public override TimeIntensitiesGroup Truncate(float newStartTime, float newEndTime)
{
InterpolationParams interpolationParams;
if (InterpolationParams == null)
{
interpolationParams = null;
}
else
{
var interpolatedTimes = GetInterpolatedTimes();
int startIndex = CollectionUtil.BinarySearch(interpolatedTimes, newStartTime);
if (startIndex < 0)
{
startIndex = ~startIndex - 1;
}
int endIndex = CollectionUtil.BinarySearch(interpolatedTimes, newEndTime);
if (endIndex < 0)
{
endIndex = ~endIndex;
}
startIndex = Math.Max(startIndex, 0);
endIndex = Math.Min(Math.Max(startIndex, endIndex), interpolatedTimes.Count - 1);
interpolationParams = InterpolationParams
.ChangeStartTime(interpolatedTimes[startIndex])
.ChangeEndTime(interpolatedTimes[endIndex])
.ChangeNumPoints(endIndex - startIndex + 1);
}
return(new RawTimeIntensities(
TransitionTimeIntensities.Select(timeIntensities => timeIntensities.Truncate(newStartTime, newEndTime)),
interpolationParams));
}
public ImmutableList <float> GetInterpolatedTimes()
{
if (InterpolationParams == null)
{
return(TransitionTimeIntensities.First().Times);
}
return(ImmutableList.ValueOf(InterpolationParams.GetEvenlySpacedTimesFloat()));
}
public static RawTimeIntensities FromChromatogramGroupData(ChromatogramGroupData chromatogramGroupData)
{
var timeIntensitiesList = new List <TimeIntensities>();
var timeLists = chromatogramGroupData.TimeLists.Select(timeList => ImmutableList.ValueOf(timeList.Times)).ToArray();
var scanIdLists = chromatogramGroupData.ScanIdLists
.Select(scanIdList => ImmutableList.ValueOf(scanIdList.ScanIds)).ToArray();
foreach (var chromatogram in chromatogramGroupData.Chromatograms)
{
IEnumerable <float> massErrors = null;
if (chromatogram.MassErrors100X.Count > 0)
{
massErrors = chromatogram.MassErrors100X.Select(error => error / 100.0f);
}
else if (chromatogram.MassErrorsDeprecated.Count > 0)
{
massErrors = chromatogram.MassErrorsDeprecated;
}
var timeIntensities = new TimeIntensities(timeLists[chromatogram.TimeListIndex - 1],
chromatogram.Intensities,
massErrors,
chromatogram.ScanIdListIndex == 0 ? null : scanIdLists[chromatogram.ScanIdListIndex - 1]);
timeIntensitiesList.Add(timeIntensities);
}
InterpolationParams interpolationParams;
if (chromatogramGroupData.InterpolatedNumPoints == 0)
{
interpolationParams = null;
}
else
{
interpolationParams = new InterpolationParams(chromatogramGroupData.InterpolatedStartTime, chromatogramGroupData.InterpolatedEndTime, chromatogramGroupData.InterpolatedNumPoints, chromatogramGroupData.InterpolatedDelta)
.ChangeInferZeroes(chromatogramGroupData.InferZeroes);
}
var rawTimeIntensities = new RawTimeIntensities(timeIntensitiesList, interpolationParams);
if (chromatogramGroupData.TimeIntervals != null)
{
var startTimes = chromatogramGroupData.TimeIntervals.StartTimes;
var endTimes = chromatogramGroupData.TimeIntervals.EndTimes;
var timeIntervals = TimeIntervals.FromIntervals(Enumerable.Range(0, startTimes.Count)
.Select(i => new KeyValuePair <float, float>(startTimes[i], endTimes[i])));
rawTimeIntensities = rawTimeIntensities.ChangeTimeIntervals(timeIntervals);
}
return(rawTimeIntensities);
}
public RawTimeIntensities(IEnumerable <TimeIntensities> transitionTimeIntensities, InterpolationParams interpolationParams)
: base(transitionTimeIntensities)
{
InterpolationParams = interpolationParams;
}