public void TestDrawRgbColorMatrix()
{
// init three matrices
double[,] redM = new double[5, 5];
double[,] grnM = new double[5, 5];
double[,] bluM = new double[5, 5];
//convert some values to null or NaN
redM[1, 1] = double.NaN;
grnM[1, 1] = double.NaN;
bluM[1, 1] = double.NaN;
redM[2, 2] = 1.0;
grnM[2, 2] = 1.0;
bluM[2, 2] = double.NaN;
redM[3, 3] = 0.01;
grnM[3, 3] = 0.01;
bluM[3, 3] = 0.11;
var blueEnhanceParameter = 0.0;
var image = (Bitmap)LDSpectrogramRGB.DrawRgbColorMatrix(redM, grnM, bluM, doReverseColor: true, blueEnhanceParameter);
Assert.That.PixelIsColor(new Point(1, 1), Color.FromArgb(128, 128, 128), image);
Assert.That.PixelIsColor(new Point(2, 2), Color.FromArgb(128, 128, 128), image);
// empty values are rendered as white because of `doReverseColour`
Assert.That.ImageRegionIsColor(Rectangle.FromLTRB(0, 0, 1, 5), Color.FromArgb(255, 255, 255), image);
Assert.That.ImageRegionIsColor(Rectangle.FromLTRB(4, 0, 5, 5), Color.FromArgb(255, 255, 255), image);
}
public static Image <Rgb24> Frame3DSpectrogram(Image <Rgb24> image, string key, int value, int year, string colorMap, TimeSpan xInterval, int nyquistFreq, int unitValue, FileInfo sunriseSetData)
{
if (key == KeyDayOfYear)
{
var title = string.Format("SPECTROGRAM (hours x Herz): {0}={1} (R-G-B={2})", key, value, colorMap, unitValue);
var titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, image.Width);
return(FrameSliceOf3DSpectrogram_DayOfYear(image, titleBar, year, value, xInterval, unitValue, sunriseSetData, nyquistFreq));
}
else
if (key == KeyFreqBin)
{
var title = string.Format("SPECTROGRAM (hours x months): {0}={1} (R-G-B={2})", key, value, colorMap, unitValue);
var titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, image.Width);
return(FrameSliceOf3DSpectrogram_ConstantFreq(image, titleBar, xInterval, unitValue, sunriseSetData, nyquistFreq));
}
else
if (key == KeyMinOfDay)
{
var title = string.Format("SPECTROGRAM (months x Herz): {0}={1} (R-G-B={2})", key, value, colorMap, unitValue);
var titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, image.Width);
return(FrameSliceOf3DSpectrogram_ConstantMin((Image <Rgb24>)image, titleBar, nyquistFreq, unitValue, sunriseSetData));
}
return(null);
}
/// <summary>
/// This method compares the acoustic indices derived from two different long duration recordings of the same length.
/// It takes as input six csv files of acoustic indices in spectrogram columns, three csv files for each of the original recordings to be compared.
/// The method produces one spectrogram image files:
/// 1) A false-colour difference spectrogram, where the difference is shown as a plus/minus departure from grey.
/// </summary>
public static void DrawDifferenceSpectrogram(DirectoryInfo ipdir, FileInfo ipFileName1, FileInfo ipFileName2, DirectoryInfo opdir)
{
var cs1 = new LDSpectrogramRGB(minuteOffset, xScale, sampleRate, frameWidth, colorMap)
{
FileName = ipFileName1.Name,
ColorMode = colorMap,
BackgroundFilter = backgroundFilterCoeff,
};
string[] keys = colorMap.Split('-');
cs1.ReadCsvFiles(ipdir, ipFileName1.Name, keys);
if (cs1.GetCountOfSpectrogramMatrices() == 0)
{
LoggedConsole.WriteLine("There are no spectrogram matrices in cs1.dictionary.");
return;
}
var cs2 = new LDSpectrogramRGB(minuteOffset, xScale, sampleRate, frameWidth, colorMap)
{
FileName = ipFileName2.Name,
ColorMode = colorMap,
BackgroundFilter = backgroundFilterCoeff,
};
cs2.ReadCsvFiles(ipdir, ipFileName2.Name, keys);
if (cs2.GetCountOfSpectrogramMatrices() == 0)
{
LoggedConsole.WriteLine("There are no spectrogram matrices in cs2.dictionary.");
return;
}
//string title1 = String.Format("DIFFERENCE SPECTROGRAM ({0} - {1}) (scale:hours x kHz) (colour: R-G-B={2})", ipFileName1, ipFileName2, cs1.ColorMODE);
//Image deltaSp1 = LDSpectrogramDifference.DrawDifferenceSpectrogram(cs1, cs2, colourGain);
//Image titleBar1 = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title1, deltaSp1.Width, SpectrogramConstants.HEIGHT_OF_TITLE_BAR);
//deltaSp1 = LDSpectrogramRGB.FrameSpectrogram(deltaSp1, titleBar1, minuteOffset, cs1.X_interval, cs1.Y_interval);
//string opFileName1 = ipFileName1 + ".Difference.COLNEG.png";
//deltaSp1.Save(Path.Combine(opdir.FullName, opFileName1));
//Draw positive difference spectrograms in one image.
double colourGain = 2.0;
Image <Rgb24>[] images = DrawPositiveDifferenceSpectrograms(cs1, cs2, colourGain);
int nyquist = cs1.SampleRate / 2;
int herzInterval = 1000;
string title =
$"DIFFERENCE SPECTROGRAM where {ipFileName1} > {ipFileName2}. (scale:hours x kHz) (colour: R-G-B={cs1.ColorMode})";
var titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, images[0].Width);
images[0] = LDSpectrogramRGB.FrameLDSpectrogram(images[0], titleBar, cs1, nyquist, herzInterval);
title = string.Format("DIFFERENCE SPECTROGRAM where {1} > {0} (scale:hours x kHz) (colour: R-G-B={2})", ipFileName1, ipFileName2, cs1.ColorMode);
titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, images[1].Width);
images[1] = LDSpectrogramRGB.FrameLDSpectrogram(images[1], titleBar, cs1, nyquist, herzInterval);
Image combinedImage = ImageTools.CombineImagesVertically(images);
string opFileName = ipFileName1 + "-" + ipFileName2 + ".Difference.png";
combinedImage.Save(Path.Combine(opdir.FullName, opFileName));
}
public static Image DrawTStatisticSpectrogramsOfSingleIndex(string key, LDSpectrogramRGB cs1, LDSpectrogramRGB cs2, double tStatThreshold)
{
var image1 = cs1.DrawGreyscaleSpectrogramOfIndex(key);
var image2 = cs2.DrawGreyscaleSpectrogramOfIndex(key);
if (image1 == null || image2 == null)
{
Console.WriteLine("WARNING: From method ColourSpectrogram.DrawTStatisticGreyscaleSpectrogramOfIndex()");
Console.WriteLine(" Null image returned with key: {0}", key);
return(null);
}
//frame image 1
int nyquist = cs1.SampleRate / 2;
int herzInterval = 1000;
string title = $"{key} SPECTROGRAM for: {cs1.FileName}. (scale:hours x kHz)";
var titleBar = LDSpectrogramRGB.DrawTitleBarOfGrayScaleSpectrogram(title, image1.Width);
image1 = LDSpectrogramRGB.FrameLDSpectrogram(image1, titleBar, cs1, nyquist, herzInterval);
//frame image 2
title = $"{key} SPECTROGRAM for: {cs2.FileName}. (scale:hours x kHz)";
titleBar = LDSpectrogramRGB.DrawTitleBarOfGrayScaleSpectrogram(title, image2.Width);
image2 = LDSpectrogramRGB.FrameLDSpectrogram(image2, titleBar, cs1, nyquist, herzInterval);
//get matrices required to calculate matrix of t-statistics
double[,] avg1 = cs1.GetSpectrogramMatrix(key);
if (key.Equals("ENT"))
{
avg1 = MatrixTools.SubtractValuesFromOne(avg1);
}
double[,] std1 = cs1.GetStandarDeviationMatrix(key);
double[,] avg2 = cs2.GetSpectrogramMatrix(key);
if (key.Equals("ENT"))
{
avg2 = MatrixTools.SubtractValuesFromOne(avg2);
}
double[,] std2 = cs2.GetStandarDeviationMatrix(key);
//draw a spectrogram of t-statistic values
//double[,] tStatMatrix = SpectrogramDifference.GetTStatisticMatrix(avg1, std1, cs1.SampleCount, avg2, std2, cs2.SampleCount);
//Image image3 = SpectrogramDifference.DrawTStatisticSpectrogram(tStatMatrix);
//titleBar = SpectrogramDifference.DrawTitleBarOfTStatisticSpectrogram(cs1.BaseName, cs2.BaseName, image1.Width, titleHt);
//image3 = ColourSpectrogram.FrameSpectrogram(image3, titleBar, minOffset, cs2.X_interval, cs2.Y_interval);
//draw a difference spectrogram derived from by thresholding a t-statistic matrix
var image4 = DrawDifferenceSpectrogramDerivedFromSingleTStatistic(key, cs1, cs2, tStatThreshold, ColourGain);
title = string.Format("{0} DIFFERENCE SPECTROGRAM (thresholded by t-statistic={3}) for: {1} - {2}. (scale:hours x kHz)", key, cs1.FileName, cs2.FileName, tStatThreshold);
titleBar = LDSpectrogramRGB.DrawTitleBarOfGrayScaleSpectrogram(title, image2.Width);
image4 = LDSpectrogramRGB.FrameLDSpectrogram(image4, titleBar, cs2, nyquist, herzInterval);
var combinedImage = ImageTools.CombineImagesVertically(image1, image2, image4);
return(combinedImage);
}
/// <summary>
/// This is cut down version of the method of same name in LDSpectrogramRGB.cs.
