public static void SetPosition(ref Command cmd, ref XYZData xyzData, Transform trans)
{
cmd.types |= EPacketTypes.POSITION;
cmd.xyzData.position = new double[3];
cmd.xyzData.position[0] = trans.localPosition.x;
cmd.xyzData.position[1] = trans.localPosition.y;
cmd.xyzData.position[2] = trans.localPosition.z;
}
public static void SetRotation(ref Command cmd, ref XYZData xyzData, Transform trans)
{
cmd.types |= EPacketTypes.ROTATION;
xyzData.rotation = new double[4];
xyzData.rotation[0] = trans.localRotation.x;
xyzData.rotation[1] = trans.localRotation.y;
xyzData.rotation[2] = trans.localRotation.z;
xyzData.rotation[3] = trans.localRotation.w;
}
public static XYZData Parse(string input)
{
var xyzData = new XYZData {
X = 100000, Y = 100000, Z = 100000
};
if (string.IsNullOrWhiteSpace(input))
{
return(xyzData);
}
var parts = input.Split();
foreach (var part in parts)
{
double result;
if (part.Length < 2 ||
!double.TryParse(part.Substring(1), out result))
{
continue;
}
if (part.StartsWith("X", StringComparison.OrdinalIgnoreCase))
{
xyzData.X = result;
continue;
}
if (part.StartsWith("Y", StringComparison.OrdinalIgnoreCase))
{
xyzData.Y = result;
continue;
}
if (part.StartsWith("Z", StringComparison.OrdinalIgnoreCase))
{
xyzData.Z = result;
continue;
}
}
return(xyzData);
}
/// <summary>
/// Creates SIC's mapped by charge state for the MS Features in the feature.
/// </summary>
/// <param name="feature"></param>
/// <param name="provider">Object that can read data from a raw file or data source.</param>
/// <returns></returns>
public static Dictionary <int, List <XYZData> > CreateChargeSIC(this UMCLight feature, ISpectraProvider provider)
{
var chargeMap = feature.CreateChargeMap();
var sicMap = new Dictionary <int, List <XYZData> >();
foreach (var charge in chargeMap.Keys)
{
chargeMap[charge].Sort(delegate(MSFeatureLight x, MSFeatureLight y) { return(x.Scan.CompareTo(y.Scan)); }
);
var data = chargeMap[charge].ConvertAll(x => new XYZData(x.Scan, x.Abundance, x.Mz));
sicMap.Add(charge, data);
}
if (provider != null)
{
// Creates an SIC map for a given charge state of the feature.
foreach (var charge in sicMap.Keys)
{
var data = sicMap[charge];
// The data is alread sorted.
var minScan = int.MaxValue;
var maxScan = int.MinValue;
var mzValues = new List <double>();
foreach (var x in data)
{
mzValues.Add(x.Z);
minScan = Math.Min(minScan, Convert.ToInt32(x.X));
maxScan = Math.Max(maxScan, Convert.ToInt32(x.X));
}
mzValues.Sort();
double mz = 0;
var mid = Convert.ToInt32(mzValues.Count / 2);
mz = mzValues[mid];
minScan -= 20;
maxScan += 20;
// Build the SIC
var intensities = new List <XYZData>();
for (var scan = minScan; scan < maxScan; scan++)
{
var summary = new ScanSummary();
var spectrum = provider.GetRawSpectra(scan, 1, out summary);
double intensity = 0;
var minDistance = double.MaxValue;
var index = -1;
for (var i = 0; i < spectrum.Count; i++)
{
var distance = spectrum[i].X - mz;
if (distance < minDistance)
{
index = i;
minDistance = distance;
}
}
if (index >= 0)
{
intensity = spectrum[index].Y;
}
var newPoint = new XYZData(scan, intensity, mz);
intensities.Add(newPoint);
}
sicMap[charge] = intensities;
}
}
return(sicMap);
}
public static void SetAction(ref Command cmd, ref XYZData xyzData, int actionID)
{
cmd.types |= EPacketTypes.ACTION;
xyzData.action = actionID;
}
