public void validate_loading_spectral_database_from_tsv_in_resources()
{
Stream stream = StreamFinder.GetFileStreamFromResources("Modeling/Spectroscopy/Resources/Spectra.txt", "Vts");
List <ChromophoreSpectrum> myChromophoreList = new List <ChromophoreSpectrum>();
//create 2 sets of values for the tab delimeted file
ChromophoreSpectrum c = new ChromophoreSpectrum();
c.Name = "HbO2";
c.AbsorptionCoefficientUnit = AbsorptionCoefficientUnit.InverseMillimeters;
c.MolarUnit = MolarUnit.None;
c.ChromophoreCoefficientType = ChromophoreCoefficientType.MolarAbsorptionCoefficient;
myChromophoreList.Add(c);
ChromophoreSpectrum c2 = new ChromophoreSpectrum();
c2.Name = "Hb";
c2.AbsorptionCoefficientUnit = AbsorptionCoefficientUnit.InverseMillimeters;
c2.MolarUnit = MolarUnit.None;
c2.ChromophoreCoefficientType = ChromophoreCoefficientType.MolarAbsorptionCoefficient;
myChromophoreList.Add(c2);
var testDictionary = myChromophoreList.ToDictionary();
SpectralDatabase.AppendDatabaseFromFile(testDictionary, stream);
testDictionary.WriteToJson("dictionary3.txt");
Assert.IsTrue(FileIO.FileExists("dictionary3.txt"));
}
/// <summary>
///
/// </summary>
/// <param name="importFiles">the name(s) of the file(s) to import</param>
/// <param name="importPath">the path of the files to import (relative or absolute)</param>
/// <param name="outname">the name of the resulting output xml spectral dictionary</param>
/// <param name="outpath">the output directory of the generated xml dictionary (relative or absolute)</param>
public static ChromophoreSpectrumDictionary ImportSpectraFromFile(
string[] importFiles = null,
string importPath = "",
string outname = "SpectralDictionary",
string outpath = "")
{
if (importFiles == null || importFiles.Length == 0 || string.IsNullOrEmpty(importFiles[0]))
{
importFiles = new string[] { "absorber-*.txt" };
}
var allFiles = importFiles.SelectMany(file => Directory.GetFiles(
importPath ?? Directory.GetCurrentDirectory(), file));
var chromophoreDictionary = new ChromophoreSpectrumDictionary();
logger.Info(() => "Importing spectral data files");
foreach (var file in allFiles)
{
if (File.Exists(file))
{
try
{
logger.Info("Importing file: " + file);
var stream = StreamFinder.GetFileStream(file, FileMode.Open);
SpectralDatabase.AppendDatabaseFromFile(chromophoreDictionary, stream);
}
catch (Exception e)
{
logger.Info("**** An error occurred while importing file: " + file);
logger.Info("Detailed error: " + e.Message);
}
}
}
return(chromophoreDictionary);
}