public void PValueConversion(double originalValue, double convertedValue, PValueFormats pvalueFormat)
{
// Arrange
var rg = new RegionGenerator {
Value = convertedValue
};
using (var file = new TempFileCreator(rg))
{
// Act
var parser = new BedParser()
{
PValueFormat = pvalueFormat
};
var parsedData = parser.Parse(file.Path);
// Assert
Assert.True(parsedData.Chromosomes[rg.Chr].Strands[rg.Strand].Intervals[0].Value == originalValue);
}
}
public void ReadParserConfig(
byte chr,
byte left,
sbyte right,
byte name,
sbyte strand,
sbyte summit,
byte value,
bool dropPeakIfInvalidValue,
double defaultValue,
PValueFormats pValueFormat,
string culture)
{
// Arrange
ParserConfig cols = new ParserConfig()
{
Chr = chr,
Left = left,
Right = right,
Name = name,
Strand = strand,
Summit = summit,
Value = value,
DefaultValue = defaultValue,
PValueFormat = pValueFormat,
DropPeakIfInvalidValue = dropPeakIfInvalidValue,
Culture = culture
};
var path = Environment.CurrentDirectory + Path.DirectorySeparatorChar + "MSPCTests_" + new Random().NextDouble().ToString();
using (StreamWriter w = new StreamWriter(path))
w.WriteLine(JsonConvert.SerializeObject(cols));
// Act
ParserConfig parsedCols = ParserConfig.LoadFromJSON(path);
File.Delete(path);
// Assert
Assert.True(parsedCols.Equals(cols));
}
public void PValueAssertion(double value, PValueFormats pvalueFormat, bool validate, bool expected)
{
// Arrange
var rg = new RegionGenerator {
Value = value
};
// Act
using (var file = new TempFileCreator(rg))
{
var parser = new BedParser()
{
PValueFormat = pvalueFormat,
ValidatePValue = validate
};
var parsedData = parser.Parse(file.Path);
// Assert
Assert.True(parsedData.Chromosomes.Any() == expected);
}
}
public ParserConfig()
{
DropPeakIfInvalidValue = true;
DefaultValue = 1E-8;
PValueFormat = PValueFormats.minus1_Log10_pValue;
}
