public void MzMLIndexedReadTest(string inputFileRelativePath, int expectedSpectra)
{
if (!TestPath.FindInputFile(inputFileRelativePath, out var sourceFile))
{
Console.WriteLine("File not found: " + inputFileRelativePath);
return;
}
var reader = new MzMLReader(Path.Combine(TestPath.ExtTestDataDirectory, sourceFile.FullName));
//mzMLType mzMLData = reader.Read();
var mzMLData = new MSData(reader.Read());
Console.WriteLine("Spectrum count: " + mzMLData.Run.SpectrumList.Spectra.Count);
Assert.AreEqual(expectedSpectra, mzMLData.Run.SpectrumList.Spectra.Count, "Spectrum count");
}
public void MzMLIndexedReadTest(string inputFileRelativePath, int expectedSpectra)
{
if (!TestPath.FindInputFile(inputFileRelativePath, out var sourceFile))
{
Console.WriteLine("File not found: " + inputFileRelativePath);
return;
}
var reader = new MzMLReader(sourceFile.FullName);
var mzMLData = reader.Read();
Console.WriteLine("Spectrum count: " + mzMLData.run.spectrumList.count);
Console.WriteLine("Array length: " + mzMLData.run.spectrumList.spectrum.Count);
Assert.AreEqual(expectedSpectra.ToString(), mzMLData.run.spectrumList.count, "Spectrum Count");
Assert.AreEqual(expectedSpectra, mzMLData.run.spectrumList.spectrum.Count, "Array length");
}
public void MzMLIndexedReadTest(string path, int expectedSpectra)
{
var sourceFile = new FileInfo(Path.Combine(TestPath.ExtTestDataDirectory, path));
if (!sourceFile.Exists)
{
Console.WriteLine("File not found: " + sourceFile.FullName);
return;
}
var reader = new MzMLReader(Path.Combine(TestPath.ExtTestDataDirectory, sourceFile.FullName));
//mzMLType mzMLData = reader.Read();
var mzMLData = new MSData(reader.Read());
Console.WriteLine("Spectrum count: " + mzMLData.Run.SpectrumList.Spectra.Count);
Assert.AreEqual(expectedSpectra, mzMLData.Run.SpectrumList.Spectra.Count, "Spectrum count");
}
public void MzMLIndexedReadTest(string path, int expectedSpectra)
{
var sourceFile = new FileInfo(Path.Combine(TestPath.ExtTestDataDirectory, path));
if (!sourceFile.Exists)
{
Console.WriteLine("File not found: " + sourceFile.FullName);
return;
}
var reader = new MzMLReader(sourceFile.FullName);
var mzMLData = reader.Read();
Console.WriteLine("Spectrum count: " + mzMLData.run.spectrumList.count);
Console.WriteLine("Array length: " + mzMLData.run.spectrumList.spectrum.Count);
Assert.AreEqual(expectedSpectra.ToString(), mzMLData.run.spectrumList.count, "Spectrum Count");
Assert.AreEqual(expectedSpectra, mzMLData.run.spectrumList.spectrum.Count, "Array length");
}
public void MzMLWriteTest(string inPath, string outFolderName, int expectedSpectra)
{
var sourceFile = new FileInfo(Path.Combine(TestPath.ExtTestDataDirectory, inPath));
if (!sourceFile.Exists)
{
Console.WriteLine("File not found: " + sourceFile.FullName);
return;
}
if (sourceFile.DirectoryName == null)
{
throw new DirectoryNotFoundException("Cannot determine the parent folder of " + sourceFile.FullName);
}
var outFolder = new DirectoryInfo(Path.Combine(sourceFile.DirectoryName, outFolderName));
if (!outFolder.Exists)
{
outFolder.Create();
}
var outFile = new FileInfo(Path.Combine(outFolder.FullName, sourceFile.Name));
var reader = new MzMLReader(Path.Combine(TestPath.ExtTestDataDirectory, inPath));
var mzMLData = reader.Read();
Console.WriteLine("Spectrum count: " + mzMLData.run.spectrumList.count);
Console.WriteLine("Array length: " + mzMLData.run.spectrumList.spectrum.Count);
Assert.AreEqual(expectedSpectra.ToString(), mzMLData.run.spectrumList.count, "Spectrum Count");
Assert.AreEqual(expectedSpectra, mzMLData.run.spectrumList.spectrum.Count, "Array length");
var writer = new MzMLWriter(Path.Combine(TestPath.ExtTestDataDirectory, outFile.FullName))
{
MzMLType = MzMLSchemaType.MzML
};
writer.Write(mzMLData);
}
