/// <summary>
/// Constructor
/// </summary>
public SpectraManagerCache(PHRPReader.PeptideMassCalculator peptideMassCalculator)
{
_mzMLManager = new MzMLManager(peptideMassCalculator);
_dtaManager = new DtaManager(peptideMassCalculator);
RegisterEvents(_dtaManager);
RegisterEvents(_mzMLManager);
}
/// <summary>
/// Determine the input spectrum file path, given psmResultsFilePath
/// </summary>
/// <param name="psmResultsFilePath">_fht.txt or _syn.txt file</param>
/// <param name="datasetName">Dataset name</param>
/// <returns></returns>
public string GetSpectrumFilePath(string psmResultsFilePath, string datasetName)
{
var psmResultsFile = new FileInfo(psmResultsFilePath);
if (psmResultsFile.Directory == null)
{
throw new DirectoryNotFoundException("Unable to determine the parent directory for " + psmResultsFilePath);
}
var directoriesToCheck = new List <DirectoryInfo> {
psmResultsFile.Directory
};
if (psmResultsFile.Directory.Parent != null)
{
directoriesToCheck.Add(psmResultsFile.Directory.Parent);
}
foreach (var directory in directoriesToCheck)
{
var mzMLFile = MzMLManager.GetFilePath(directory, datasetName);
var dtaFile = DtaManager.GetFilePath(directory, datasetName);
if (File.Exists(mzMLFile))
{
return(mzMLFile);
}
if (File.Exists(dtaFile))
{
return(dtaFile);
}
}
// _dta.txt or .mzML file not found (checked both the directory with the dataset file and the parent directory)
OnErrorEvent(string.Format("Could not find the spectra file for dataset \"{0}\" in {1} or one directory up", datasetName, psmResultsFile.Directory.FullName));
return(null);
}