public AnnoList GetAnnoList()
{
List <string> usedLabels = new List <string>();
AnnoList list = new AnnoList();
list.Scheme.Type = AnnoScheme.TYPE.DISCRETE;
list.Scheme.MinOrBackColor = backroundColorPicket.SelectedColor.Value;
list.Scheme.Name = schemeNameTextField.Text == "" ? "Noname" : schemeNameTextField.Text;
foreach (AnnotationSchemeSegment a in LabelsListBox.Items)
{
if (a.Label != "" && !usedLabels.Contains(a.Label))
{
AnnoScheme.Label lcp = new AnnoScheme.Label(a.Label, a.Color);
list.Scheme.Labels.Add(lcp);
usedLabels.Add(a.Label);
}
}
AnnoScheme.Label garbage = new AnnoScheme.Label("GARBAGE", Colors.Black);
list.Scheme.Labels.Add(garbage);
return(list);
}
public static AnnoList ConvertFreetoDiscreteAnnotation(AnnoList list)
{
if (list.Scheme.Type != AnnoScheme.TYPE.FREE)
{
return(list);
}
AnnoList al = new AnnoList();
AnnoScheme scheme = new AnnoScheme();
scheme.Type = AnnoScheme.TYPE.DISCRETE;
foreach (AnnoListItem ali in list)
{
al.Add(ali);
if (scheme.Labels.Find(x => x.Name == ali.Label) == null)
{
AnnoScheme.Label l = new AnnoScheme.Label(ali.Label, Colors.Black);
scheme.Labels.Add(l);
}
}
scheme.Name = list.Scheme.Name;
al.Scheme = scheme;
al.Meta = list.Meta;
return(al);
}
public void loadFiles()
{
string[] filenames = FileTools.OpenFileDialog("Viewable files (*.stream,*.annotation;*.wav,*.avi,*.wmv)|*.stream;*.annotation;*.wav;*.avi;*.wmv;*mp4;*mpg;*mkv;*vui|Signal files (*.stream)|*.stream|Annotation files (*.annotation)|*annotation;*.anno|Wave files (*.wav)|*.wav|Video files(*.avi,*.wmv,*.mp4;*.mov)|*.avi;*.wmv;*.mp4;*.mov|All files (*.*)|*.*", true);
if (filenames != null)
{
control.Cursor = Cursors.Wait;
loadMultipleFiles(filenames);
control.Cursor = Cursors.Arrow;
}
AnnoList list;
list = new AnnoList();
list.Scheme = new AnnoScheme()
{
Type = AnnoScheme.TYPE.DISCRETE
};
list.Scheme.Labels = new List <AnnoScheme.Label>();
list.Scheme.Type = AnnoScheme.TYPE.DISCRETE;
list.Scheme.Labels.Clear();
AnnoScheme.Label activeStage = new AnnoScheme.Label("ACTIVE", Colors.Green);
list.Scheme.Labels.Add(activeStage);
AnnoScheme.Label unknownStage = new AnnoScheme.Label("UNKNOWN", Colors.Red);
list.Scheme.Labels.Add(unknownStage);
list.Clear();
list.Scheme.MinOrBackColor = Colors.Beige;
list.Scheme.Name = "Activation";
addAnnoTier(list);
}
private void Ok_Click(object sender, RoutedEventArgs e)
{
List <string> usedLabels = new List <string>();
scheme.MinOrBackColor = backroundColorPicket.SelectedColor.Value;
scheme.Name = schemeNameTextField.Text == "" ? Defaults.Strings.Unkown : schemeNameTextField.Text;
scheme.Labels.Clear();
foreach (Label a in LabelsListBox.Items)
{
if (a.Name != "" && !usedLabels.Contains(a.Name))
{
scheme.Labels.Add(new AnnoScheme.Label(a.Name, a.Color));
usedLabels.Add(a.Name);
}
}
AnnoScheme.Label garbage = new AnnoScheme.Label("GARBAGE", Colors.Black);
scheme.Labels.Add(garbage);
DialogResult = true;
Close();
}
private void AddAnnotation_Click(object sender, RoutedEventArgs e)
{
Dictionary <string, UserInputWindow.Input> input = new Dictionary <string, UserInputWindow.Input>();
input["label"] = new UserInputWindow.Input()
{
Label = "Class label", DefaultValue = ""
};
input["color"] = new UserInputWindow.Input()
{
Label = "Color code (#RGB)", DefaultValue = ""
};
UserInputWindow dialog = new UserInputWindow("Add a new class label", input);
dialog.ShowDialog();
if (dialog.DialogResult == true)
{
items = new List <AnnoScheme.Label>();
string label = dialog.Result("label");
Color color = (Color)ColorConverter.ConvertFromString(dialog.Result("color"));
AnnoScheme.Label lcp = new AnnoScheme.Label(label, color);
labelcolors.Add(lcp);
foreach (AnnoScheme.Label lp in labelcolors)
{
items.Add(new AnnoScheme.Label(label, color)
{
Name = lp.Name, Color = lp.Color
});
}
AnnotationResultBox.ItemsSource = items;
}
}
public static List <AnnoList> LoadfromElanFile(String filepath)
{
List <AnnoList> list = new List <AnnoList>();
try
{
XmlDocument doc = new XmlDocument();
doc.Load(filepath);
//Get time order references
XmlNode time_order = doc.SelectSingleNode("//TIME_ORDER");
