private void tvMRM_AfterSelect(object sender, TreeViewEventArgs e)
{
if (displaying)
{
return;
}
DoUpdatePeptide();
var node = tvMRM.SelectedNode;
if (null == node || node.Level != 2)
{
return;
}
//设置当前product ion
SrmPairedProductIon item = node.Tag as SrmPairedProductIon;
SrmPairedPeptideItem pep = node.Parent.Tag as SrmPairedPeptideItem;
int rowIndex = pep.ProductIonPairs.IndexOf(item);
CurrencyManager cm = (CurrencyManager)this.BindingContext[pep.ProductIonPairs];
if (cm.Position != rowIndex)
{
cm.Position = rowIndex;
}
}
private void tvMRM_AfterCheck(object sender, TreeViewEventArgs e)
{
if (displaying)
{
return;
}
var node = e.Node;
if (node.Level == 0)
{
return;
}
if (node.Level == 1)
{
SrmPairedPeptideItem pepItem = node.Tag as SrmPairedPeptideItem;
pepItem.Enabled = node.Checked;
return;
}
if (node.Level == 2)
{
SrmPairedProductIon item = node.Tag as SrmPairedProductIon;
item.Enabled = node.Checked;
SrmPairedPeptideItem pepItem = node.Parent.Tag as SrmPairedPeptideItem;
pepItem.CalculatePeptideRatio();
}
tvMRM_AfterSelect(null, null);
SetCurrentResultModified();
}
public bool ProductIonEquals(SrmPairedProductIon another, double mzTolerance)
{
if (this.Light != null && another.Light != null)
{
if (Math.Abs(this.Light.ProductIon - another.Light.ProductIon) > mzTolerance)
{
return(false);
}
}
else if (this.Light != null || another.Light != null)
{
return(false);
}
if (this.Heavy != null && another.Heavy != null)
{
if (Math.Abs(this.Heavy.ProductIon - another.Heavy.ProductIon) > mzTolerance)
{
return(false);
}
}
else if (this.Heavy != null || another.Heavy != null)
{
return(false);
}
return(true);
}
private void mnuSetScanEnabledOnly_Click(object sender, EventArgs e)
{
GraphPane graphScans = mnuSetScanEnabledOnly.Tag as GraphPane;
double min = graphScans.XAxis.Scale.Min;
double max = graphScans.XAxis.Scale.Max;
SrmPairedProductIon ion = graphScans.Tag as SrmPairedProductIon;
SrmPairedPeptideItem item = FindItemByProductIon(ion);
if (null == item)
{
return;
}
item.SetEnabledRetentionTimeRange(min, max);
CurrentResult.Update(item);
gvProductPair.Refresh();
DoUpdateProductIon();
tvMRM_AfterSelect(null, null);
SetCurrentResultModified();
}
public SrmFileItem(SrmPairedResult result, SrmPairedPeptideItem peptide, SrmPairedProductIon production)
{
this.PairedResult = result;
this.PairedPeptide = peptide;
this.PairedProductIon = production;
_precursorMz = new Pair <double, double>(peptide.LightPrecursorMZ, peptide.HeavyPrecursorMZ);
_productIonMz = new Pair <double, double>(production.LightProductIon, production.HeavyProductIon);
}
private SrmFileItem GetFileModeItem()
{
CurrencyManager cm = (CurrencyManager)this.BindingContext[filePeptide.ProductIonPairs];
SrmPairedProductIon item = cm.Current as SrmPairedProductIon;
var fileItem = files.FindFileItem(item);
return(fileItem);
}
public bool Accept(SrmPairedProductIon t)
{
foreach (var filter in filters)
{
if (!filter.Accept(t))
{
return(false);
}
}
return(true);
}
private void mnuSetScanEnabledOnly_Click(object sender, EventArgs e)
{
GraphPane graphScans = mnuSetScanEnabledOnly.Tag as GraphPane;
double min = graphScans.XAxis.Scale.Min;
double max = graphScans.XAxis.Scale.Max;
SrmPairedProductIon ion = graphScans.Tag as SrmPairedProductIon;
var item = allFiles.Items.Find(m => m.PairedProductIon == ion);
item.PairedPeptide.SetEnabledRetentionTimeRange(min, max);
item.PairedResult.Update(item.PairedPeptide);
item.PairedResult.Modified = true;
gvFiles.Refresh();
UpdateGraph();
}
private SrmPairedProductIon DoUpdateProductIon()
{
var pep = GetPeptide();
if (pep == null)
{
return(null);
}
CurrencyManager cm = (CurrencyManager)this.BindingContext[pep.ProductIonPairs];
SrmPairedProductIon item = cm.Current as SrmPairedProductIon;
UpdateMRMPairedProductIonEventArgs args = new UpdateMRMPairedProductIonEventArgs(item, new SrmViewOption()
{
ViewGreenLine = true, ViewType = lastType
});
OnUpdateProductIon(args);
