFormat("FASTA",filepath, fp);
+ FileParse fp = new FileParse(filepath = NOTGZALIGN_FILE
+ .getAbsoluteFile().toString(), DataSourceType.FILE);
+ assertValidFormat(FileFormat.Fasta, filepath, fp);
}
}