List <KeyValuePair <string, string> > time_order_list = new List <KeyValuePair <string, string> >();
foreach (XmlNode node in time_order.ChildNodes)
{
time_order_list.Add(new KeyValuePair <string, string>(node.Attributes[0].Value.ToString(), node.Attributes[1].Value.ToString()));
}
//Get number of tiers
int i = 0;
foreach (XmlNode tier in doc.SelectNodes("//TIER"))
{
AnnoList al = new AnnoList();
AnnoScheme scheme = new AnnoScheme();
scheme.Type = AnnoScheme.TYPE.FREE;
string tierid = tier.Attributes.GetNamedItem("TIER_ID").Value.ToString();
string role = "";
try
{
role = tier.Attributes.GetNamedItem("PARTICIPANT").Value.ToString();
}
catch { }
al = new AnnoList();
al.Source.File.Path = filepath;
foreach (XmlNode annotation in tier.ChildNodes)
{
string label = null;
string starttmp = "";
string endtmp = "";
double start = -1;
double end = -1;
double duration = -1;
XmlNode alignable_annotation = annotation.FirstChild;
starttmp = (from kvp in time_order_list where kvp.Key == alignable_annotation.Attributes.GetNamedItem("TIME_SLOT_REF1").Value.ToString() select kvp.Value).ToList()[0];
start = double.Parse(starttmp, CultureInfo.InvariantCulture) / 1000;
endtmp = (from kvp in time_order_list where kvp.Key == alignable_annotation.Attributes.GetNamedItem("TIME_SLOT_REF2").Value.ToString() select kvp.Value).ToList()[0];
end = double.Parse(endtmp, CultureInfo.InvariantCulture) / 1000;
label = alignable_annotation.FirstChild.InnerText;
AnnoScheme.Label l = new AnnoScheme.Label(label, Colors.Black);
if (scheme.Type == AnnoScheme.TYPE.DISCRETE && scheme.Labels.Find(x => x.Name == label) == null)
{
scheme.Labels.Add(l);
}
duration = end - start;
al.AddSorted(new AnnoListItem(start, duration, label, "", Colors.Black));
//The tier is used as metainformation as well. Might be changed if thats relevant in the future
}
i++;
al.Scheme = scheme;
al.Meta.Role = role;
al.Scheme.Name = tierid;
list.Add(al);
}
}
catch (Exception ex)
{
MessageTools.Error(ex.ToString());
}
return(list);
}
public static AnnoList LoadFromEventFile(String filepath)
{
AnnoList list = new AnnoList();
try
{
XDocument doc = XDocument.Load(filepath);
var events = doc.Descendants("event");
//list.Scheme.Type = AnnoScheme.TYPE.DISCRETE;
//list.Scheme.Labels = new List<AnnoScheme.Label>();
foreach (var e in events)
{
string label = null;
string meta = "";
double start = -1;
double duration = -1;
Type type = Type.EMPTY;
var sender_attr = e.Attribute("sender");
var event_attr = e.Attribute("event");
label = (event_attr == null ? "" : event_attr.Value);
//+ "@"
//+ (sender_attr == null ? "" : sender_attr.Value);
var from_attr = e.Attribute("from");
if (from_attr != null)
{
start = double.Parse(from_attr.Value) / 1000.0;
}
var dur_attr = e.Attribute("dur");
if (dur_attr != null)
{
duration = double.Parse(dur_attr.Value) / 1000.0;
}
var type_attr = e.Attribute("type");
if (type_attr != null)
{
switch (type_attr.Value)
{
case "MAP":
type = Type.MAP;
break;
case "TUPLE":
type = Type.TUPLE;
break;
case "STRING":
type = Type.STRING;
break;
//depricated, matched to tuple
case "FLOATS":
type = Type.TUPLE;
break;
//depricated, matched to map
case "NTUPLE":
type = Type.MAP;
break;
}
}
switch (type)
{
case Type.MAP:
var tuples = e.Descendants("tuple");
foreach (var tuple in tuples)
{
var string_attr = tuple.Attribute("string");
var value_attr = tuple.Attribute("value");
meta = meta + ((string_attr == null ? "" : string_attr.Value)
+ "="
+ (value_attr == null ? "" : value_attr.Value)) + ";";
}
break;
case Type.STRING:
if (e.Value != "")
{
label = e.Value;
}
break;
case Type.TUPLE:
meta = e.Value == null ? "" : e.Value;
break;
}
AnnoScheme.Label asl = new AnnoScheme.Label(label, Colors.Black);
if (!list.Scheme.Labels.Any(item => item.Name == asl.Name))
{
list.Scheme.Labels.Add(asl);
}
var state_attr = e.Attribute("state");
if (state_attr.Value.ToString().ToUpper() == "COMPLETED")
{
Color color = Colors.Black;
//if (list.Scheme.Labels.Find(x => x.Name == label) != null)
//{
// color = list.Scheme.Labels.Find(x => x.Name == label).Color;
//}
list.AddSorted(new AnnoListItem(start, duration, label, meta, color));
}
}
