private void AssertGivenValuesAreValid()
{
switch (_cReplicate.Value().ToLower())
{
case "bio":
case "biological":
_vreplicate = ReplicateType.Biological;
break;
case "tec":
case "technical":
_vreplicate = ReplicateType.Technical;
break;
default:
throw new ArgumentException("Invalid value given for the `" + _cReplicate.LongName + "` argument.");
}
if (!double.TryParse(_cTauS.Value(), out _vtauS))
{
throw new ArgumentException("Invalid value given for the `" + _cTauS.LongName + "` argument.");
}
if (!double.TryParse(_cTauW.Value(), out _vtauW))
{
throw new ArgumentException("Invalid value given for the `" + _cTauW.LongName + "` argument.");
}
if (_vtauW <= _vtauS)
{
throw new ArgumentException("Stringency threshold (TauS) should be lower than weak threshold (TauW).");
}
if (_cGamma.HasValue() && !double.TryParse(_cGamma.Value(), out _vgamma))
{
throw new ArgumentException("Invalid value given for the `" + _cGamma.LongName + "` argument.");
}
_vgamma = _vgamma == -1 ? _vtauS : _vgamma;
if (_cAlpha.HasValue() && !float.TryParse(_cAlpha.Value(), out _valpha))
{
throw new ArgumentException("Invalid value given for the `" + _cAlpha.LongName + "` argument.");
}
if (_cC.HasValue())
{
if (_cC.Value().Contains("%"))
{
if (int.TryParse(_cC.Value().Replace("%", ""), out int percentage))
{
_vc = (_inputFiles.Count * percentage) / 100;
}
else
{
throw new ArgumentException("Invalid value given for the `" + _cC.ShortName + "` argument.");
}
}
else if (!int.TryParse(_cC.Value(), out _vc))
{
throw new ArgumentException("Invalid value given for the `" + _cC.ShortName + "` argument.");
}
if (_vc < 1)
{
_vc = 1;
}
}
if (_cM.HasValue())
{
switch (_cM.Value().ToLower())
{
case "lowest":
_vm = MultipleIntersections.UseLowestPValue;
break;
case "highest":
_vm = MultipleIntersections.UseHighestPValue;
break;
default:
throw new ArgumentException("Invalid value given for the `" + _cM.LongName + "` argument.");
}
}
}
private void AssertGivenValuesAreValid()
{
switch (_cReplicate.Value().ToLower())
{
case "bio":
case "biological":
_vreplicate = ReplicateType.Biological;
break;
case "tec":
case "technical":
_vreplicate = ReplicateType.Technical;
break;
default:
throw new ArgumentException("Invalid value given for the `" + _cReplicate.LongName + "` argument.");
}
if (!double.TryParse(_cTauS.Value(), out _vtauS))
{
throw new ArgumentException("Invalid value given for the `" + _cTauS.LongName + "` argument.");
}
if (!double.TryParse(_cTauW.Value(), out _vtauW))
{
throw new ArgumentException("Invalid value given for the `" + _cTauW.LongName + "` argument.");
}
if (_vtauW <= _vtauS)
{
throw new ArgumentException("Stringency threshold (TauS) should be lower than weak threshold (TauW).");
}
if (_cGamma.HasValue() && !double.TryParse(_cGamma.Value(), out _vgamma))
{
throw new ArgumentException("Invalid value given for the `" + _cGamma.LongName + "` argument.");
}
_vgamma = _vgamma == -1 ? _vtauS : _vgamma;
if (_cAlpha.HasValue() && !float.TryParse(_cAlpha.Value(), out _valpha))
{
throw new ArgumentException("Invalid value given for the `" + _cAlpha.LongName + "` argument.");
}
if (_cC.HasValue())
{
if (_cC.Value().Contains("%"))
{
if (int.TryParse(_cC.Value().Replace("%", ""), out int percentage))
{
_vc = (_inputFiles.Count * percentage) / 100;
}
else
{
throw new ArgumentException("Invalid value given for the `" + _cC.ShortName + "` argument.");
}
}
else if (!int.TryParse(_cC.Value(), out _vc))
{
throw new ArgumentException("Invalid value given for the `" + _cC.ShortName + "` argument.");
}
if (_vc < 1)
{
Warnings.Add($"Invalid `C={_cC.Value()}`, it is set to `C=1`.");
_vc = 1;
}
else if (_vc > _inputFiles.Count)
{
Warnings.Add($"Invalid `C={_cC.Value()}`, it is set to `C={_inputFiles.Count}`.");
_vc = _inputFiles.Count;
}
}
if (_cM.HasValue())
{
switch (_cM.Value().ToLower())
{
case "lowest":
_vm = MultipleIntersections.UseLowestPValue;
break;
case "highest":
_vm = MultipleIntersections.UseHighestPValue;
break;
default:
throw new ArgumentException("Invalid value given for the `" + _cM.LongName + "` argument.");
}
}
if (_cOutput.HasValue())
{
OutputPath = _cOutput.Value();
}
if (_cDP.HasValue())
{
if (int.TryParse(_cDP.Value(), out int dp))
{
DegreeOfParallelism = dp;
}
else
{
throw new ArgumentException("Invalid value given for the `" + _cDP.LongName + "` argument.");
}
}
if (_cExcludeHeader.HasValue())
{
ExcludeHeader = true;
}
}
internal Result(ReplicateType replicateType)
{
_replicateType = replicateType;
Chromosomes = new ConcurrentDictionary <string, Sets <I> >();
}
