public bool Equals(TransitionChromInfo other)
{
if (ReferenceEquals(null, other))
{
return(false);
}
if (ReferenceEquals(this, other))
{
return(true);
}
return(base.Equals(other) &&
Equals(other.MassError, MassError) &&
other.RetentionTime == RetentionTime &&
other.StartRetentionTime == StartRetentionTime &&
other.EndRetentionTime == EndRetentionTime &&
other.Area == Area &&
other.BackgroundArea == BackgroundArea &&
other.Height == Height &&
other.Fwhm == Fwhm &&
other.IsFwhmDegenerate.Equals(IsFwhmDegenerate) &&
Equals(other.IsTruncated, IsTruncated) &&
Equals(other.Identified, Identified) &&
other.Rank == Rank &&
ArrayUtil.EqualsDeep(other.Ratios, Ratios) &&
other.OptimizationStep.Equals(OptimizationStep) &&
other.Annotations.Equals(Annotations) &&
other.UserSet.Equals(UserSet));
}
public double?GetTransitionValue(NormalizationMethod normalizationMethod, PeptideDocNode peptideDocNode,
TransitionDocNode transitionDocNode, TransitionChromInfo transitionChromInfo)
{
if (peptideDocNode == null)
{
return(null);
}
var transitionGroupDocNode = (TransitionGroupDocNode)peptideDocNode.FindNode(transitionDocNode.Transition.Group);
if (transitionGroupDocNode == null)
{
return(null);
}
return(GetTransitionValue(normalizationMethod, peptideDocNode, transitionGroupDocNode, transitionDocNode,
transitionChromInfo));
}
private TransitionChromInfoData(MeasuredResults measuredResults, int replicateIndex, ChromFileInfo chromFileInfo, TransitionChromInfo transitionChromInfo, PeptideDocNode peptideDocNode, TransitionGroupDocNode transitionGroupDocNode, TransitionDocNode transitionDocNode)
: base(measuredResults, replicateIndex, chromFileInfo, transitionChromInfo, peptideDocNode, transitionGroupDocNode)
{
TransitionDocNode = transitionDocNode;
}
private TransitionChromInfoData(MeasuredResults measuredResults, int replicateIndex, ChromFileInfo chromFileInfo, TransitionChromInfo transitionChromInfo)
: base(measuredResults, replicateIndex, chromFileInfo, transitionChromInfo)
{
}
public double?GetTransitionValue(NormalizationMethod normalizationMethod, PeptideDocNode peptideDocNode, TransitionGroupDocNode transitionGroupDocNode, TransitionDocNode transitionDocNode, TransitionChromInfo transitionChromInfo)
{
if (!transitionDocNode.IsQuantitative(Document.Settings))
{
return(null);
}
if (transitionChromInfo == null || transitionChromInfo.IsEmpty)
{
return(null);
}
if (TryGetDenominator(normalizationMethod, transitionGroupDocNode.LabelType, transitionChromInfo.FileId,
out double?denominator))
{
return(transitionChromInfo.Area / denominator);
}
if (normalizationMethod is NormalizationMethod.RatioToLabel ratioToLabel)
{
if (ratioToLabel.IsotopeLabelTypeName == transitionGroupDocNode.LabelType.Name)
{
return(null);
}
if (SimpleRatios)
{
return(null);
}
var otherTransitionGroup =
FindMatchingTransitionGroup(ratioToLabel, peptideDocNode, transitionGroupDocNode);
if (otherTransitionGroup == null)
{
return(null);
}
var otherTransition = FindMatchingTransition(transitionGroupDocNode, transitionDocNode, otherTransitionGroup);
if (otherTransition == null)
{
return(null);
}
if (!otherTransition.IsQuantitative(Document.Settings))
{
return(null);
}
var otherChrominfo = FindMatchingTransitionChromInfo(transitionChromInfo, otherTransition);
if (otherChrominfo == null || otherChrominfo.IsEmpty)
{
return(null);
}
return(transitionChromInfo.Area / otherChrominfo.Area);
}
return(null);
}
public TransitionChromInfo FindMatchingTransitionChromInfo(TransitionChromInfo transitionChromInfo,
TransitionDocNode otherTransition)
{
return(FindMatchingTransitionChromInfo(transitionChromInfo.FileId, transitionChromInfo.OptimizationStep,
otherTransition));
}