}
catch (Exception ex)
{
MessageTools.Error(ex.ToString());
}
//AnnoScheme.Label garbage = new AnnoScheme.Label("GARBAGE", Colors.Black);
//list.Scheme.Labels.Add(garbage);
return(list);
}
public static AnnoList LoadfromFile(string filepath)
{
AnnoList list = new AnnoList();
list.Source.File.Path = filepath;
list.Scheme = new AnnoScheme();
list.Scheme.Labels = new List <AnnoScheme.Label>();
//try
{
XmlDocument doc = new XmlDocument();
doc.Load(filepath);
XmlNode annotation = doc.SelectSingleNode("annotation");
XmlNode info = annotation.SelectSingleNode("info");
list.Source.File.Type = info.Attributes["ftype"].Value == AnnoSource.FileSource.TYPE.ASCII.ToString() ? AnnoSource.FileSource.TYPE.ASCII : AnnoSource.FileSource.TYPE.BINARY;
int size = int.Parse(info.Attributes["size"].Value);
XmlNode meta = annotation.SelectSingleNode("meta");
if (meta != null)
{
if (meta.Attributes["role"] != null)
{
list.Meta.Role = meta.Attributes["role"].Value;
}
if (meta.Attributes["annotator"] != null)
{
list.Meta.Annotator = meta.Attributes["annotator"].Value;
}
}
XmlNode scheme = annotation.SelectSingleNode("scheme");
if (scheme.Attributes["name"] != null)
{
list.Scheme.Name = scheme.Attributes["name"].Value;
}
string type = "FREE";
if (scheme.Attributes["type"] != null)
{
type = scheme.Attributes["type"].Value;
}
if (type == AnnoScheme.TYPE.DISCRETE.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.DISCRETE;
}
else if (type == AnnoScheme.TYPE.CONTINUOUS.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.CONTINUOUS;
}
else if (type == AnnoScheme.TYPE.FREE.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.FREE;
}
else if (type == AnnoScheme.TYPE.POINT.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.POINT;
}
else if (type == AnnoScheme.TYPE.POLYGON.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.POLYGON;
}
else if (type == AnnoScheme.TYPE.GRAPH.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.GRAPH;
}
else if (type == AnnoScheme.TYPE.SEGMENTATION.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.SEGMENTATION;
}
if (scheme.Attributes["color"] != null)
{
list.Scheme.MinOrBackColor = (Color)ColorConverter.ConvertFromString(scheme.Attributes["color"].Value);
}
else if (scheme.Attributes["mincolor"] != null)
{
list.Scheme.MinOrBackColor = (Color)ColorConverter.ConvertFromString(scheme.Attributes["mincolor"].Value);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
list.Scheme.MinOrBackColor = Defaults.Colors.GradientMin;
}
if (scheme.Attributes["maxcolor"] != null)
{
list.Scheme.MaxOrForeColor = (Color)ColorConverter.ConvertFromString(scheme.Attributes["maxcolor"].Value);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
list.Scheme.MaxOrForeColor = Defaults.Colors.GradientMax;
}
Dictionary <string, string> LabelIds = new Dictionary <string, string>();
if (list.Scheme.Type == AnnoScheme.TYPE.DISCRETE)
{
foreach (XmlNode item in scheme)
{
LabelIds.Add(item.Attributes["id"].Value, item.Attributes["name"].Value);
Color color = Defaults.Colors.Foreground;
if (item.Attributes["color"] != null)
{
color = (Color)ColorConverter.ConvertFromString(item.Attributes["color"].Value);
}
AnnoScheme.Label lcp = new AnnoScheme.Label(item.Attributes["name"].Value, color);
list.Scheme.Labels.Add(lcp);
}
AnnoScheme.Label garbage = new AnnoScheme.Label("GARBAGE", Defaults.Colors.Foreground);
list.Scheme.Labels.Add(garbage);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.FREE)
{
}
else if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
list.Scheme.MinScore = double.Parse(scheme.Attributes["min"].Value);
list.Scheme.MaxScore = double.Parse(scheme.Attributes["max"].Value);
list.Scheme.SampleRate = double.Parse(scheme.Attributes["sr"].Value);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.POINT ||
list.Scheme.Type == AnnoScheme.TYPE.POLYGON || list.Scheme.Type == AnnoScheme.TYPE.GRAPH ||
list.Scheme.Type == AnnoScheme.TYPE.SEGMENTATION)
{
list.Scheme.SampleRate = double.Parse(scheme.Attributes["sr"].Value);
list.Scheme.NumberOfPoints = int.Parse(scheme.Attributes["num"].Value);
}
if (File.Exists(filepath + "~"))
{
