/// <summary>
/// Initializes a new instance of the <see cref="MatrixBase"/> class.
/// </summary>
/// <param name="alphabetCardinality">
/// Alphabet of the matrix.
/// </param>
/// <param name="dimensionality">
/// Dimensionality of the matrix.
/// </param>
/// <param name="builder">
/// Rule for creating the matrix.
/// </param>
public MatrixBase(int alphabetCardinality, int dimensionality, IMatrixBuilder builder)
{
AlphabetCardinality = alphabetCardinality;
ValueList = new ArrayList();
Rank = dimensionality;
for (int i = 0; i < AlphabetCardinality; i++)
{
ValueList.Add(builder.Create(AlphabetCardinality, dimensionality - 1));
}
}
private static void ReadMatrixEntries(StreamReader reader, int nnz, IMatrixBuilder builder)
{
for (int i = 0; i < nnz; ++i)
{
string line = reader.ReadLine();
if (line == null)
{
throw new IOException("Fewer lines than declared in header");
}
(int rowIdx, int colIdx, double value) = ParseEntry(line);
builder[rowIdx, colIdx] = value;
}
}
public void TestInitialize()
{
var mockFileSystem = new MockFileSystem();
var mockValidFile = new MockFileData("55 60\n100 200");
var mockInValidFile = new MockFileData("55 60\n100 A");
var mockEmptyFile = new MockFileData(string.Empty);
mockFileSystem.AddFile(mockPathValid, mockValidFile);
mockFileSystem.AddFile(mockPathInValid, mockInValidFile);
mockFileSystem.AddFile(mockPathEmpty, mockEmptyFile);
matrixBuilder = new MatrixBuilder(mockFileSystem, new MatrixFactory());
}
public HierarchicalClustering(
int minClusterSize,
Func <List <IClusterableMatch>, IDistanceMetric> distanceMetricFactory,
IMatrixBuilder matrixBuilder,
IPrimaryClusterFinder primaryClusterFinder,
ICorrelationWriter correlationWriter,
ProgressData progressData)
{
_minClusterSize = minClusterSize;
_distanceMetricFactory = distanceMetricFactory;
_matrixBuilder = matrixBuilder;
_primaryClusterFinder = primaryClusterFinder;
_correlationWriter = correlationWriter;
_progressData = progressData;
}
public MainWindow(IVolumeCalculator volumeCalculator, IMatrixBuilder matrixBuilder)
{
InitializeComponent();
this.volumeCalculator = volumeCalculator;
this.matrixBuilder = matrixBuilder;
}
/// <summary>
/// Initializes a new instance of the <see cref="MatrixRowCommon"/> class.
/// </summary>
/// <param name="alphabetCardinality">
/// Alphabet of the matrix.
/// </param>
/// <param name="dimensionality">
/// Dimensionality of the matrix.
/// </param>
/// <param name="builder">
/// Creation rule for the matrix.
/// </param>
public MatrixRowCommon(int alphabetCardinality, int dimensionality, IMatrixBuilder builder)
: base(alphabetCardinality, dimensionality, builder)
{
}
public VolumeCalculator(IMatrixBuilder matrixBuilder)
{
this.matrixBuilder = matrixBuilder;
}
