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 InterpolatedTimeIntensities Interpolate(IEnumerable <ChromSource> chromSources)
{
var interpolatedTimes = GetInterpolatedTimes();
return(new InterpolatedTimeIntensities(TransitionTimeIntensities.Select(timeIntensities => timeIntensities.Interpolate(interpolatedTimes, InferZeroes)),
chromSources));
}
public override void WriteToStream(Stream stream)
{
PrimitiveArrays.Write(stream, TransitionTimeIntensities.First().Times.ToArray());
foreach (var timeIntensities in TransitionTimeIntensities)
{
PrimitiveArrays.Write(stream, timeIntensities.Intensities.ToArray());
}
foreach (var timeIntensities in TransitionTimeIntensities)
{
if (timeIntensities.MassErrors == null)
{
continue;
}
WriteMassErrors(stream, timeIntensities.MassErrors);
}
var scanIdsByChromSource = ScanIdsByChromSource();
foreach (var chromSource in PERSISTED_CHROM_SOURCES)
{
ImmutableList <int> scanIds;
if (!scanIdsByChromSource.TryGetValue(chromSource, out scanIds))
{
continue;
}
PrimitiveArrays.Write(stream, scanIds.ToArray());
}
}
public ImmutableList <float> GetInterpolatedTimes()
{
if (InterpolationParams == null)
{
return(TransitionTimeIntensities.First().Times);
}
return(ImmutableList.ValueOf(InterpolationParams.GetEvenlySpacedTimesFloat()));
}
public override TimeIntensitiesGroup Truncate(float newStartTime, float newEndTime)
{
return(Singleton(TransitionTimeIntensities.First().Truncate(newStartTime, newEndTime)));
}
public override TimeIntensitiesGroup Truncate(float newStartTime, float newEndTime)
{
return(new InterpolatedTimeIntensities(TransitionTimeIntensities
.Select(timeIntensities => timeIntensities.Truncate(newStartTime, newEndTime)),
TransitionChromSources));
}