if (list.Source.File.Type == AnnoSource.FileSource.TYPE.ASCII)
{
StreamReader sr = new StreamReader(filepath + "~", System.Text.Encoding.UTF8);
string line = null;
double start = 0.0;
while ((line = sr.ReadLine()) != null)
{
string[] data = line.Split(';');
if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
double value = double.NaN;
double.TryParse(data[0], out value);
double confidence = Convert.ToDouble(data[1], CultureInfo.InvariantCulture);
AnnoListItem e = new AnnoListItem(start, 1 / list.Scheme.SampleRate, value, "", Defaults.Colors.Foreground, confidence);
list.Add(e);
start = start + 1 / list.Scheme.SampleRate;
}
else if (list.Scheme.Type == AnnoScheme.TYPE.DISCRETE)
{
start = Convert.ToDouble(data[0], CultureInfo.InvariantCulture);
double stop = Convert.ToDouble(data[1], CultureInfo.InvariantCulture);
double dur = stop - start;
string label = "";
if (int.Parse(data[2]) < 0)
{
label = "GARBAGE";
}
else
{
LabelIds.TryGetValue(data[2], out label);
}
Color color = Colors.Black;
if (list.Scheme.Labels.Find(x => x.Name == label) != null)
{
color = list.Scheme.Labels.Find(x => x.Name == label).Color;
}
double confidence = Convert.ToDouble(data[3], CultureInfo.InvariantCulture);
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.FREE)
{
start = Convert.ToDouble(data[0], CultureInfo.InvariantCulture);
double stop = Convert.ToDouble(data[1], CultureInfo.InvariantCulture);
double dur = stop - start;
string label = data[2];
double confidence = Convert.ToDouble(data[3], CultureInfo.InvariantCulture);
Color color = Colors.Black;
if (data.Length > 4)
{
string[] metapairs = data[4].Split('=');
for (int i = 0; i < metapairs.Length; i++)
{
if (metapairs[i].Contains("color"))
{
color = (Color)ColorConverter.ConvertFromString(metapairs[i + 1]);
break;
}
}
}
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.POINT)
{
string frameLabel = data[0];
double frameConfidence = Convert.ToDouble(data[data.Count() - 1], CultureInfo.InvariantCulture);
PointList points = new PointList();
for (int i = 1; i < data.Count() - 1; ++i)
{
string pd = data[i].Replace("(", "");
pd = pd.Replace(")", "");
string[] pointData = pd.Split(':');
points.Add(new PointListItem(double.Parse(pointData[1]), double.Parse(pointData[2]), pointData[0], double.Parse(pointData[3])));
}
AnnoListItem ali = new AnnoListItem(start, 1 / list.Scheme.SampleRate, frameLabel, "", list.Scheme.MinOrBackColor, frameConfidence, true, points);
list.Add(ali);
start = start + 1 / list.Scheme.SampleRate;
}
}
sr.Close();
}
else if (list.Source.File.Type == AnnoSource.FileSource.TYPE.BINARY)
{
BinaryReader binaryReader = new BinaryReader(File.Open(filepath + "~", FileMode.Open));
long length = (binaryReader.BaseStream.Length);
double start = 0.0;
while (binaryReader.BaseStream.Position < binaryReader.BaseStream.Length)
{
if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
double value = (double)binaryReader.ReadSingle();
double confidence = (double)binaryReader.ReadSingle();
AnnoListItem e = new AnnoListItem(start, 1 / list.Scheme.SampleRate, value, "", Defaults.Colors.Foreground, confidence);
list.Add(e);
start = start + 1 / list.Scheme.SampleRate;
}
else if (list.Scheme.Type == AnnoScheme.TYPE.DISCRETE)
{
start = binaryReader.ReadDouble();
double stop = binaryReader.ReadDouble();
double dur = stop - start;
string label = "";
int index = binaryReader.ReadInt32();
if (index < 0)
{
label = "GARBAGE";
}
else
{
LabelIds.TryGetValue(index.ToString(), out label);
}
Color color = Colors.Black;
if (list.Scheme.Labels.Find(x => x.Name == label) != null)
{
color = list.Scheme.Labels.Find(x => x.Name == label).Color;
}
double confidence = Math.Round(binaryReader.ReadSingle(), 3, MidpointRounding.AwayFromZero);
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.FREE)
{
start = binaryReader.ReadDouble();
double stop = binaryReader.ReadDouble();
double dur = stop - start;
int stringlength = (int)binaryReader.ReadUInt32();
byte[] labelasbytes = (binaryReader.ReadBytes(stringlength));
string label = System.Text.Encoding.Default.GetString(labelasbytes);
Color color = Colors.Black;
