public void Test_Plot_SignalAndStimulus(string abfFilename)
{
string abfFilePath = SampleData.GetAbfPath(abfFilename);
string abfFolder = Path.GetDirectoryName(abfFilePath);
var abf = new AbfSharp.ABFFIO.ABF(abfFilePath);
Console.WriteLine($"\n{abf}");
ScottPlot.MultiPlot mp = new(800, 600, 2, 1);
for (int i = 0; i < abf.SweepCount; i++)
{
float[] adc = abf.GetSweep(i);
float[] dac = abf.GetStimulusWaveform(i);
mp.subplots[0].AddSignal(ToDoubles(adc), abf.SampleRate, color: System.Drawing.Color.Blue);
mp.subplots[1].AddSignal(ToDoubles(dac), abf.SampleRate, color: System.Drawing.Color.Red);
}
mp.subplots[0].Layout(left: 75, right: 10);
mp.subplots[0].AxisAuto(horizontalMargin: 0);
mp.subplots[0].Title(abfFilename);
mp.subplots[0].YLabel($"{abf.AdcNames[0]} ({abf.AdcUnits[0]})");
mp.subplots[0].XLabel("Sweep Time (seconds)");
mp.subplots[1].Layout(left: 75, right: 10);
mp.subplots[1].AxisAuto(horizontalMargin: 0);
mp.subplots[1].YLabel($"{abf.DacNames[0]} ({abf.DacUnits[0]})");
mp.subplots[1].XLabel("Sweep Time (seconds)");
string saveAs = Path.Combine(abfFolder, Path.GetFileNameWithoutExtension(abf.FilePath) + ".png");
mp.SaveFig(saveAs);
Console.WriteLine($"SAVED: {saveAs}");
}
public void Test_GetStimulusWaveform_Plot()
{
string saveFolder = Path.Combine(TestContext.CurrentContext.TestDirectory, "test_figures");
if (!Directory.Exists(saveFolder))
{
Directory.CreateDirectory(saveFolder);
}
foreach (string abfPath in SampleData.GetAllAbfPaths())
{
var abf = new AbfSharp.ABFFIO.ABF(abfPath);
Console.WriteLine($"\n{abf}");
ScottPlot.MultiPlot mp = new(800, 800, 2, 1);
for (int i = 0; i < abf.SweepCount; i++)
{
float[] adc = abf.GetSweep(i);
float[] dac = abf.GetStimulusWaveform(i);
mp.subplots[0].AddSignal(ToDoubles(adc), color: System.Drawing.Color.Blue);
mp.subplots[1].AddSignal(ToDoubles(dac), color: System.Drawing.Color.Red);
}
string saveAs = Path.Combine(saveFolder, Path.GetFileNameWithoutExtension(abf.FilePath) + ".png");
mp.subplots[0].Layout(left: 75, right: 10);
mp.subplots[1].Layout(left: 75, right: 10);
mp.SaveFig(saveAs);
Console.WriteLine($"SAVED: {saveAs}");
}
}
public void Test_Quickstart_Official()
{
string abfPath = SampleData.GetAbfPath("File_axon_5.abf");
var abf = new AbfSharp.ABFFIO.ABF(abfPath);
float[] sweep = abf.GetSweep(0);
for (int i = 0; i < 5; i++)
{
Console.Write($"{sweep[i]:0.000}, ");
}
}
public void Test_AbfFileHeader_Markdown()
{
foreach (string abfFilePath in SampleData.GetAllAbfPaths())
{
var abf = new AbfSharp.ABFFIO.ABF(abfFilePath);
string md = GetHeaderMarkdown(abf.Header);
Console.WriteLine(md);
string abfFolder = System.IO.Path.GetDirectoryName(abfFilePath);
string abfID = System.IO.Path.GetFileNameWithoutExtension(abfFilePath);
string mdPath = System.IO.Path.Combine(abfFolder, $"{abfID}.md");
System.IO.File.WriteAllText(mdPath, md);
Console.WriteLine("Wrote: {mdPath}");
}
}
static void Main(string[] args)
{
string thisFolder = Path.GetDirectoryName(System.Reflection.Assembly.GetAssembly(typeof(Program)).Location);
Console.WriteLine(thisFolder);
string abfFolder = Path.GetFullPath(thisFolder + "/../../../../../data/abfs");
string[] abfPaths = Directory.GetFiles(abfFolder, "*.*").Where(x => x.EndsWith(".abf")).ToArray();
foreach (string abfPath in abfPaths)
{
var abf = new AbfSharp.ABFFIO.ABF(abfPath);
double[] firstValues = new double[abf.Header.nADCNumChannels];
for (int i = 0; i < abf.Header.nADCNumChannels; i++)
{
double[] sweep = abf.GetSweep(sweepIndex: 0, channelIndex: i);
firstValues[i] = sweep[0];
}
string values = string.Join(", ", firstValues.Select(x => $"{x:0.00000}"));
string abfid = Path.GetFileNameWithoutExtension(abfPath);
string line = $"FIRSTVALUES['{abfid}'] = [{values}]";
Console.WriteLine(line);
}
}
public void Test_AllABfs_Load()
{
foreach (string abfPath in SampleData.GetAllAbfPaths())
{
var abf = new AbfSharp.ABFFIO.ABF(abfPath, preloadSweepData: false);
Console.WriteLine($"\n{abf}");
if (abf.Tags.Count > 0)
{
Console.WriteLine($"TAGS: {abf.Tags}");
}
float[] adc = abf.GetSweep(0);
Console.WriteLine("SWEEP: " + string.Join(", ", adc.Take(10).Select(x => x.ToString())));
float[] dac = abf.GetStimulusWaveform(0);
Console.WriteLine("STIM: " + string.Join(", ", dac.Take(10).Select(x => x.ToString())));
if (abf.OperationMode != AbfSharp.OperationMode.EventDriven)
{
Assert.AreEqual(adc.Length, dac.Length);
}
}
}
public void Test_NonAbf_ThrowsOnLoad()
{
string nonAbfPath = Path.GetFullPath("ABFFIO.DLL");
Assert.Throws <InvalidOperationException>(() => { var abf = new AbfSharp.ABFFIO.ABF(nonAbfPath); });
}