/// </summary>
/// <param name="ldSpectrogramConfig">config for ldfc spectrogram.</param>
/// <param name="outputDirectory">outputDirectory.</param>
/// <param name="indexGenerationData">indexGenerationData.</param>
/// <param name="basename">stem name of the original recording.</param>
/// <param name="indexSpectrograms">Optional spectra to pass in. If specified the spectra will not be loaded from disk!.</param>
private static string DrawSpectrogramsFromSpectralIndices(
LdSpectrogramConfig ldSpectrogramConfig,
DirectoryInfo outputDirectory,
IndexGenerationData indexGenerationData,
string basename,
Dictionary <string, double[, ]> indexSpectrograms = null)
{
string colorMap1 = ldSpectrogramConfig.ColorMap1; // SpectrogramConstants.RGBMap_ACI_ENT_EVN;
string colorMap2 = ldSpectrogramConfig.ColorMap2; // SpectrogramConstants.RGBMap_BGN_PMN_OSC;
double blueEnhanceParameter = ldSpectrogramConfig.BlueEnhanceParameter.Value;
var cs1 = new LDSpectrogramRGB(ldSpectrogramConfig, indexGenerationData, colorMap1);
string fileStem = basename;
cs1.FileName = fileStem;
// calculate start time by combining DatetimeOffset with minute offset.
cs1.StartOffset = indexGenerationData.AnalysisStartOffset;
if (indexGenerationData.RecordingStartDate.HasValue)
{
DateTimeOffset dto = (DateTimeOffset)indexGenerationData.RecordingStartDate;
cs1.RecordingStartDate = dto;
if (dto != null)
{
cs1.StartOffset = dto.TimeOfDay + cs1.StartOffset;
}
}
var indexProperties = IndexCalculateSixOnly.GetIndexProperties();
cs1.SetSpectralIndexProperties(indexProperties);
// Load the Index Spectrograms into a Dictionary
cs1.LoadSpectrogramDictionary(indexSpectrograms);
if (cs1.GetCountOfSpectrogramMatrices() == 0)
{
Log.Error("No spectrogram matrices in the dictionary. Spectrogram files do not exist?");
throw new InvalidOperationException("Cannot find spectrogram matrix files");
}
// draw all available gray scale index spectrograms.
var keys = indexProperties.Keys.ToArray();
cs1.DrawGreyScaleSpectrograms(outputDirectory, fileStem, keys);
// create two false-color spectrogram images
var image1NoChrome = cs1.DrawFalseColorSpectrogramChromeless(cs1.ColorMode, colorMap1, blueEnhanceParameter);
var image2NoChrome = cs1.DrawFalseColorSpectrogramChromeless(cs1.ColorMode, colorMap2, blueEnhanceParameter);
var spacer = new Image <Rgb24>(image1NoChrome.Width, 10);
var imageList = new[] { image1NoChrome, spacer, image2NoChrome, spacer };
Image image3 = ImageTools.CombineImagesVertically(imageList);
var outputPath = FilenameHelpers.AnalysisResultPath(outputDirectory, fileStem, "2Maps", "png");
image3.Save(outputPath);
return(outputPath);
}
// #######################################################################################################################################
// ### ABOVE METHODS DRAW TIME GRID LINES ON SPECTROGRAMS ####################################################################################
// #######################################################################################################################################
public static Image <Rgb24> GetImageFullyAnnotated(Image <Rgb24> image, string title, int[,] gridLineLocations, TimeSpan duration)
{
if (image == null)
{
throw new ArgumentNullException(nameof(image));
}
FrequencyScale.DrawFrequencyLinesOnImage((Image <Rgb24>)image, gridLineLocations, includeLabels: true);
var titleBar = LDSpectrogramRGB.DrawTitleBarOfGrayScaleSpectrogram(title, image.Width);
var timeBmp = ImageTrack.DrawTimeTrack(duration, image.Width);
var compositeImage = ImageTools.CombineImagesVertically(titleBar, timeBmp, image, timeBmp);
return(compositeImage);
}
public void TestChromelessImage()
{
var indexPropertiesFile = ConfigFile.Default <IndexPropertiesCollection>();
var indexProperties = ConfigFile.Deserialize <IndexPropertiesCollection>(indexPropertiesFile);
var indexSpectrograms = new Dictionary <string, double[, ]>(6);
var indexStatistics = new Dictionary <string, IndexDistributions.SpectralStats>();
var keys = (LDSpectrogramRGB.DefaultColorMap1 + "-" + LDSpectrogramRGB.DefaultColorMap2).Split('-');
foreach (var key in keys)
{
var matrix = new double[256, 60].Fill(indexProperties[key].DefaultValue);
indexSpectrograms.Add(key, matrix);
double[] array = DataTools.Matrix2Array(matrix);
indexStatistics.Add(key, IndexDistributions.GetModeAndOneTailedStandardDeviation(array, 300, IndexDistributions.UpperPercentileDefault));
}
var images = LDSpectrogramRGB.DrawSpectrogramsFromSpectralIndices(
inputDirectory: null,
outputDirectory: this.outputDirectory,
ldSpectrogramConfig: new LdSpectrogramConfig(),
indexPropertiesConfigPath: indexPropertiesFile,
indexGenerationData: new IndexGenerationData()
{
AnalysisStartOffset = 0.Seconds(),
FrameLength = 512,
IndexCalculationDuration = 60.0.Seconds(),
RecordingBasename = "RGB_TEST",
RecordingDuration = 60.0.Seconds(),
SampleRateResampled = 22050,
},
basename: "RGB_TEST",
analysisType: AcousticIndices.AnalysisName,
indexSpectrograms: indexSpectrograms,
summaryIndices: Enumerable
.Range(0, 60)
.Select((x) => new SummaryIndexValues(60.0.Seconds(), indexProperties))
.Cast <SummaryIndexBase>()
.ToArray(),
indexStatistics: indexStatistics,
imageChrome: ImageChrome.Without);
foreach (var(image, key) in images)
{
Assert.That.ImageIsSize(60, 256, image);
Assert.That.ImageRegionIsColor(Rectangle.FromLTRB(0, 0, 60, 256), Color.Black, (Bitmap)image);
}
}
public static Image DrawFalseColorSpectrograms(Arguments args, string fileStem, Dictionary <string, IndexProperties> indexProperties, Dictionary <string, double[, ]> spectra = null)
{
// note: the spectra are oriented as per visual orientation, i.e. xAxis = time framesDictionary<string, Int16>.KeyCollection keys = AuthorList.Keys
// string[] keys = spectra.Keys.ToCommaSeparatedList().Split(',');
// int frameCount = spectra[keys[0]].GetLength(1);
int sampleRate = 22050;
int frameWidth = 512;
double backgroundFilter = 0.75; // 0.75 means small values are accentuated.
var minuteOffset = TimeSpan.Zero;
var dataScale = args.TemporalScale;
string colorMap = args.ColourMap1 ?? LDSpectrogramRGB.DefaultColorMap1;
var cs1 = new LDSpectrogramRGB(minuteOffset, dataScale, sampleRate, frameWidth, colorMap)
{
FileName = fileStem,
BackgroundFilter = backgroundFilter,
IndexCalculationDuration = dataScale,
};
// set the relevant dictionary of index properties
cs1.SetSpectralIndexProperties(indexProperties);
cs1.SpectrogramMatrices = spectra;
// get parameter from the config file.
var configFile = args.FalseColourSpectrogramConfig.ToFileInfo();
var config = LdSpectrogramConfig.ReadYamlToConfig(configFile);
var blueEnhanceParameter = config.BlueEnhanceParameter ?? 0.0;
var image1 = cs1.DrawFalseColorSpectrogramChromeless("NEGATIVE", colorMap, blueEnhanceParameter);
var fullDuration = TimeSpan.FromSeconds(image1.Width * dataScale.TotalSeconds);
string title = fileStem;
var titleImage = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, image1.Width);
int trackHeight = 20;
var timeScale = ImageTrack.DrawTimeRelativeTrack(fullDuration, image1.Width, trackHeight);
colorMap = args.ColourMap2 ?? LDSpectrogramRGB.DefaultColorMap2;
var image2 = cs1.DrawFalseColorSpectrogramChromeless("NEGATIVE", colorMap, blueEnhanceParameter);
var list = new List <Image> {
titleImage, image1, timeScale, image2
};
var combinedImage = ImageTools.CombineImagesVertically(list.ToArray());
return(combinedImage);
}
public Image GetImageFullyAnnotated(Image image, string title, int[,] gridLineLocations)
{
if (image == null)
{
throw new ArgumentNullException(nameof(image));
}
FrequencyScale.DrawFrequencyLinesOnImage((Bitmap)image, gridLineLocations, includeLabels: true);
var titleBar = LDSpectrogramRGB.DrawTitleBarOfGrayScaleSpectrogram(title, image.Width);
var timeBmp = ImageTrack.DrawTimeTrack(this.Duration, image.Width);
var list = new List <Image> {
titleBar, timeBmp, image, timeBmp
};
var compositeImage = ImageTools.CombineImagesVertically(list);
return(compositeImage);
}
public static Image DrawDifferenceSpectrogram(LDSpectrogramRGB target, LDSpectrogramRGB reference, double colourGain)
{
string[] keys = target.ColorMap.Split('-');
double[,] tgtRedM = target.GetNormalisedSpectrogramMatrix(keys[0]);
double[,] tgtGrnM = target.GetNormalisedSpectrogramMatrix(keys[1]);
double[,] tgtBluM = target.GetNormalisedSpectrogramMatrix(keys[2]);
double[,] refRedM = reference.GetNormalisedSpectrogramMatrix(keys[0]);
double[,] refGrnM = reference.GetNormalisedSpectrogramMatrix(keys[1]);
double[,] refBluM = reference.GetNormalisedSpectrogramMatrix(keys[2]);
// assume all matricies are normalised and of the same dimensions
int rows = tgtRedM.GetLength(0); //number of rows
int cols = tgtRedM.GetLength(1); //number
Image <Rgb24> bmp = new Image <Rgb24>(cols, rows);
int maxRGBValue = 255;
for (int row = 0; row < rows; row++)
{
for (int column = 0; column < cols; column++)
{
var d1 = (tgtRedM[row, column] - refRedM[row, column]) * colourGain;
var d2 = (tgtGrnM[row, column] - refGrnM[row, column]) * colourGain;
var d3 = (tgtBluM[row, column] - refBluM[row, column]) * colourGain;
var i1 = 127 + Convert.ToInt32(d1 * maxRGBValue);
i1 = Math.Max(0, i1);
i1 = Math.Min(maxRGBValue, i1);
var i2 = 127 + Convert.ToInt32(d2 * maxRGBValue);
i2 = Math.Max(0, i2);
i2 = Math.Min(maxRGBValue, i2);
var i3 = 127 + Convert.ToInt32(d3 * maxRGBValue);
i3 = Math.Max(0, i3);
i3 = Math.Min(maxRGBValue, i3);
//Color colour = Color.FromRgb(i1, i2, i3);
bmp[column, row] = Color.FromRgb((byte)i1, (byte)i2, (byte)i3);
}
}
return(bmp);
}
/// <summary>
/// ONLY Use this concatenation method when you want to concatenate the files for a fixed single day.