double confidence = Math.Round(binaryReader.ReadSingle(), 3, MidpointRounding.AwayFromZero);
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
}
binaryReader.Close();
}
}
//Plugin logic should be called after parsing
if (meta != null && meta.Attributes["trigger"] != null)
{
string[] triggers = meta.Attributes["trigger"].Value.Split(';');
foreach (string trigger in triggers)
{
try
{
Match match = Regex.Match(trigger, @"([^{]+)\{([^}]*)\}");
if (match.Success && match.Groups.Count == 3)
{
string dllName = match.Groups[1].Value;
string arguments = match.Groups[2].Value;
Dictionary <string, object> args = arguments.Split(new[] { ',' }, StringSplitOptions.RemoveEmptyEntries)
.Select(part => part.Split('='))
.ToDictionary(split => split[0], split => (object)split[1]);
PluginCaller pluginCaller = new PluginCaller(dllName + ".dll", dllName);
AnnoTrigger annoTrigger = new AnnoTrigger(list, pluginCaller, args);
list.Meta.Trigger.Add(annoTrigger);
}
else
{
MessageTools.Warning("could not parse trigger '" + trigger + "'");
}
}
catch (Exception)
{
MessageTools.Warning("could not parse trigger '" + trigger + "'");
}
}
}
if (meta != null && meta.Attributes["pipeline"] != null)
{
string[] pipelines = meta.Attributes["pipeline"].Value.Split(';');
foreach (string pipeline in pipelines)
{
try
{
Pipeline pipe = new Pipeline(list, pipeline);
list.Meta.Pipeline.Add(pipe);
}
catch (Exception)
{
MessageTools.Warning("could not parse pipeline '" + pipeline + "'");
}
}
}
}
//catch(Exception e)
//{
// MessageBox.Show("An exception occured while reading annotation from '" + filepath + "'");
//}
return(list);
}
public static AnnoList LoadfromFile(string filepath)
{
AnnoList list = new AnnoList();
list.Source.File.Path = filepath;
list.Scheme = new AnnoScheme();
list.Scheme.Labels = new List <AnnoScheme.Label>();
try
{
XmlDocument doc = new XmlDocument();
doc.Load(filepath);
XmlNode annotation = doc.SelectSingleNode("annotation");
XmlNode info = annotation.SelectSingleNode("info");
list.Source.File.Type = info.Attributes["ftype"].Value == AnnoSource.FileSource.TYPE.ASCII.ToString() ? AnnoSource.FileSource.TYPE.ASCII : AnnoSource.FileSource.TYPE.BINARY;
int size = int.Parse(info.Attributes["size"].Value);
XmlNode meta = annotation.SelectSingleNode("meta");
if (meta != null)
{
if (meta.Attributes["role"] != null)
{
list.Meta.Role = meta.Attributes["role"].Value;
}
if (meta.Attributes["annotator"] != null)
{
list.Meta.Annotator = meta.Attributes["annotator"].Value;
}
}
XmlNode scheme = annotation.SelectSingleNode("scheme");
if (scheme.Attributes["name"] != null)
{
list.Scheme.Name = scheme.Attributes["name"].Value;
}
string type = "FREE";
if (scheme.Attributes["type"] != null)
{
type = scheme.Attributes["type"].Value;
}
if (type == AnnoScheme.TYPE.DISCRETE.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.DISCRETE;
}
else if (type == AnnoScheme.TYPE.CONTINUOUS.ToString())
{
list.Scheme.Type = AnnoScheme.TYPE.CONTINUOUS;
}
else
{
list.Scheme.Type = AnnoScheme.TYPE.FREE;
}
if (scheme.Attributes["color"] != null)
{
list.Scheme.MinOrBackColor = (Color)ColorConverter.ConvertFromString(scheme.Attributes["color"].Value);
}
else if (scheme.Attributes["mincolor"] != null)
{
list.Scheme.MinOrBackColor = (Color)ColorConverter.ConvertFromString(scheme.Attributes["mincolor"].Value);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
list.Scheme.MinOrBackColor = Colors.Orange;
}
if (scheme.Attributes["maxcolor"] != null)
{
list.Scheme.MaxOrForeColor = (Color)ColorConverter.ConvertFromString(scheme.Attributes["maxcolor"].Value);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
list.Scheme.MaxOrForeColor = Colors.LightBlue;
}
Dictionary <string, string> LabelIds = new Dictionary <string, string>();
if (list.Scheme.Type == AnnoScheme.TYPE.DISCRETE)
{
foreach (XmlNode item in scheme)
{
LabelIds.Add(item.Attributes["id"].Value, item.Attributes["name"].Value);
Color color = Colors.Black;
if (item.Attributes["color"] != null)
{
color = (Color)ColorConverter.ConvertFromString(item.Attributes["color"].Value);
}
AnnoScheme.Label lcp = new AnnoScheme.Label(item.Attributes["name"].Value, color);
