public void FindFastaFromater()
{
string dummyFileName = "dummy.fasta";
ISequenceFormatter formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(FastaFormatter), formatter);
dummyFileName = "dummy.fa";
formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(FastaFormatter), formatter);
dummyFileName = "dummy.mpfa";
formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(FastaFormatter), formatter);
dummyFileName = "dummy.fna";
formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(FastaFormatter), formatter);
dummyFileName = "dummy.faa";
formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(FastaFormatter), formatter);
dummyFileName = "dummy.fsa";
formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(FastaFormatter), formatter);
dummyFileName = "dummy.fas";
formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(FastaFormatter), formatter);
}
public void FindGenBankFromatter()
{
string dummyFileName = "dummy.gb";
ISequenceFormatter formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.IsInstanceOf(typeof(GenBankFormatter), formatter);
}
public void ReturnNoFormatter()
{
string dummyFileName = "dummy.abc";
ISequenceFormatter formatter = SequenceFormatters.FindFormatterByFile(dummyFileName);
Assert.AreEqual(formatter, null);
}
/// <summary>
/// Validates general Sequence Parser.
/// </summary>
/// <param name="nodeName">xml node name.</param>
/// <param name="IsParser">IsParser is true if testcases is validating Parsers,
/// false if formatter validation</param>
void ValidateSequenceFileParser(string nodeName, bool IsParser)
{
// Gets the expected sequence from the Xml
string[] filePaths = _utilityObj._xmlUtil.GetTextValues(nodeName,
Constants.FilePathsNode);
string parserDescription = _utilityObj._xmlUtil.GetTextValue(nodeName,
Constants.DescriptionNode);
string parserName = _utilityObj._xmlUtil.GetTextValue(nodeName,
Constants.ParserNameNode);
string fileTypes = _utilityObj._xmlUtil.GetTextValue(nodeName,
Constants.FileTypesNode);
// Get a default parser for the file types.
for (int i = 0; i < filePaths.Length; i++)
{
if (IsParser)
{
ISequenceParser parser = SequenceParsers.FindParserByFile(filePaths[i]);
string description = parser.Description.Replace("\r", "").Replace("\n", "");
// Validate parser name, description and the file type supported by parser.
Assert.AreEqual(parserName, parser.Name);
Assert.AreEqual(parserDescription, description);
Assert.AreEqual(fileTypes, parser.FileTypes);
}
else
{
ISequenceFormatter formatter =
SequenceFormatters.FindFormatterByFile(filePaths[i]);
string description =
formatter.Description.Replace("\r", "").Replace("\n", "");
// Validate parser name, description and the file type supported by parser.
Assert.AreEqual(parserName, formatter.Name);
Assert.AreEqual(parserDescription, description);
Assert.AreEqual(fileTypes, formatter.FileTypes);
}
}
Console.WriteLine(string.Format((IFormatProvider)null,
"SequenceParser : Type of the parser is validated successfully"));
ApplicationLog.WriteLine("Type of the parser is validated successfully");
}