/// The files to be concatenated must be somewhere in the subdirectory structure of the passed list of data directories
/// Read them into a dictionary
/// MOST RECENT METHOD TO CONCATENATE Spectral INDEX.CSV FILES - Early September 2015.
/// It is designed to deal with Yvonne's case where want to concatenate files distributed over arbitrary directories.
/// It only merges files for the passed fixed date. i.e only 24 hours
/// </summary>
public static void DrawSpectralIndexFiles(
Dictionary <string, double[, ]> dictionary,
LdSpectrogramConfig sgConfig,
IndexGenerationData indexGenerationData,
FileInfo indexPropertiesConfigFileInfo,
DirectoryInfo opDir,
SiteDescription siteDescription,
FileInfo sunriseDataFile = null,
List <GapsAndJoins> segmentErrors = null)
{
// derive new indices such as sqrt(PMN), NCDI etc -- main reason for this is to view what their distributions look like.
dictionary = IndexMatrices.AddDerivedIndices(dictionary);
// Calculate the index distribution statistics and write to a json file. Also save as png image
if (indexGenerationData.RecordingStartDate != null)
{
DateTimeOffset dto = (DateTimeOffset)indexGenerationData.RecordingStartDate;
string dateString = $"{dto.Year}{dto.Month:D2}{dto.Day:D2}";
string opFileStem = $"{siteDescription.SiteName}_{dateString}";
var indexDistributions = IndexDistributions.WriteSpectralIndexDistributionStatistics(dictionary, opDir, opFileStem);
//SummaryIndexBase[] summaryIndices = null;
string analysisType = "Towsey.Acoustic";
Tuple <Image, string>[] tuple = LDSpectrogramRGB.DrawSpectrogramsFromSpectralIndices(
opDir, // topLevelDirectories[0], // this should not be required but it is - because things have gotten complicated !
opDir,
sgConfig,
indexPropertiesConfigFileInfo,
indexGenerationData,
opFileStem,
analysisType,
dictionary,
null, //summaryIndices,
indexDistributions,
siteDescription,
sunriseDataFile,
segmentErrors,
ImageChrome.With);
}
}
public static double[,] GetTStatisticMatrix(string key, LDSpectrogramRGB cs1, LDSpectrogramRGB cs2)
{
double[,] avg1 = cs1.GetSpectrogramMatrix(key);
if (key.Equals("TEN"))
{
avg1 = MatrixTools.SubtractValuesFromOne(avg1);
}
double[,] std1 = cs1.GetStandarDeviationMatrix(key);
double[,] avg2 = cs2.GetSpectrogramMatrix(key);
if (key.Equals("TEN"))
{
avg2 = MatrixTools.SubtractValuesFromOne(avg2);
}
double[,] std2 = cs2.GetStandarDeviationMatrix(key);
double[,] tStatMatrix = GetTStatisticMatrix(avg1, std1, cs1.SampleCount, avg2, std2, cs2.SampleCount);
return(tStatMatrix);
}
/// <summary>
/// This method draws a spectrogram with other useful information attached.
/// </summary>
/// <param name="sonogram">of BaseSonogram class.</param>
/// <param name="events">a list of acoustic events.</param>
/// <param name="plots">a list of plots relevant to the spectrogram scores.</param>
/// <param name="hits">not often used - can be null.</param>
public static Image <Rgb24> GetSonogramPlusCharts(
BaseSonogram sonogram,
List <EventCommon> events,
List <Plot> plots,
double[,] hits)
{
var spectrogram = sonogram.GetImage(doHighlightSubband: false, add1KHzLines: true, doMelScale: false);
Contract.RequiresNotNull(spectrogram, nameof(spectrogram));
var height = spectrogram.Height;
var width = spectrogram.Width;
var frameSize = sonogram.Configuration.WindowSize;
//var segmentDuration = sonogram.Duration;
var spectrogramDuration = width * sonogram.FrameStep;
// init with linear frequency scale and draw freq grid lines on image
int hertzInterval = 1000;
if (height < 200)
{
hertzInterval = 2000;
}
var nyquist = sonogram.NyquistFrequency;
var freqScale = new FrequencyScale(nyquist, frameSize, hertzInterval);
FrequencyScale.DrawFrequencyLinesOnImage(spectrogram, freqScale.GridLineLocations, includeLabels: true);
// draw event outlines onto spectrogram.
if (events != null && events.Count > 0)
{
foreach (SpectralEvent ev in events)
{
var options = new EventRenderingOptions(new UnitConverters(ev.SegmentStartSeconds, spectrogramDuration, nyquist, width, height));
spectrogram.Mutate(x => ev.Draw(x, options));
}
}
// now add in hits to the spectrogram image.
if (hits != null)
{
spectrogram = Image_MultiTrack.OverlayScoresAsRedTransparency(spectrogram, hits);
}
int pixelWidth = spectrogram.Width;
var titleBar = LDSpectrogramRGB.DrawTitleBarOfGrayScaleSpectrogram("TITLE", pixelWidth);
var timeTrack = ImageTrack.DrawTimeTrack(sonogram.Duration, pixelWidth);
var imageList = new List <Image <Rgb24> >
{
titleBar,
timeTrack,
spectrogram,
timeTrack,
};
if (plots != null)
{
foreach (var plot in plots)
{
// Next line assumes plot data normalised in 0,1
var plotImage = plot.DrawAnnotatedPlot(ImageTrack.DefaultHeight);
// the following draws same plot without the title.
//var plotImage = ImageTrack.DrawScoreArrayTrack(plot.data, plot.threshold, pixelWidth);
imageList.Add(plotImage);
}
}
var compositeImage = ImageTools.CombineImagesVertically(imageList);
return(compositeImage);
}
public static Image DrawIndexSpectrogramCommon(
LdSpectrogramConfig config,
IndexGenerationData indexGenerationData,
Dictionary <string, IndexProperties> indexProperties,
TimeSpan startTime,
TimeSpan endTime,
TimeSpan dataScale,
TimeSpan imageScale,
int imageWidth,
Dictionary <string, double[, ]> spectra,
string basename)
{
double scalingFactor = Math.Round(imageScale.TotalMilliseconds / dataScale.TotalMilliseconds);
Contract.Requires(scalingFactor >= 1.0, $"Compression scale `{scalingFactor}`is invalid");
// calculate data duration from column count of abitrary matrix
//TimeSpan dataDuration = TimeSpan.FromSeconds(matrix.GetLength(1) * dataScale.TotalSeconds);
int columnCount = spectra.FirstValue().GetLength(1);
var startIndex = (int)(startTime.Ticks / dataScale.Ticks);
var endIndex = (int)(endTime.Ticks / dataScale.Ticks);
Contract.Ensures(endIndex <= columnCount);
// extract subset of target data
var spectralSelection = new Dictionary <string, double[, ]>();
foreach (string key in spectra.Keys)
{
var matrix = spectra[key];
int rowCount = matrix.GetLength(0);
spectralSelection[key] = MatrixTools.Submatrix(matrix, 0, startIndex, rowCount - 1, endIndex - 1);
Contract.Ensures(
spectralSelection[key].GetLength(1) == (endTime - startTime).Ticks / dataScale.Ticks,
"The expected number of frames should be extracted.");
}
// compress spectrograms to correct scale
if (scalingFactor > 1)
{
// we add rounding to the compression so that fractional pixels get rendered
spectralSelection = IndexMatrices.CompressIndexSpectrograms(
spectralSelection,
imageScale,
dataScale,
d => Math.Round(d, MidpointRounding.AwayFromZero));
}
else
{
// this else is unnecessary - completely defensive code
Contract.Ensures(scalingFactor == 1);
}
// check that have not compressed matrices to zero length
if (spectralSelection.FirstValue().GetLength(0) == 0 || spectralSelection.FirstValue().GetLength(1) == 0)
{
throw new InvalidOperationException("Spectral matrices compressed to zero size");
}
// DEFINE the DEFAULT colour maps for the false-colour spectrograms
// Then obtain values from spectrogramDrawingConfig. NOTE: WE REQUIRE LENGTH = 11 chars.
string colorMap1 = "ACI-ENT-EVN";
if (config.ColorMap1 != null && config.ColorMap1.Length == 11)
{
colorMap1 = config.ColorMap1;
}
string colorMap2 = "BGN-PMN-EVN";
if (config.ColorMap2 != null && config.ColorMap2.Length == 11)
{
colorMap2 = config.ColorMap2;
}
double backgroundFilterCoeff = indexGenerationData.BackgroundFilterCoeff;
// double colourGain = (double?)configuration.ColourGain ?? SpectrogramConstants.COLOUR_GAIN; // determines colour saturation
var cs1 = new LDSpectrogramRGB(config, indexGenerationData, colorMap1)
{
FileName = basename,
BackgroundFilter = backgroundFilterCoeff,
};
cs1.SetSpectralIndexProperties(indexProperties); // set the relevant dictionary of index properties
cs1.LoadSpectrogramDictionary(spectralSelection);
// set up piecewise linear function to determine colour weights
var logResolution = Math.Log(imageScale.TotalMilliseconds, 2);
double upperResolution = Math.Log(32768, 2);
double lowerResolution = Math.Log(256, 2);
double range = upperResolution - lowerResolution;
double blendWeight1;
if (logResolution >= upperResolution)
{
blendWeight1 = 1.0;
}
else if (logResolution <= lowerResolution)
{
blendWeight1 = 0.0;
}
else
{
blendWeight1 = (logResolution - lowerResolution) / range;
}
double blendWeight2 = 1 - blendWeight1;
//else if (imageScaleInMsPerPixel > 2000)
//{
// blendWeight1 = 0.7;
// blendWeight2 = 0.3;
//}
//else if (imageScaleInMsPerPixel > 1000)
//{
// blendWeight1 = 0.3;
// blendWeight2 = 0.7;
//}
//else if (imageScaleInMsPerPixel > 500)
//{
// // > 0.5 seconds
// blendWeight1 = 0.2;
// blendWeight2 = 0.8;
//}
//else if (imageScaleInMsPerPixel > 300)
//{
// // > 0.5 seconds
// blendWeight1 = 0.1;
// blendWeight2 = 0.9;
//}
var ldfcSpectrogram = cs1.DrawBlendedFalseColourSpectrogram(colorMap1, colorMap2, blendWeight1, blendWeight2);
if (ldfcSpectrogram == null)
{
throw new InvalidOperationException("Null Image returned from DrawBlendedFalseColourSpectrogram");
}
return(ldfcSpectrogram);
}
/// <summary>
/// This method compares the acoustic indices derived from two different long duration recordings of the same length.