list.Scheme.Labels.Add(lcp);
}
AnnoScheme.Label garbage = new AnnoScheme.Label("GARBAGE", Colors.Black);
list.Scheme.Labels.Add(garbage);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.FREE)
{
}
else if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
list.Scheme.SampleRate = double.Parse(scheme.Attributes["sr"].Value);
list.Scheme.MinScore = double.Parse(scheme.Attributes["min"].Value);
list.Scheme.MaxScore = double.Parse(scheme.Attributes["max"].Value);
}
if (File.Exists(filepath + "~"))
{
if (list.Source.File.Type == AnnoSource.FileSource.TYPE.ASCII)
{
StreamReader sr = new StreamReader(filepath + "~", System.Text.Encoding.Default);
string line = null;
double start = 0.0;
while ((line = sr.ReadLine()) != null)
{
string[] data = line.Split(';');
if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
string value = data[0];
double confidence = Convert.ToDouble(data[1], CultureInfo.InvariantCulture);
AnnoListItem e = new AnnoListItem(start, (1000.0 / list.Scheme.SampleRate) / 1000.0, value, "", Colors.Black, confidence);
list.Add(e);
start = start + (1000.0 / list.Scheme.SampleRate) / 1000.0;
}
else if (list.Scheme.Type == AnnoScheme.TYPE.DISCRETE)
{
start = Convert.ToDouble(data[0], CultureInfo.InvariantCulture);
double stop = Convert.ToDouble(data[1], CultureInfo.InvariantCulture);
double dur = stop - start;
string label = "";
if (int.Parse(data[2]) < 0)
{
label = "GARBAGE";
}
else
{
LabelIds.TryGetValue(data[2], out label);
}
Color color = Colors.Black;
if (list.Scheme.Labels.Find(x => x.Name == label) != null)
{
color = list.Scheme.Labels.Find(x => x.Name == label).Color;
}
double confidence = Convert.ToDouble(data[3], CultureInfo.InvariantCulture);
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.FREE)
{
start = Convert.ToDouble(data[0], CultureInfo.InvariantCulture);
double stop = Convert.ToDouble(data[1], CultureInfo.InvariantCulture);
double dur = stop - start;
string label = data[2];
double confidence = Convert.ToDouble(data[3], CultureInfo.InvariantCulture);
Color color = Colors.Black;
if (data.Length > 4)
{
string[] metapairs = data[4].Split('=');
for (int i = 0; i < metapairs.Length; i++)
{
if (metapairs[i].Contains("color"))
{
color = (Color)ColorConverter.ConvertFromString(metapairs[i + 1]);
break;
}
}
}
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
}
sr.Close();
}
else if (list.Source.File.Type == AnnoSource.FileSource.TYPE.BINARY)
{
BinaryReader binaryReader = new BinaryReader(File.Open(filepath + "~", FileMode.Open));
long length = (binaryReader.BaseStream.Length);
double start = 0.0;
while (binaryReader.BaseStream.Position < binaryReader.BaseStream.Length)
{
if (list.Scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
string value = binaryReader.ReadSingle().ToString();
double confidence = (double)binaryReader.ReadSingle();
AnnoListItem e = new AnnoListItem(start, (1000.0 / list.Scheme.SampleRate) / 1000.0, value, "", Colors.Black, confidence);
list.Add(e);
start = start + (1000.0 / list.Scheme.SampleRate) / 1000.0;
}
else if (list.Scheme.Type == AnnoScheme.TYPE.DISCRETE)
{
start = binaryReader.ReadDouble();
double stop = binaryReader.ReadDouble();
double dur = stop - start;
string label = "";
int index = binaryReader.ReadInt32();
if (index < 0)
{
label = "GARBAGE";
}
else
{
LabelIds.TryGetValue(index.ToString(), out label);
}
Color color = Colors.Black;
if (list.Scheme.Labels.Find(x => x.Name == label) != null)
{
color = list.Scheme.Labels.Find(x => x.Name == label).Color;
}
double confidence = Math.Round(binaryReader.ReadSingle(), 3, MidpointRounding.AwayFromZero);
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
else if (list.Scheme.Type == AnnoScheme.TYPE.FREE)
{
start = binaryReader.ReadDouble();
double stop = binaryReader.ReadDouble();
double dur = stop - start;
int stringlength = (int)binaryReader.ReadUInt32();
byte[] labelasbytes = (binaryReader.ReadBytes(stringlength));
string label = System.Text.Encoding.Default.GetString(labelasbytes);
Color color = Colors.Black;
double confidence = Math.Round(binaryReader.ReadSingle(), 3, MidpointRounding.AwayFromZero);
