X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fio%2FFileFormatsTest.java;h=27cfa5e7fe09e4dd832f9b0bdb9435de92ab7c38;hb=refs%2Fheads%2Fimprovement%2FJAL-3847_some_attempts_to_set_gradle_and_groovy_versions;hp=53f18bf20ba30ff0db4f0d1631976c7bf9586be4;hpb=9e6afa38edbc34c7e989dc643d8c173b677fdbd0;p=jalview.git
diff --git a/test/jalview/io/FileFormatsTest.java b/test/jalview/io/FileFormatsTest.java
index 53f18bf..27cfa5e 100644
--- a/test/jalview/io/FileFormatsTest.java
+++ b/test/jalview/io/FileFormatsTest.java
@@ -1,5 +1,27 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
package jalview.io;
+import java.util.Locale;
+
import static org.testng.Assert.assertEquals;
import static org.testng.Assert.assertFalse;
import static org.testng.Assert.assertNotEquals;
@@ -31,14 +53,15 @@ public class FileFormatsTest
public void testIsIdentifiable()
{
FileFormats formats = FileFormats.getInstance();
- assertTrue(formats.isIdentifiable(formats.forName(FileFormat.Fasta
- .getName())));
- assertTrue(formats.isIdentifiable(formats.forName(FileFormat.MMCif
- .getName())));
- assertTrue(formats.isIdentifiable(formats.forName(FileFormat.Jnet
- .getName())));
- assertTrue(formats.isIdentifiable(formats.forName(FileFormat.Jalview
- .getName())));
+ assertTrue(formats
+ .isIdentifiable(formats.forName(FileFormat.Fasta.getName())));
+ assertTrue(formats
+ .isIdentifiable(formats.forName(FileFormat.MMCif.getName())));
+ assertTrue(formats
+ .isIdentifiable(formats.forName(FileFormat.Jnet.getName())));
+ assertTrue(formats
+ .isIdentifiable(formats.forName(FileFormat.Jalview.getName())));
+ // GenBank/ENA
assertFalse(formats.isIdentifiable(null));
/*
@@ -55,7 +78,7 @@ public class FileFormatsTest
@Test(groups = "Functional")
public void testGetReadableFormats()
{
- String expected = "[Fasta, PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GFF or Jalview features, PDB, mmCIF, Jalview]";
+ String expected = "[Fasta, PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GenBank Flatfile, ENA Flatfile, GFF or Jalview features, PDB, mmCIF, Jalview]";
FileFormats formats = FileFormats.getInstance();
assertEquals(formats.getReadableFormats().toString(), expected);
}
@@ -74,14 +97,14 @@ public class FileFormatsTest
public void testDeregisterFileFormat()
{
String writable = "[Fasta, PFAM, Stockholm, PIR, BLC, AMSA, JSON, PileUp, MSF, Clustal, PHYLIP]";
- String readable = "[Fasta, PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GFF or Jalview features, PDB, mmCIF, Jalview]";
+ String readable = "[Fasta, PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GenBank Flatfile, ENA Flatfile, GFF or Jalview features, PDB, mmCIF, Jalview]";
FileFormats formats = FileFormats.getInstance();
assertEquals(formats.getWritableFormats(true).toString(), writable);
assertEquals(formats.getReadableFormats().toString(), readable);
formats.deregisterFileFormat(FileFormat.Fasta.getName());
writable = "[PFAM, Stockholm, PIR, BLC, AMSA, JSON, PileUp, MSF, Clustal, PHYLIP]";
- readable = "[PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GFF or Jalview features, PDB, mmCIF, Jalview]";
+ readable = "[PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GenBank Flatfile, ENA Flatfile, GFF or Jalview features, PDB, mmCIF, Jalview]";
assertEquals(formats.getWritableFormats(true).toString(), writable);
assertEquals(formats.getReadableFormats().toString(), readable);
@@ -90,7 +113,7 @@ public class FileFormatsTest
*/
formats.registerFileFormat(FileFormat.Fasta);
writable = "[PFAM, Stockholm, PIR, BLC, AMSA, JSON, PileUp, MSF, Clustal, PHYLIP, Fasta]";
- readable = "[PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GFF or Jalview features, PDB, mmCIF, Jalview, Fasta]";
+ readable = "[PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GenBank Flatfile, ENA Flatfile, GFF or Jalview features, PDB, mmCIF, Jalview, Fasta]";
assertEquals(formats.getWritableFormats(true).toString(), writable);
assertEquals(formats.getReadableFormats().toString(), readable);
}
@@ -102,8 +125,10 @@ public class FileFormatsTest
for (FileFormatI ff : FileFormat.values())
{
assertSame(ff, formats.forName(ff.getName()));
- assertSame(ff, formats.forName(ff.getName().toUpperCase()));
- assertSame(ff, formats.forName(ff.getName().toLowerCase()));
+ assertSame(ff,
+ formats.forName(ff.getName().toUpperCase(Locale.ROOT)));
+ assertSame(ff,
+ formats.forName(ff.getName().toLowerCase(Locale.ROOT)));
}
assertNull(formats.forName(null));
assertNull(formats.forName("rubbish"));
@@ -144,8 +169,7 @@ public class FileFormatsTest
* verify the list of file formats registered matches the enum values
*/
FileFormats instance = FileFormats.getInstance();
- Iterator formats = instance.getFormats()
- .iterator();
+ Iterator formats = instance.getFormats().iterator();
FileFormatI[] builtIn = FileFormat.values();
for (FileFormatI ff : builtIn)