/// It takes as input six csv files of acoustic indices in spectrogram columns, three csv files for each of the original recordings to be compared.
/// The method produces four spectrogram image files:
/// 1) A triple image. Top: The spectrogram for index 1, recording 1.
/// Middle: The spectrogram for index 1, recording 2.
/// Bottom: A t-statistic thresholded difference spectrogram for INDEX 1 (derived from recordings 1 and 2).
/// 2) A triple image. Top: The spectrogram for index 2, recording 1.
/// Middle: The spectrogram for index 2, recording 2.
/// Bottom: A t-statistic thresholded difference spectrogram for INDEX 2 (derived from recordings 1 and 2).
/// 3) A triple image. Top: The spectrogram for index 3, recording 1.
/// Middle: The spectrogram for index 3, recording 2.
/// Bottom: A t-statistic thresholded difference spectrogram for INDEX 3 (derived from recordings 1 and 2).
/// 4) A double image. Top: A t-statistic thresholded difference spectrogram (t-statistic is positive).
/// Bottom: A t-statistic thresholded difference spectrogram (t-statistic is negative).
/// </summary>
public static void DrawTStatisticThresholdedDifferenceSpectrograms(DirectoryInfo ipdir, FileInfo ipFileName1, FileInfo ipSdFileName1,
FileInfo ipFileName2, FileInfo ipSdFileName2,
DirectoryInfo opdir)
{
string opFileName1 = ipFileName1.Name;
var cs1 = new LDSpectrogramRGB(minuteOffset, xScale, sampleRate, frameWidth, colorMap)
{
FileName = opFileName1,
ColorMode = colorMap,
BackgroundFilter = backgroundFilterCoeff,
};
string[] keys = colorMap.Split('-');
cs1.ReadCsvFiles(ipdir, ipFileName1.Name, keys);
// string imagePath = Path.Combine(opdir.FullName, opFileName1 + ".COLNEG.png");
string opFileName2 = ipFileName2.Name;
var cs2 = new LDSpectrogramRGB(minuteOffset, xScale, sampleRate, frameWidth, colorMap)
{
FileName = opFileName2,
ColorMode = colorMap,
BackgroundFilter = backgroundFilterCoeff,
};
cs2.ReadCsvFiles(ipdir, ipFileName2.Name, keys);
bool allOk = true;
int sampleCount = 30;
allOk = cs1.ReadStandardDeviationSpectrogramCsvs(ipdir, ipSdFileName1.Name);
if (!allOk)
{
Console.WriteLine("Cannot do t-test comparison because error reading standard deviation file: {0}", ipSdFileName1.Name);
return;
}
cs1.SampleCount = sampleCount;
allOk = cs2.ReadStandardDeviationSpectrogramCsvs(ipdir, ipSdFileName2.Name);
if (!allOk)
{
Console.WriteLine("Cannot do t-test comparison because error reading standard deviation file: {0}", ipSdFileName2.Name);
return;
}
cs2.SampleCount = sampleCount;
string key = "ACI";
var tStatIndexImage = DrawTStatisticSpectrogramsOfSingleIndex(key, cs1, cs2, tStatThreshold);
string opFileName3 = ipFileName1 + ".tTest." + key + ".png";
tStatIndexImage.Save(Path.Combine(opdir.FullName, opFileName3));
key = "TEN";
tStatIndexImage = DrawTStatisticSpectrogramsOfSingleIndex(key, cs1, cs2, tStatThreshold);
opFileName3 = ipFileName1 + ".tTest." + key + ".png";
tStatIndexImage.Save(Path.Combine(opdir.FullName, opFileName3));
key = "CVR";
tStatIndexImage = DrawTStatisticSpectrogramsOfSingleIndex(key, cs1, cs2, tStatThreshold);
opFileName3 = ipFileName1 + ".tTest." + key + ".png";
tStatIndexImage.Save(Path.Combine(opdir.FullName, opFileName3));
tStatIndexImage = DrawTStatisticSpectrogramsOfMultipleIndices(cs1, cs2, tStatThreshold, ColourGain);
opFileName3 = ipFileName1 + "-" + ipFileName2 + ".Difference.tTestThreshold.png";
tStatIndexImage.Save(Path.Combine(opdir.FullName, opFileName3));
}
public static Image DrawTStatisticSpectrogramsOfMultipleIndices(LDSpectrogramRGB cs1, LDSpectrogramRGB cs2, double tStatThreshold, double colourGain)
{
string[] keys = cs1.ColorMap.Split('-'); //assume both spectorgrams have the same acoustic indices in same order
double[,] m1 = GetDifferenceSpectrogramDerivedFromSingleTStatistic(keys[0], cs1, cs2, tStatThreshold);
double[,] m2 = GetDifferenceSpectrogramDerivedFromSingleTStatistic(keys[1], cs1, cs2, tStatThreshold);
double[,] m3 = GetDifferenceSpectrogramDerivedFromSingleTStatistic(keys[2], cs1, cs2, tStatThreshold);
int rows = m1.GetLength(0); //number of rows
int cols = m1.GetLength(1); //number
var spg1Image = new Image <Rgb24>(cols, rows);
var spg2Image = new Image <Rgb24>(cols, rows);
int maxRgbValue = 255;
for (int row = 0; row < rows; row++)
{
for (int column = 0; column < cols; column++)
{
var dR = m1[row, column] * colourGain;
var dG = m2[row, column] * colourGain;
var dB = m3[row, column] * colourGain;
byte iR1 = 0;
byte iR2 = 0;
byte iG1 = 0;
byte iG2 = 0;
byte iB1 = 0;
byte iB2 = 0;
var value = Convert.ToByte(Math.Abs(dR) * maxRgbValue);
value = (byte)Math.Min(maxRgbValue, value);
if (dR > 0.0)
{
iR1 = value;
}
else
{
iR2 = value;
}
value = Convert.ToByte(Math.Abs(dG) * maxRgbValue);
value = (byte)Math.Min(maxRgbValue, value);
if (dG > 0.0)
{
iG1 = value;
}
else
{
iG2 = value;
}
value = Convert.ToByte(Math.Abs(dB) * maxRgbValue);
value = (byte)Math.Min(maxRgbValue, value);
if (dB > 0.0)
{
iB1 = value;
}
else
{
iB2 = value;
}
var colour1 = Color.FromRgb(iR1, iG1, iB1);
var colour2 = Color.FromRgb(iR2, iG2, iB2);
spg1Image[column, row] = colour1;
spg2Image[column, row] = colour2;
}
}
var images = new Image <Rgb24> [2];
int nyquist = cs1.SampleRate / 2;
int herzInterval = 1000;
string title = string.Format("DIFFERENCE SPECTROGRAM (thresholded by t-Statistic={2}) where {0} > {1} (scale:hours x kHz) (colour: R-G-B={2})", cs1.FileName, cs2.FileName, tStatThreshold);
var titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, spg1Image.Width);
images[0] = LDSpectrogramRGB.FrameLDSpectrogram(spg1Image, titleBar, cs1, nyquist, herzInterval);
title = string.Format("DIFFERENCE SPECTROGRAM (thresholded by t-Statistic={2}) where {1} > {0} (scale:hours x kHz) (colour: R-G-B={2})", cs1.FileName, cs2.FileName, tStatThreshold);
titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, spg2Image.Width);
images[1] = LDSpectrogramRGB.FrameLDSpectrogram(spg2Image, titleBar, cs1, nyquist, herzInterval);
var compositeImage = ImageTools.CombineImagesVertically(images);
return(compositeImage);
}
public static void Execute(Arguments arguments)
{
if (arguments == null)
{
throw new NoDeveloperMethodException();
}
string date = "# DATE AND TIME: " + DateTime.Now;
LoggedConsole.WriteLine("# DRAW LONG DURATION SPECTROGRAMS DERIVED FROM CSV FILES OF SPECTRAL INDICES OBTAINED FROM AN AUDIO RECORDING");
LoggedConsole.WriteLine(date);
LoggedConsole.WriteLine("# Spectrogram Config file: " + arguments.FalseColourSpectrogramConfig);
LoggedConsole.WriteLine("# Index Properties Config file: " + arguments.IndexPropertiesConfig);
LoggedConsole.WriteLine();
(FileInfo indexGenerationDataFile, FileInfo indexDistributionsFile) =
ZoomParameters.CheckNeededFilesExist(arguments.InputDataDirectory.ToDirectoryInfo());
var indexGenerationData = Json.Deserialize <IndexGenerationData>(indexGenerationDataFile);
// spectral distribution statistics is required only when calcualting difference spectrograms.
Dictionary <string, IndexDistributions.SpectralStats> indexDistributionsData = null;
if (indexDistributionsFile != null && indexDistributionsFile.Exists)
{
indexDistributionsData = IndexDistributions.Deserialize(indexDistributionsFile);
}
// this config can be found in IndexGenerationData. If config argument not specified, simply take it from icd file
LdSpectrogramConfig config;
if (arguments.FalseColourSpectrogramConfig == null)
{
config = indexGenerationData.LongDurationSpectrogramConfig;
}
else
{
config = LdSpectrogramConfig.ReadYamlToConfig(arguments.FalseColourSpectrogramConfig.ToFileInfo());
}
FilenameHelpers.ParseAnalysisFileName(indexGenerationDataFile, out var originalBaseName, out var _, out var _);
// CHECK FOR ERROR SEGMENTS - get zero signal array
var input = arguments.InputDataDirectory.ToDirectoryInfo();
var csvFile = new FileInfo(Path.Combine(input.FullName, originalBaseName + "__Towsey.Acoustic.Indices.csv"));
//Dictionary<string, double[]> summaryIndices = CsvTools.ReadCSVFile2Dictionary(csvFile.FullName);
//var summaryIndices = Csv.ReadFromCsv<Dictionary<string, double[]>>(csvFile);
var summaryIndices = Csv.ReadFromCsv <SummaryIndexValues>(csvFile);
var indexErrors = GapsAndJoins.DataIntegrityCheckForZeroSignal(summaryIndices);
//config.IndexCalculationDuration = TimeSpan.FromSeconds(1.0);
//config.XAxisTicInterval = TimeSpan.FromSeconds(60.0);
//config.IndexCalculationDuration = TimeSpan.FromSeconds(60.0);
//config.XAxisTicInterval = TimeSpan.FromSeconds(3600.0);
LDSpectrogramRGB.DrawSpectrogramsFromSpectralIndices(
inputDirectory: input,
outputDirectory: arguments.OutputDirectory.ToDirectoryInfo(),
ldSpectrogramConfig: config,
indexPropertiesConfigPath: arguments.IndexPropertiesConfig.ToFileInfo(),
indexGenerationData: indexGenerationData,
basename: originalBaseName,
analysisType: AcousticIndices.TowseyAcoustic,
indexSpectrograms: null,
indexStatistics: indexDistributionsData,
segmentErrors: indexErrors,
imageChrome: false.ToImageChrome());
Log.Success("Draw Long Duration Spectrograms complete!");
}
} // method DrawRidgeSpectrograms()
public static Image DrawRidgeSpectrograms(DirectoryInfo inputDirectory, FileInfo ipConfig, string fileStem, double scale, Dictionary <string, double[, ]> spectra = null)
{
string analysisType = AcousticIndices.TowseyAcoustic;
//double backgroundFilter = 0.0; // 0.0 means small values are removed.