AnnoListItem e = new AnnoListItem(start, dur, label, "", color, confidence);
list.AddSorted(e);
}
}
binaryReader.Close();
}
}
else
{
MessageBox.Show("Annotation data was not found, load scheme only from '" + filepath + "'");
}
list.HasChanged = false;
}
catch (Exception e)
{
MessageBox.Show("An exception occured while reading annotation from '" + filepath + "'");
}
return(list);
}
private void Add_Click(object sender, RoutedEventArgs e)
{
if (allowEdit)
{
string name = null;
Brush col1 = null;
Brush col2 = null;
string sr = null;
string min = null;
string max = null;
if (annoList != null)
{
name = annoList.Scheme.Name;
if (annoList.Scheme.Type == AnnoScheme.TYPE.DISCRETE ||
annoList.Scheme.Type == AnnoScheme.TYPE.FREE)
{
usedlabels = new HashSet <AnnoScheme.Label>();
foreach (AnnoListItem item in annoList)
{
AnnoScheme.Label l = new AnnoScheme.Label(item.Label, item.Color);
bool detected = false;
foreach (AnnoScheme.Label p in usedlabels)
{
if (p.Name == l.Name)
{
detected = true;
}
}
if (detected == false)
{
usedlabels.Add(l);
}
}
col1 = new SolidColorBrush(annoList.Scheme.MinOrBackColor);
}
else
{
col1 = new SolidColorBrush(annoList.Scheme.MinOrBackColor);
col2 = new SolidColorBrush(annoList.Scheme.MaxOrForeColor);
sr = (1000.0 / (annoList.Scheme.SampleRate * 1000.0)).ToString();
min = annoList.Scheme.MinScore.ToString();
max = annoList.Scheme.MaxScore.ToString();
}
}
storeAnnotationSchemetoDatabase(name, usedlabels, annoList.Scheme.Type, col1, col2, sr, min, max);
}
else
{
Dictionary <string, UserInputWindow.Input> input = new Dictionary <string, UserInputWindow.Input>();
input["name"] = new UserInputWindow.Input()
{
Label = "Name", DefaultValue = ""
};
UserInputWindow dialog = new UserInputWindow("Add new name", input);
dialog.ShowDialog();
if (dialog.DialogResult == true)
{
DataBaseResultsBox.Items.Add(dialog.Result("name"));
DataBaseResultsBox.SelectedItem = dialog.Result("name");
}
}
}
private void ExportAnnoContinuousToDiscrete()
{
if (AnnoTierStatic.Selected != null && !AnnoTierStatic.Selected.IsDiscreteOrFree)
{
Dictionary <string, UserInputWindow.Input> input = new Dictionary <string, UserInputWindow.Input>();
input["labels"] = new UserInputWindow.Input()
{
Label = "Class labels (separated by ;)", DefaultValue = Properties.Settings.Default.ConvertToDiscreteClasses
};
input["thresholds"] = new UserInputWindow.Input()
{
Label = "Upper thresholds (separated by ;)", DefaultValue = Properties.Settings.Default.ConvertToDiscreteThreshs
};
input["offset"] = new UserInputWindow.Input()
{
Label = "Optional offset (s)", DefaultValue = Properties.Settings.Default.ConvertToDiscreteDelays
};
UserInputWindow dialog = new UserInputWindow("Convert to discrete annotation", input);
dialog.ShowDialog();
List <string> classes = new List <string>();
List <double> upperThresholds = new List <double>();
double offset = 0.0;
if (dialog.DialogResult == true)
{
Properties.Settings.Default.ConvertToDiscreteClasses = dialog.Result("labels");
Properties.Settings.Default.ConvertToDiscreteThreshs = dialog.Result("thresholds");
Properties.Settings.Default.ConvertToDiscreteDelays = dialog.Result("offset");
Properties.Settings.Default.Save();
string[] labels = dialog.Result("labels").Split(';');
for (int i = 0; i < labels.Length; i++)
{
classes.Add(labels[i]);
}
string[] thresholds = dialog.Result("thresholds").Split(';');
for (int i = 0; i < thresholds.Length; i++)
{
double thresh = -1;
double.TryParse(thresholds[i], out thresh);
if (thresh > -1)
{
upperThresholds.Add(thresh);
}
else
{
MessageTools.Warning("Could not parse input");
}
}
if (thresholds.Length == labels.Length - 1)
{
upperThresholds.Add(1.0);
}
else if (thresholds.Length == labels.Length + 1)
{
classes.Add("REST");
}
else if (thresholds.Length != labels.Length)
{
MessageBox.Show("Number of labels does not match number of threshholds");
}
double.TryParse(dialog.Result("offset"), out offset);
}
Mouse.SetCursor(Cursors.No);
AnnoList discretevalues = new AnnoList();
discretevalues.Scheme = new AnnoScheme();
discretevalues.Scheme.Type = AnnoScheme.TYPE.DISCRETE;
