{
Iterator<Reader> ids = Annotate3D.getRNAMLForPDBId("2GIS");
assertTrue("Didn't retrieve 2GIS by id.", ids != null);
- Iterator<Reader> files = Annotate3D.getRNAMLForPDBFileAsString(FileUtil
- .readFileToString(new File("examples/2GIS.pdb")));
+ Iterator<Reader> files = Annotate3D.getRNAMLForPDBFileAsString(
+ FileUtil.readFileToString(new File("examples/2GIS.pdb")));
assertTrue("Didn't retrieve using examples/2GIS.pdb.", files != null);
int i = 0;
while (ids.hasNext() && files.hasNext())
{
- BufferedReader file = new BufferedReader(files.next()), id = new BufferedReader(
- ids.next());
+ BufferedReader file = new BufferedReader(files.next()),
+ id = new BufferedReader(ids.next());
String iline, fline;
do
{
Assert.assertTrue(pdbf.isValid());
// Comment - should add new FileParse constructor like new FileParse(Reader
// ..). for direct reading
- Iterator<Reader> readers = Annotate3D
- .getRNAMLForPDBFileAsString(FileUtil.readFileToString(new File(
- "examples/2GIS.pdb")));
+ Iterator<Reader> readers = Annotate3D.getRNAMLForPDBFileAsString(
+ FileUtil.readFileToString(new File("examples/2GIS.pdb")));
testRNAMLcontent(readers, pdbf);
}
}
if (struseq == null)
{
- AssertJUnit
- .fail("Couldn't find this sequence in original input:\n"
- + new FastaFile().print(
- new SequenceI[] { sq }, true)
- + "\n\nOriginal input:\n"
- + new FastaFile().print(
- pdbf.getSeqsAsArray(), true) + "\n");
+ AssertJUnit.fail(
+ "Couldn't find this sequence in original input:\n"
+ + new FastaFile().print(new SequenceI[]
+ { sq }, true) + "\n\nOriginal input:\n"
+ + new FastaFile().print(pdbf.getSeqsAsArray(),
+ true)
+ + "\n");
}
}
}