double backgroundFilter = 0.75; // 0.75 means small values are accentuated.
var dataScale = TimeSpan.FromSeconds(scale);
Dictionary <string, IndexProperties> indexProperties = IndexProperties.GetIndexProperties(ipConfig);
string[] keys = SpectralPeakTracks.GetDefaultRidgeKeys();
// read the csv files of the indices in keys array
if (spectra == null)
{
//C:\SensorNetworks\Output\BIRD50\Training\ID0001\Towsey.Acoustic\ID0001__Towsey.Acoustic.ACI
spectra = IndexMatrices.ReadSpectralIndices(inputDirectory, fileStem, analysisType, keys);
}
var cs1 = new LDSpectrogramRGB(minuteOffset: TimeSpan.Zero, xScale: dataScale, sampleRate: 22050, frameWidth: 512, colorMap: null)
{
FileName = fileStem,
BackgroundFilter = backgroundFilter,
IndexCalculationDuration = dataScale,
};
// set the relevant dictionary of index properties
cs1.SetSpectralIndexProperties(indexProperties);
cs1.SpectrogramMatrices = spectra;
if (cs1.GetCountOfSpectrogramMatrices() == 0)
{
LoggedConsole.WriteLine("WARNING: " + fileStem + ": No spectrogram matrices in the dictionary. Spectrogram files do not exist?");
return(null);
}
else if (cs1.GetCountOfSpectrogramMatrices() < keys.Length)
{
LoggedConsole.WriteLine("WARNING: " + fileStem + ": Missing indices in the dictionary. Some files do not exist?");
return(null);
}
var stringFont = Drawing.Tahoma8;
// constants for labels
Color[] color = { Color.Blue, Color.Green, Color.Red, Color.Orange, Color.Purple };
int labelYvalue = 3;
int labelIndex = 0;
Image <Rgb24> ridges = null;
foreach (string key in keys)
{
Image <Rgb24> greyScaleImage = (Image <Rgb24>)cs1.DrawGreyscaleSpectrogramOfIndex(key);
var pixelWidth = greyScaleImage.Width;
int height = greyScaleImage.Height;
ridges.Mutate(g2 =>
{
if (ridges == null)
{
ridges = new Image <Rgb24>(pixelWidth, height);
g2.Clear(Color.White);
}
g2.DrawText(key, stringFont, color[labelIndex], new PointF(0, labelYvalue));
});
labelYvalue += 10;
//g1.DrawLine(new Pen(Color.Black, 1), 0, 0, width, 0);//draw upper boundary
//g1.DrawLine(new Pen(Color.Black, 1), 0, 1, width, 1);//draw upper boundary
// transfer greyscale image to colour image
for (int y = 0; y < height; y++)
{
for (int x = 0; x < pixelWidth; x++)
{
var col = greyScaleImage[x, y];
if (col.G < 150)
{
ridges[x, y] = color[labelIndex];
}
}
}
labelIndex += 1;
} //foreach key
return(ridges);
} // method DrawRidgeSpectrograms()
/// <summary>
/// This method compares the acoustic indices derived from two different long duration recordings of the same length.
/// It takes as input any number of csv files of acoustic indices in spectrogram columns.
/// Typically there will be at least three indices csv files for each of the original recordings to be compared.
/// The method produces four spectrogram image files:
/// 1) A negative false-color spectrogram derived from the indices of recording 1.
/// 2) A negative false-color spectrogram derived from the indices of recording 2.
/// 3) A spectrogram of euclidean distances between the two input files.
/// 4) The above three spectrograms combined in one image.
/// </summary>
public static void DrawDistanceSpectrogram(
DirectoryInfo inputDirectory,
FileInfo inputFileName1,
FileInfo inputFileName2,
DirectoryInfo outputDirectory)
{
// PARAMETERS
string outputFileName1 = inputFileName1.Name;
var cs1 = new LDSpectrogramRGB(minuteOffset, xScale, sampleRate, frameWidth, colorMap);
cs1.ColorMode = colorMap;
cs1.BackgroundFilter = backgroundFilterCoeff;
string[] keys = colorMap.Split('-');
cs1.ReadCsvFiles(inputDirectory, inputFileName1.Name, keys);
double blueEnhanceParameter = 0.0;
cs1.DrawNegativeFalseColorSpectrogram(outputDirectory, outputFileName1, blueEnhanceParameter);
string imagePath = Path.Combine(outputDirectory.FullName, outputFileName1 + ".COLNEG.png");
var spg1Image = Image.Load <Rgb24>(imagePath);
if (spg1Image == null)
{
LoggedConsole.WriteLine("SPECTROGRAM IMAGE DOES NOT EXIST: {0}", imagePath);
return;
}
int nyquist = cs1.SampleRate / 2;
int hertzInterval = 1000;
string title =
$"FALSE COLOUR SPECTROGRAM: {inputFileName1}. (scale:hours x kHz) (colour: R-G-B={cs1.ColorMode})";
var titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, spg1Image.Width);
spg1Image = LDSpectrogramRGB.FrameLDSpectrogram(
spg1Image,
titleBar,
cs1,
nyquist,
hertzInterval);
string outputFileName2 = inputFileName2.Name;
var cs2 = new LDSpectrogramRGB(minuteOffset, xScale, sampleRate, frameWidth, colorMap)
{
ColorMode = colorMap,
BackgroundFilter = backgroundFilterCoeff,
};
cs2.ReadCsvFiles(inputDirectory, inputFileName2.Name, keys);
// cs2.DrawGreyScaleSpectrograms(opdir, opFileName2);
cs2.DrawNegativeFalseColorSpectrogram(outputDirectory, outputFileName2, blueEnhanceParameter);
imagePath = Path.Combine(outputDirectory.FullName, outputFileName2 + ".COLNEG.png");
var spg2Image = Image.Load <Rgb24>(imagePath);
if (spg2Image == null)
{
LoggedConsole.WriteLine("SPECTROGRAM IMAGE DOES NOT EXIST: {0}", imagePath);
return;
}
title =
$"FALSE COLOUR SPECTROGRAM: {inputFileName2}. (scale:hours x kHz) (colour: R-G-B={cs2.ColorMode})";
titleBar = LDSpectrogramRGB.DrawTitleBarOfFalseColourSpectrogram(title, spg2Image.Width);
spg2Image = LDSpectrogramRGB.FrameLDSpectrogram(
spg2Image,
titleBar,
cs1,
nyquist,
hertzInterval);
string outputFileName4 = inputFileName1 + ".EuclideanDistance.png";
var deltaSp = DrawDistanceSpectrogram(cs1, cs2);
Color[] colorArray = LDSpectrogramRGB.ColourChart2Array(GetDifferenceColourChart());
titleBar = DrawTitleBarOfEuclidianDistanceSpectrogram(
inputFileName1.Name,
inputFileName2.Name,
colorArray,
deltaSp.Width,
SpectrogramConstants.HEIGHT_OF_TITLE_BAR);
deltaSp = LDSpectrogramRGB.FrameLDSpectrogram(deltaSp, titleBar, cs2, nyquist, hertzInterval);
deltaSp.Save(Path.Combine(outputDirectory.FullName, outputFileName4));
string outputFileName5 = inputFileName1 + ".2SpectrogramsAndDistance.png";
var combinedImage = ImageTools.CombineImagesVertically(spg1Image, spg2Image, deltaSp);
combinedImage.Save(Path.Combine(outputDirectory.FullName, outputFileName5));
}
public static Image <Rgb24>[] DrawPositiveDifferenceSpectrograms(LDSpectrogramRGB target, LDSpectrogramRGB reference, double colourGain)
{
string[] keys = target.ColorMap.Split('-');
double[,] tgtRedM = target.GetNormalisedSpectrogramMatrix(keys[0]);
double[,] tgtGrnM = target.GetNormalisedSpectrogramMatrix(keys[1]);
double[,] tgtBluM = target.GetNormalisedSpectrogramMatrix(keys[2]);
double[,] refRedM = reference.GetNormalisedSpectrogramMatrix(keys[0]);
double[,] refGrnM = reference.GetNormalisedSpectrogramMatrix(keys[1]);
double[,] refBluM = reference.GetNormalisedSpectrogramMatrix(keys[2]);
// assume all matricies are normalised and of the same dimensions
int rows = tgtRedM.GetLength(0); //number of rows
int cols = tgtRedM.GetLength(1); //number
var spg1Image = new Image <Rgb24>(cols, rows);
var spg2Image = new Image <Rgb24>(cols, rows);
int maxRgbValue = 255;
for (int row = 0; row < rows; row++)
{
for (int column = 0; column < cols; column++)
{
var dR = (tgtRedM[row, column] - refRedM[row, column]) * colourGain;
var dG = (tgtGrnM[row, column] - refGrnM[row, column]) * colourGain;
var dB = (tgtBluM[row, column] - refBluM[row, column]) * colourGain;
var iR1 = 0;
var iR2 = 0;
var iG1 = 0;
var iG2 = 0;
var iB1 = 0;
var iB2 = 0;
var value = Convert.ToInt32(Math.Abs(dR) * maxRgbValue);
value = Math.Min(maxRgbValue, value);
if (dR > 0.0)
{
iR1 = value;
}
else
{
iR2 = value;
}