discretevalues.Meta.Role = AnnoTier.Selected.AnnoList.Meta.Role;
discretevalues.Meta.Annotator = AnnoTier.Selected.AnnoList.Meta.Annotator;
discretevalues.Scheme.Name = AnnoTier.Selected.AnnoList.Scheme.Name;
foreach (string label in classes)
{
AnnoScheme.Label item = new AnnoScheme.Label(label, System.Windows.Media.Colors.Black);
discretevalues.Scheme.Labels.Add(item);
}
AnnoScheme.Label garbage = new AnnoScheme.Label("GARBAGE", Colors.Black);
discretevalues.Scheme.Labels.Add(garbage);
double lowThres = -Double.MaxValue;
double highThres = 1.0;
foreach (AnnoListItem ali in AnnoTierStatic.Selected.AnnoList)
{
double val = ali.Score;
for (int i = 0; i < classes.Count; i++)
{
highThres = upperThresholds[i];
if (i > 0)
{
lowThres = upperThresholds[i - 1];
}
else
{
lowThres = -Double.MaxValue;
}
if (val > lowThres && val <= highThres)
{
if (!(discretevalues.Count > 0 && discretevalues[discretevalues.Count - 1].Label == classes[i]))
{
AnnoListItem newItem = new AnnoListItem(ali.Start + offset, ali.Duration, classes[i], "", discretevalues.Scheme.GetColorForLabel(classes[i]));
if (newItem.Start < 0.0)
{
newItem.Duration = ali.Duration + offset + newItem.Start;
newItem.Start = 0.0;
newItem.Stop = newItem.Duration;
}
if (newItem.Duration > 0.0)
{
discretevalues.Add(newItem);
}
}
else
{
discretevalues[discretevalues.Count - 1].Stop = discretevalues[discretevalues.Count - 1].Stop + ali.Duration;
}
break;
}
}
}
AnnoTier.Unselect();
addAnnoTierFromList(discretevalues);
Mouse.SetCursor(System.Windows.Input.Cursors.Arrow);
}
else
{
MessageBox.Show("Tier is already discrete");
}
}
public static AnnoScheme GetAnnotationScheme(string annoName, AnnoScheme.TYPE annoType)
{
MongoClient mongo = new MongoClient(ServerConnectionString);
IMongoDatabase database = mongo.GetDatabase(Properties.Settings.Default.DatabaseName);
AnnoScheme scheme = new AnnoScheme();
scheme.Type = annoType;
var annoSchemes = database.GetCollection <BsonDocument>(DatabaseDefinitionCollections.Schemes);
var builder = Builders <BsonDocument> .Filter;
FilterDefinition <BsonDocument> annoSchemeFilter = builder.Eq("name", annoName) & builder.Eq("type", annoType.ToString());
BsonDocument annoSchemeDocument = null;
try
{
annoSchemeDocument = annoSchemes.Find(annoSchemeFilter).Single();
if (annoSchemeDocument["type"].ToString() == annoType.ToString())
{
scheme.Name = annoSchemeDocument["name"].ToString();
if (scheme.Type == AnnoScheme.TYPE.CONTINUOUS)
{
scheme.MinScore = annoSchemeDocument["min"].ToDouble();
scheme.MaxScore = annoSchemeDocument["max"].ToDouble();
scheme.SampleRate = annoSchemeDocument["sr"].ToDouble();
scheme.MinOrBackColor = (Color)ColorConverter.ConvertFromString(annoSchemeDocument["min_color"].ToString());
scheme.MaxOrForeColor = (Color)ColorConverter.ConvertFromString(annoSchemeDocument["max_color"].ToString());
}
else if (scheme.Type == AnnoScheme.TYPE.DISCRETE)
{
scheme.MinOrBackColor = (Color)ColorConverter.ConvertFromString(annoSchemeDocument["color"].ToString());
BsonArray schemeLabelsArray = annoSchemeDocument["labels"].AsBsonArray;
string SchemeLabel = "";
string SchemeColor = "#000000";
for (int j = 0; j < schemeLabelsArray.Count; j++)
{
try
{
if (schemeLabelsArray[j]["isValid"].AsBoolean == true)
{
SchemeLabel = schemeLabelsArray[j]["name"].ToString();
SchemeColor = schemeLabelsArray[j]["color"].ToString();
AnnoScheme.Label lcp = new AnnoScheme.Label(schemeLabelsArray[j]["name"].ToString(), (Color)ColorConverter.ConvertFromString(schemeLabelsArray[j]["color"].ToString()));
scheme.Labels.Add(lcp);
}
}
catch
{
SchemeLabel = schemeLabelsArray[j]["name"].ToString();
SchemeColor = schemeLabelsArray[j]["color"].ToString();
AnnoScheme.Label lcp = new AnnoScheme.Label(schemeLabelsArray[j]["name"].ToString(), (Color)ColorConverter.ConvertFromString(schemeLabelsArray[j]["color"].ToString()));
scheme.Labels.Add(lcp);
}
}
}
else if (scheme.Type == AnnoScheme.TYPE.FREE)
{
scheme.MinOrBackColor = (Color)ColorConverter.ConvertFromString(annoSchemeDocument["color"].ToString());
}
}
}
catch (Exception ex)
{
MessageTools.Warning(ex.ToString());
}
return(scheme);
}