value = Convert.ToInt32(Math.Abs(dG) * maxRgbValue);
value = Math.Min(maxRgbValue, value);
if (dG > 0.0)
{
iG1 = value;
}
else
{
iG2 = value;
}
value = Convert.ToInt32(Math.Abs(dB) * maxRgbValue);
value = Math.Min(maxRgbValue, value);
if (dB > 0.0)
{
iB1 = value;
}
else
{
iB2 = value;
}
var colour1 = Color.FromRgb((byte)iR1, (byte)iG1, (byte)iB1);
var colour2 = Color.FromRgb((byte)iR2, (byte)iG2, (byte)iB2);
spg1Image[column, row] = colour1;
spg2Image[column, row] = colour2;
}
}
return(new[] { spg1Image, spg2Image });
}
public static Image <Rgb24> DrawDistanceSpectrogram(LDSpectrogramRGB cs1, LDSpectrogramRGB cs2)
{
string[] keys = cs1.ColorMap.Split('-');
string key = keys[0];
double[,] m1Red = cs1.GetNormalisedSpectrogramMatrix(key);
IndexDistributions.SpectralStats stats = IndexDistributions.GetModeAndOneTailedStandardDeviation(m1Red);
cs1.IndexStats.Add(key, stats);
m1Red = MatrixTools.Matrix2ZScores(m1Red, stats.Mode, stats.StandardDeviation);
////LoggedConsole.WriteLine("1.{0}: Min={1:f2} Max={2:f2} Mode={3:f2}+/-{4:f3} (SD=One-tailed)", key, dict["min"], dict["max"], dict["mode"], dict["sd"]);
key = keys[1];
double[,] m1Grn = cs1.GetNormalisedSpectrogramMatrix(key);
stats = IndexDistributions.GetModeAndOneTailedStandardDeviation(m1Grn);
cs1.IndexStats.Add(key, stats);
m1Grn = MatrixTools.Matrix2ZScores(m1Grn, stats.Mode, stats.StandardDeviation);
////LoggedConsole.WriteLine("1.{0}: Min={1:f2} Max={2:f2} Mode={3:f2}+/-{4:f3} (SD=One-tailed)", key, dict["min"], dict["max"], dict["mode"], dict["sd"]);
key = keys[2];
double[,] m1Blu = cs1.GetNormalisedSpectrogramMatrix(key);
stats = IndexDistributions.GetModeAndOneTailedStandardDeviation(m1Blu);
cs1.IndexStats.Add(key, stats);
m1Blu = MatrixTools.Matrix2ZScores(m1Blu, stats.Mode, stats.StandardDeviation);
////LoggedConsole.WriteLine("1.{0}: Min={1:f2} Max={2:f2} Mode={3:f2}+/-{4:f3} (SD=One-tailed)", key, dict["min"], dict["max"], dict["mode"], dict["sd"]);
key = keys[0];
double[,] m2Red = cs2.GetNormalisedSpectrogramMatrix(key);
stats = IndexDistributions.GetModeAndOneTailedStandardDeviation(m2Red);
cs2.IndexStats.Add(key, stats);
m2Red = MatrixTools.Matrix2ZScores(m2Red, stats.Mode, stats.StandardDeviation);
////LoggedConsole.WriteLine("2.{0}: Min={1:f2} Max={2:f2} Mode={3:f2}+/-{4:f3} (SD=One-tailed)", key, dict["min"], dict["max"], dict["mode"], dict["sd"]);
key = keys[1];
double[,] m2Grn = cs2.GetNormalisedSpectrogramMatrix(key);
stats = IndexDistributions.GetModeAndOneTailedStandardDeviation(m2Grn);
cs2.IndexStats.Add(key, stats);
m2Grn = MatrixTools.Matrix2ZScores(m2Grn, stats.Mode, stats.StandardDeviation);
////LoggedConsole.WriteLine("2.{0}: Min={1:f2} Max={2:f2} Mode={3:f2}+/-{4:f3} (SD=One-tailed)", key, dict["min"], dict["max"], dict["mode"], dict["sd"]);
key = keys[2];
double[,] m2Blu = cs2.GetNormalisedSpectrogramMatrix(key);
stats = IndexDistributions.GetModeAndOneTailedStandardDeviation(m2Blu);
cs2.IndexStats.Add(key, stats);
m2Blu = MatrixTools.Matrix2ZScores(m2Blu, stats.Mode, stats.StandardDeviation);
////LoggedConsole.WriteLine("2.{0}: Min={1:f2} Max={2:f2} Mode={3:f2}+/-{4:f3} (SD=One-tailed)", key, dict["min"], dict["max"], dict["mode"], dict["sd"]);
var v1 = new double[3];
double[] mode1 =
{
cs1.IndexStats[keys[0]].Mode, cs1.IndexStats[keys[1]].Mode,
cs1.IndexStats[keys[2]].Mode,
};
double[] stDv1 =
{
cs1.IndexStats[keys[0]].StandardDeviation, cs1.IndexStats[keys[1]].StandardDeviation,
cs1.IndexStats[keys[2]].StandardDeviation,
};
LoggedConsole.WriteLine(
"1: avACI={0:f3}+/-{1:f3}; avTEN={2:f3}+/-{3:f3}; avCVR={4:f3}+/-{5:f3}",
mode1[0],
stDv1[0],
mode1[1],
stDv1[1],
mode1[2],
stDv1[2]);
var v2 = new double[3];
double[] mode2 =
{
cs2.IndexStats[keys[0]].Mode, cs2.IndexStats[keys[1]].Mode,
cs2.IndexStats[keys[2]].Mode,
};
double[] stDv2 =
{
cs2.IndexStats[keys[0]].StandardDeviation, cs2.IndexStats[keys[1]].StandardDeviation,
cs2.IndexStats[keys[2]].StandardDeviation,
};
LoggedConsole.WriteLine(
"2: avACI={0:f3}+/-{1:f3}; avTEN={2:f3}+/-{3:f3}; avCVR={4:f3}+/-{5:f3}",
mode2[0],
stDv2[0],
mode2[1],
stDv2[1],
mode2[2],
stDv2[2]);
// assume all matrices are normalised and of the same dimensions
int rows = m1Red.GetLength(0); // number of rows
int cols = m1Red.GetLength(1); // number
var d12Matrix = new double[rows, cols];
var d11Matrix = new double[rows, cols];
var d22Matrix = new double[rows, cols];
for (int row = 0; row < rows; row++)
{
for (int col = 0; col < cols; col++)
{
v1[0] = m1Red[row, col];
v1[1] = m1Grn[row, col];
v1[2] = m1Blu[row, col];
v2[0] = m2Red[row, col];
v2[1] = m2Grn[row, col];
v2[2] = m2Blu[row, col];
d12Matrix[row, col] = DataTools.EuclideanDistance(v1, v2);
d11Matrix[row, col] = (v1[0] + v1[1] + v1[2]) / 3; // get average of the normalised values
d22Matrix[row, col] = (v2[0] + v2[1] + v2[2]) / 3;
// following lines are for debugging purposes
// if ((row == 150) && (col == 1100))
// {
// LoggedConsole.WriteLine("V1={0:f3}, {1:f3}, {2:f3}", v1[0], v1[1], v1[2]);
// LoggedConsole.WriteLine("V2={0:f3}, {1:f3}, {2:f3}", v2[0], v2[1], v2[2]);
// LoggedConsole.WriteLine("EDist12={0:f4}; ED11={1:f4}; ED22={2:f4}", d12Matrix[row, col], d11Matrix[row, col], d22Matrix[row, col]);
// }
}
}
double[] array = DataTools.Matrix2Array(d12Matrix);
NormalDist.AverageAndSD(array, out var avDist, out var sdDist);
for (int row = 0; row < rows; row++)
{
for (int col = 0; col < cols; col++)
{
d12Matrix[row, col] = (d12Matrix[row, col] - avDist) / sdDist;
}
}
double zScore;
Dictionary <string, Color> colourChart = GetDifferenceColourChart();
Color colour;
var bmp = new Image <Rgb24>(cols, rows);
for (int row = 0; row < rows; row++)
{
for (int col = 0; col < cols; col++)
{
zScore = d12Matrix[row, col];
if (d11Matrix[row, col] >= d22Matrix[row, col])
{
if (zScore > 3.08)
{
colour = colourChart["+99.9%"];
}
// 99.9% conf
else
{
if (zScore > 2.33)
{
colour = colourChart["+99.0%"];
}
// 99.0% conf
else
{
if (zScore > 1.65)
{
colour = colourChart["+95.0%"];
}
// 95% conf
else
{
if (zScore < 0.0)
{
colour = colourChart["NoValue"];
}
else
{
// v = Convert.ToInt32(zScore * MaxRGBValue);
// colour = Color.FromRgb(v, 0, v);
colour = colourChart["+NotSig"];
}
}
}
}
// if() else
bmp[col, row] = colour;
}
else
{
if (zScore > 3.08)
{
colour = colourChart["-99.9%"];
}
// 99.9% conf
else
{
if (zScore > 2.33)
{
colour = colourChart["-99.0%"];
}
// 99.0% conf
else
{
if (zScore > 1.65)
{
colour = colourChart["-95.0%"];
}
// 95% conf
else
{
if (zScore < 0.0)
{
colour = colourChart["NoValue"];
}
else
{
// v = Convert.ToInt32(zScore * MaxRGBValue);
// if()
// colour = Color.FromRgb(0, v, v);
colour = colourChart["-NotSig"];
}
}
}
}
// if() else
bmp[col, row] = colour;
}
}
// all rows
}
// all rows
return(bmp);
}
public void TestAnalyzeSr64000Recording()
{
int sampleRate = 64000;
double duration = 420; // signal duration in seconds = 7 minutes
int[] harmonics = { 500, 1000, 2000, 4000, 8000 };
var recording = DspFilters.GenerateTestRecording(sampleRate, duration, harmonics, WaveType.Cosine);
string recordingName = "TemporaryRecording2";
var recordingPath = this.outputDirectory.CombineFile(recordingName + ".wav");
WavWriter.WriteWavFileViaFfmpeg(recordingPath, recording.WavReader);
var fst = FreqScaleType.Linear125Octaves7Tones28Nyquist32000;
var freqScale = new FrequencyScale(fst);
/*
* // draw the signal as spectrogram just for debugging purposes
* // but can only draw a two minute spectrogram when sr=64000 - change duration above.
* duration = 120; // if drawing sonogram, then set signal duration = 2 minutes
* var sonogram = OctaveFreqScale.ConvertRecordingToOctaveScaleSonogram(recording, fst);
* var sonogramImage = sonogram.GetImageFullyAnnotated(sonogram.GetImage(), "SPECTROGRAM", freqScale.GridLineLocations);
* var outputImagePath = this.outputDirectory.CombineFile("SignalSpectrogram_OctaveFreqScale.png");
* sonogramImage.Save(outputImagePath.FullName);
*/
// Now need to rewrite the config file with new parameter settings
var configPath = PathHelper.ResolveConfigFile("Towsey.Acoustic.yml");
// Convert the Config config to IndexCalculateConfig class and merge in the unnecesary parameters.
//Config configuration = Yaml.Deserialise(configPath);
//IndexCalculateConfig config = IndexCalculateConfig.GetConfig(configuration, false);
// because of difficulties in dealing with Config config files, just edit the text file!!!!!
var configLines = File.ReadAllLines(configPath.FullName);
configLines[configLines.IndexOf(x => x.StartsWith("IndexCalculationDuration: "))] = "IndexCalculationDuration: 15.0";
//configLines[configLines.IndexOf(x => x.StartsWith("BgNoiseBuffer: "))] = "BgNoiseBuffer: 5.0";
configLines[configLines.IndexOf(x => x.StartsWith("FrequencyScale: Linear"))] = "FrequencyScale: " + fst;
// the is the only octave scale currently functioning for IndexCalculate class
configLines[configLines.IndexOf(x => x.StartsWith("FrameLength"))] = $"FrameLength: {freqScale.WindowSize}";
configLines[configLines.IndexOf(x => x.StartsWith("ResampleRate: "))] = "ResampleRate: 64000";
// write the edited Config file to temporary output directory
var newConfigPath = this.outputDirectory.CombineFile("Towsey.Acoustic.yml");
File.WriteAllLines(newConfigPath.FullName, configLines);
PathHelper.ResolveConfigFile("IndexPropertiesConfig.yml").CopyTo(this.outputDirectory.CombineFile("IndexPropertiesConfig.yml").FullName);
var arguments = new AnalyseLongRecording.Arguments
{
Source = recordingPath,
Config = newConfigPath.FullName,
Output = this.outputDirectory,
MixDownToMono = true,
Parallel = !Debugger.IsAttached,
};
AnalyseLongRecording.Execute(arguments);
var resultsDirectory = this.outputDirectory.Combine("Towsey.Acoustic");
var listOfFiles = resultsDirectory.EnumerateFiles().ToArray();
Assert.AreEqual(19, listOfFiles.Length);
var csvCount = listOfFiles.Count(f => f.Name.EndsWith(".csv"));
Assert.AreEqual(15, csvCount);
var jsonCount = listOfFiles.Count(f => f.Name.EndsWith(".json"));
Assert.AreEqual(2, jsonCount);
var pngCount = listOfFiles.Count(f => f.Name.EndsWith(".png"));
Assert.AreEqual(2, pngCount);
var bgnFile = resultsDirectory.CombineFile(recordingName + "__Towsey.Acoustic.BGN.csv");
double[,] actualBgn = Csv.ReadMatrixFromCsv <double>(bgnFile, TwoDimensionalArray.None);
var expectedSpectrumFile = PathHelper.ResolveAsset("LongDuration", "BgnMatrix.OctaveScale.csv");
// uncomment the following line when first produce the array
// bgnFile.CopyTo(expectedSpectrumFile.FullName);
// compare actual BGN file with expected file.
var expectedBgn = Csv.ReadMatrixFromCsv <double>(expectedSpectrumFile, TwoDimensionalArray.None);
CollectionAssert.That.AreEqual(expectedBgn, actualBgn, 0.000_000_001);
var array = MatrixTools.GetRow(actualBgn, 0);
Assert.AreEqual(28, actualBgn.RowLength());
Assert.AreEqual(256, array.Length);
// draw array just to check peaks are in correct places - just for debugging purposes
var ldsBgnSpectrumFile = this.outputDirectory.CombineFile("Spectrum2.png");
GraphsAndCharts.DrawGraph(array, "LD BGN SPECTRUM Octave", ldsBgnSpectrumFile);
// ##########################################
// SECOND part of test is to create the LD spectrograms because they are not created when IndexCalcDuration < 60 seconds
// first read in the index generation data
var icdPath = resultsDirectory.CombineFile(recordingName + "__IndexGenerationData.json");
var indexConfigData = Json.Deserialize <IndexGenerationData>(icdPath);
var indexPropertiesConfig = PathHelper.ResolveConfigFile("IndexPropertiesConfig.yml");
var ldSpectrogramConfigFile = PathHelper.ResolveConfigFile("SpectrogramFalseColourConfig.yml");
var ldSpectrogramConfig = LdSpectrogramConfig.ReadYamlToConfig(ldSpectrogramConfigFile);
ldSpectrogramConfig.FreqScale = fst.ToString();
// finally read in the dictionary of spectra
string analysisType = "Towsey.Acoustic";
var keys = LDSpectrogramRGB.GetArrayOfAvailableKeys();
var dictionaryOfSpectra = IndexMatrices.ReadSpectralIndices(resultsDirectory, recordingName, analysisType, keys);
LDSpectrogramRGB.DrawSpectrogramsFromSpectralIndices(
inputDirectory: resultsDirectory,
outputDirectory: resultsDirectory,
ldSpectrogramConfig: ldSpectrogramConfig,
indexPropertiesConfigPath: indexPropertiesConfig,
indexGenerationData: indexConfigData,
basename: recordingName,
analysisType: analysisType,
indexSpectrograms: dictionaryOfSpectra);
// test number of images - should now be 23
listOfFiles = resultsDirectory.EnumerateFiles().ToArray();
pngCount = listOfFiles.Count(f => f.Name.EndsWith(".png"));
Assert.AreEqual(22, pngCount);
var twoMapsImagePath = resultsDirectory.CombineFile(recordingName + "__2Maps.png");
var twoMapsImage = Image.Load <Rgb24>(twoMapsImagePath.FullName);
// image is (7*4) * 652
Assert.AreEqual(28, twoMapsImage.Width);
Assert.AreEqual(652, twoMapsImage.Height);
}
} // method DrawAggregatedSpectrograms()
public static Image <Rgb24> DrawGrayScaleSpectrograms(Arguments arguments, string fileStem, TimeSpan dataScale, Dictionary <string, double[, ]> spectra = null)
{
// default values
int sampleRate = 22050;
int frameWidth = 512;
//double backgroundFilter = 0.0; // 0.0 means small values are removed.
double backgroundFilter = 0.75; // 0.75 means small values are accentuated.
string analysisType = AcousticIndices.TowseyAcoustic;
string[] keys = LDSpectrogramRGB.GetArrayOfAvailableKeys();
var inputDirectory = arguments.InputDataDirectory;
Dictionary <string, IndexProperties> indexProperties = IndexProperties.GetIndexProperties(arguments.IndexPropertiesConfig.ToFileInfo());
if (spectra == null)
{
spectra = IndexMatrices.ReadSpectralIndices(inputDirectory.ToDirectoryInfo(), fileStem, analysisType, keys);
}
// note: the spectra are oriented as per visual orientation, i.e. xAxis = time frames
//int frameCount = spectra[keys[0]].GetLength(1);
var cs1 = new LDSpectrogramRGB(minuteOffset: TimeSpan.Zero, xScale: dataScale, sampleRate: sampleRate, frameWidth: frameWidth, colorMap: null)
{
FileName = fileStem,
BackgroundFilter = backgroundFilter,
IndexCalculationDuration = dataScale,
};
cs1.SetSpectralIndexProperties(indexProperties); // set the relevant dictionary of index properties
cs1.SpectrogramMatrices = spectra;
if (cs1.GetCountOfSpectrogramMatrices() == 0)
{
LoggedConsole.WriteLine("WARNING: " + fileStem + ": No spectrogram matrices in the dictionary. Spectrogram files do not exist?");
return(null);
}
var list = new List <Image <Rgb24> >();
var stringFont = Drawing.Arial14;
foreach (string key in keys)
{
var image = cs1.DrawGreyscaleSpectrogramOfIndex(key);
int width = 70;
int height = image.Height;
var label = new Image <Rgb24>(width, height);
label.Mutate(g1 =>
{
g1.Clear(Color.Gray);
g1.DrawText(key, stringFont, Color.Black, new PointF(4, 30));
g1.DrawLine(new Pen(Color.Black, 1), 0, 0, width, 0); //draw upper boundary
g1.DrawLine(new Pen(Color.Black, 1), 0, 1, width, 1); //draw upper boundary
});
var imagearray = new[] { label, image };
var labelledImage = ImageTools.CombineImagesInLine(imagearray);
list.Add(labelledImage);
} //foreach key
var combinedImage = ImageTools.CombineImagesVertically(list);
return(combinedImage);
} // method DrawGrayScaleSpectrograms()
} // method DrawAggregatedSpectrograms()
public static Image DrawGrayScaleSpectrograms(Arguments arguments, string fileStem, TimeSpan dataScale, Dictionary <string, double[, ]> spectra = null)
{
int sampleRate = 22050;
int frameWidth = 512;
//double backgroundFilter = 0.0; // 0.0 means small values are removed.
double backgroundFilter = 0.75; // 0.75 means small values are accentuated.
string analysisType = AcousticIndices.TowseyAcoustic;
string[] keys = LDSpectrogramRGB.GetArrayOfAvailableKeys();
//LoggedConsole.WriteLine("# Spectrogram Config file: " + arguments.SpectrogramConfigPath);
//LoggedConsole.WriteLine("# Index Properties Config file: " + arguments.IndexPropertiesConfig);
var inputDirectory = arguments.InputDataDirectory;
Dictionary <string, IndexProperties> indexProperties = IndexProperties.GetIndexProperties(arguments.IndexPropertiesConfig.ToFileInfo());
if (spectra == null)
{
//C:\SensorNetworks\Output\BIRD50\Training\ID0001\Towsey.Acoustic\ID0001__Towsey.Acoustic.ACI
spectra = IndexMatrices.ReadSpectralIndices(inputDirectory.ToDirectoryInfo(), fileStem, analysisType, keys);
}
// note: the spectra are oriented as per visual orientation, i.e. xAxis = time frames
//int frameCount = spectra[keys[0]].GetLength(1);
var cs1 = new LDSpectrogramRGB(minuteOffset: TimeSpan.Zero, xScale: dataScale, sampleRate: sampleRate, frameWidth: frameWidth, colourMap: null)
{
FileName = fileStem,
BackgroundFilter = backgroundFilter,
IndexCalculationDuration = dataScale,
};
cs1.SetSpectralIndexProperties(indexProperties); // set the relevant dictionary of index properties
cs1.SpectrogramMatrices = spectra;
if (cs1.GetCountOfSpectrogramMatrices() == 0)
{
LoggedConsole.WriteLine("WARNING: " + fileStem + ": No spectrogram matrices in the dictionary. Spectrogram files do not exist?");
return(null);
}
List <Image> list = new List <Image>();
Font stringFont = new Font("Arial", 14);
foreach (string key in keys)
{
var image = cs1.DrawGreyscaleSpectrogramOfIndex(key);
int width = 70;
int height = image.Height;
var label = new Bitmap(width, height);
var g1 = Graphics.FromImage(label);
g1.Clear(Color.Gray);
g1.DrawString(key, stringFont, Brushes.Black, new PointF(4, 30));
g1.DrawLine(new Pen(Color.Black), 0, 0, width, 0); //draw upper boundary
g1.DrawLine(new Pen(Color.Black), 0, 1, width, 1); //draw upper boundary
Image[] imagearray = { label, image };
var labelledImage = ImageTools.CombineImagesInLine(imagearray);
list.Add(labelledImage);
} //foreach key
var combinedImage = ImageTools.CombineImagesVertically(list.ToArray());
return(combinedImage);
} // method DrawGrayScaleSpectrograms()
/// <summary>
/// This method draws a spectrogram with other useful information attached.
/// </summary>
/// <param name="sonogram">of BaseSonogram class.</param>
/// <param name="events">a list of acoustic events.</param>
/// <param name="plots">a list of plots relevant to the spectrogram scores.</param>
/// <param name="hits">not often used - can be null.</param>
public static Image <Rgb24> GetSonogramPlusCharts(
BaseSonogram sonogram,
List <AcousticEvent> events,
List <Plot> plots,
double[,] hits)
{
var spectrogram = sonogram.GetImage(doHighlightSubband: false, add1KHzLines: true, doMelScale: false);
Contract.RequiresNotNull(spectrogram, nameof(spectrogram));
var height = spectrogram.Height;
var frameSize = sonogram.Configuration.WindowSize;
// init with linear frequency scale and draw freq grid lines on image
int hertzInterval = 1000;
if (height < 200)
{
hertzInterval = 2000;
}
var freqScale = new FrequencyScale(sonogram.NyquistFrequency, frameSize, hertzInterval);
FrequencyScale.DrawFrequencyLinesOnImage(spectrogram, freqScale.GridLineLocations, includeLabels: true);
// draw event outlines onto spectrogram.
if (events != null && events.Count > 0)
{
// set colour for the events
foreach (AcousticEvent ev in events)
{
ev.BorderColour = AcousticEvent.DefaultBorderColor;
ev.ScoreColour = AcousticEvent.DefaultScoreColor;
ev.DrawEvent(spectrogram, sonogram.FramesPerSecond, sonogram.FBinWidth, height);
}
}
// now add in hits to the spectrogram image.
if (hits != null)
{
spectrogram = Image_MultiTrack.OverlayScoresAsRedTransparency(spectrogram, hits);
// following line needs to be reworked if want to call OverlayRainbowTransparency(hits);
//image.OverlayRainbowTransparency(hits);
}
int pixelWidth = spectrogram.Width;
var titleBar = LDSpectrogramRGB.DrawTitleBarOfGrayScaleSpectrogram("TITLE", pixelWidth);
var timeTrack = ImageTrack.DrawTimeTrack(sonogram.Duration, pixelWidth);
var imageList = new List <Image <Rgb24> >
{
titleBar,
timeTrack,
spectrogram,
timeTrack,
};
if (plots != null)
{
foreach (var plot in plots)
{
// Next line assumes plot data normalised in 0,1
var plotImage = plot.DrawAnnotatedPlot(ImageTrack.DefaultHeight);
// the following draws same plot without the title.
//var plotImage = ImageTrack.DrawScoreArrayTrack(plot.data, plot.threshold, pixelWidth);
imageList.Add(plotImage);
}
}
var compositeImage = ImageTools.CombineImagesVertically(imageList);
return(compositeImage);
}
public static Image <Rgb24> DrawDifferenceSpectrogramDerivedFromSingleTStatistic(string key, LDSpectrogramRGB cs1, LDSpectrogramRGB cs2, double tStatThreshold, double colourGain)
{
double[,] m1 = cs1.GetNormalisedSpectrogramMatrix(key); //the TEN matrix is subtracted from 1.
double[,] m2 = cs2.GetNormalisedSpectrogramMatrix(key);
double[,] tStatM = GetTStatisticMatrix(key, cs1, cs2);
return(DrawDifferenceSpectrogramDerivedFromSingleTStatistic(key, m1, m2, tStatM, tStatThreshold, colourGain));
}
public void SummariseResults(AnalysisSettings settings, FileSegment inputFileSegment, EventBase[] events, SummaryIndexBase[] indices, SpectralIndexBase[] spectralIndices, AnalysisResult2[] results)
{
var acousticIndicesConfig = (AcousticIndicesConfig)settings.AnalysisAnalyzerSpecificConfiguration;
var sourceAudio = inputFileSegment.Source;
var resultsDirectory = AnalysisCoordinator.GetNamedDirectory(settings.AnalysisOutputDirectory, this);
bool tileOutput = acousticIndicesConfig.TileOutput;
var frameWidth = acousticIndicesConfig.FrameLength;
int sampleRate = AppConfigHelper.DefaultTargetSampleRate;
sampleRate = acousticIndicesConfig.ResampleRate ?? sampleRate;
// Gather settings for rendering false color spectrograms
var ldSpectrogramConfig = acousticIndicesConfig.LdSpectrogramConfig;
string basename = Path.GetFileNameWithoutExtension(sourceAudio.Name);
// output to disk (so other analyzers can use the data,
// only data - configuration settings that generated these indices
// this data can then be used by post-process analyses
/* NOTE: The value for FrameStep is used only when calculating a standard spectrogram
* FrameStep is NOT used when calculating Summary and Spectral indices.
*/
var indexConfigData = new IndexGenerationData()
{
RecordingExtension = inputFileSegment.Source.Extension,
RecordingBasename = basename,
RecordingStartDate = inputFileSegment.TargetFileStartDate,
RecordingDuration = inputFileSegment.TargetFileDuration.Value,
SampleRateOriginal = inputFileSegment.TargetFileSampleRate.Value,
SampleRateResampled = sampleRate,
FrameLength = frameWidth,
FrameStep = settings.Configuration.GetIntOrNull(AnalysisKeys.FrameStep) ?? frameWidth,
IndexCalculationDuration = acousticIndicesConfig.IndexCalculationDurationTimeSpan,
BgNoiseNeighbourhood = acousticIndicesConfig.BgNoiseBuffer,
AnalysisStartOffset = inputFileSegment.SegmentStartOffset ?? TimeSpan.Zero,
MaximumSegmentDuration = settings.AnalysisMaxSegmentDuration,
BackgroundFilterCoeff = SpectrogramConstants.BACKGROUND_FILTER_COEFF,
LongDurationSpectrogramConfig = ldSpectrogramConfig,
};
var icdPath = FilenameHelpers.AnalysisResultPath(
resultsDirectory,
basename,
IndexGenerationData.FileNameFragment,
"json");
Json.Serialise(icdPath.ToFileInfo(), indexConfigData);
// gather spectra to form spectrograms. Assume same spectra in all analyzer results
// this is the most efficient way to do this
// gather up numbers and strings store in memory, write to disk one time
// this method also AUTOMATICALLY SORTS because it uses array indexing
var dictionaryOfSpectra = spectralIndices.ToTwoDimensionalArray(SpectralIndexValues.CachedSelectors, TwoDimensionalArray.Rotate90ClockWise);
// Calculate the index distribution statistics and write to a json file. Also save as png image
var indexDistributions = IndexDistributions.WriteSpectralIndexDistributionStatistics(dictionaryOfSpectra, resultsDirectory, basename);
// HACK: do not render false color spectrograms unless IndexCalculationDuration = 60.0 (the normal resolution)
if (acousticIndicesConfig.IndexCalculationDurationTimeSpan != 60.0.Seconds())
{
Log.Warn("False color spectrograms were not rendered");
}
else
{
FileInfo indicesPropertiesConfig = acousticIndicesConfig.IndexPropertiesConfig.ToFileInfo();
// Actually draw false color / long duration spectrograms
Tuple <Image <Rgb24>, string>[] images =
LDSpectrogramRGB.DrawSpectrogramsFromSpectralIndices(
inputDirectory: resultsDirectory,
outputDirectory: resultsDirectory,
ldSpectrogramConfig: ldSpectrogramConfig,
indexPropertiesConfigPath: indicesPropertiesConfig,
indexGenerationData: indexConfigData,
basename: basename,
analysisType: this.Identifier,
indexSpectrograms: dictionaryOfSpectra,
indexStatistics: indexDistributions,
imageChrome: (!tileOutput).ToImageChrome());
if (tileOutput)
{
Debug.Assert(images.Length == 2);
Log.Info("Tiling output at scale: " + acousticIndicesConfig.IndexCalculationDuration);
foreach (var image in images)
{
TileOutput(resultsDirectory, Path.GetFileNameWithoutExtension(sourceAudio.Name), image.Item2 + ".Tile", inputFileSegment, image.Item1);
}
}
}
}
public static double[,] GetDifferenceSpectrogramDerivedFromSingleTStatistic(string key, LDSpectrogramRGB cs1, LDSpectrogramRGB cs2, double tStatThreshold)
{
double[,] m1 = cs1.GetNormalisedSpectrogramMatrix(key); //the TEN matrix is subtracted from 1.
double[,] m2 = cs2.GetNormalisedSpectrogramMatrix(key);
double[,] tStatM = GetTStatisticMatrix(key, cs1, cs2);
int rows = m1.GetLength(0); //number of rows
int cols = m2.GetLength(1); //number
var differenceM = new double[rows, cols];
for (int row = 0; row < rows; row++)
{
for (int column = 0; column < cols; column++)
{
if (Math.Abs(tStatM[row, column]) >= tStatThreshold)
{
differenceM[row, column] = m1[row, column] - m2[row, column];
}
}
}
return(differenceM);
}