return(item);
}
private void tvMRM_AfterSelect(object sender, TreeViewEventArgs e)
{
var node = tvMRM.SelectedNode;
if (null == node)
{
gvProductPair.DataSource = null;
return;
}
SrmPairedPeptideItem pep;
if (0 == node.Level)
{
pep = DoUpdatePeptide();
if (gvProductPair.DataSource != pep.ProductIonPairs)
{
gvProductPair.DataSource = pep.ProductIonPairs;
}
}
else
{
SrmPairedProductIon item = node.Tag as SrmPairedProductIon;
pep = node.Parent.Tag as SrmPairedPeptideItem;
if (gvProductPair.DataSource != pep.ProductIonPairs)
{
DoUpdatePeptide();
gvProductPair.DataSource = pep.ProductIonPairs;
}
int rowIndex = pep.ProductIonPairs.IndexOf(item);
CurrencyManager cm = (CurrencyManager)this.BindingContext[pep.ProductIonPairs];
if (cm.Position != rowIndex)
{
cm.Position = rowIndex;
}
}
}
private void SetTreeSelected(SrmPairedProductIon item)
{
if (tvMRM.SelectedNode.Level < 2)
{
return;
}
if (tvMRM.SelectedNode.Tag == item)
{
return;
}
TreeNode root = tvMRM.SelectedNode.Parent;
for (int i = 0; i < root.Nodes.Count; i++)
{
if (root.Nodes[i].Tag == item)
{
tvMRM.SelectedNode = root.Nodes[i];
return;
}
}
}
private void mnuSetScanEnabledOnlyToolStripMenuItem_Click(object sender, EventArgs e)
{
GraphPane graphScans = mnuSetScanEnabledOnlyToolStripMenuItem.Tag as GraphPane;
double min = graphScans.XAxis.Scale.Min;
double max = graphScans.XAxis.Scale.Max;
SrmPairedProductIon ion = graphScans.Tag as SrmPairedProductIon;
SrmPairedPeptideItem item = FindItemByProductIon(ion);
if (null == item)
{
return;
}
item.SetEnabledRetentionTimeRange(min, max);
mrmPairs.Update(item);
UpdateProductPairs();
DoUpdateProductIon();
tvMRM_AfterSelect(null, null);
}
private void mnuSetScanEnabledOnly_Click(object sender, EventArgs e)
{
GraphPane graphScans = mnuSetScanEnabledOnly.Tag as GraphPane;
double min = graphScans.XAxis.Scale.Min;
double max = graphScans.XAxis.Scale.Max;
SrmPairedPeptideItem item;
SrmFileItem fileitem;
if (graphScans.Tag is SrmPairedProductIon)
{
SrmPairedProductIon ion = graphScans.Tag as SrmPairedProductIon;
fileitem = files.FindFileItem(ion);
item = fileitem.PairedPeptide;
}
else
{
item = graphScans.Tag as SrmPairedPeptideItem;
fileitem = files.FindFileItem(item.ProductIonPairs.First(m => m != null));
}
item.SetEnabledRetentionTimeRange(min, max);
fileitem.PairedResult.Update(item);
fileitem.PairedResult.Modified = true;
DoDataChanged(true);
gvProductPair.Refresh();
DoUpdateFileModeProductIon();
DoUpdateFileModePeptide();
gvFiles.Refresh();
DoUpdateCompoundGraph();
}
public bool Accept(SrmPairedProductIon t)
{
return((t.Light == null || t.LightSignalToNoise >= minSignalToNoise) &&
(t.Heavy == null || t.HeavySignalToNoise >= minSignalToNoise));
}
private SrmPairedPeptideItem ItemToPeptide(XElement item)
{
if (item == null)
{
return(null);
}
SrmPairedPeptideItem result = new SrmPairedPeptideItem();
result.Enabled = Convert.ToBoolean(item.Element("Enabled").Value);
result.ProductIonPairs = new List <SrmPairedProductIon>();
foreach (var p in item.Descendants("ProductIonPair"))
{
SrmPairedProductIon ion = new SrmPairedProductIon();
ion.Enabled = Convert.ToBoolean(p.Element("Enabled").Value);
ion.Ratio = MyConvert.ToDouble(p.Element("Ratio").Value);
ion.Distance = MyConvert.ToDouble(p.Element("Distance").Value);
ion.RegressionCorrelation = MyConvert.ToDouble(p.Element("RegressionCorrelation").Value);
var scanEle = p.Elements("Scan");
if (scanEle.Count() > 0)
{
var scans = (from a in scanEle
select new SrmPairedScan()
{
Light = SrmScanFileFormat.ElementToScan(a.Element("Light")),
Heavy = SrmScanFileFormat.ElementToScan(a.Element("Heavy"))
}).ToList();
if (scans.Count > 0)
{
if (scans[0].Light != null)
{
var light = new SrmTransition(scans[0].Light.PrecursorMz, scans[0].Light.ProductMz);
light.Intensities = (from s in scans
select s.Light).ToList();
ion.Light = light;
}
if (scans[0].Heavy != null)
{
var heavy = new SrmTransition(scans[0].Heavy.PrecursorMz, scans[0].Heavy.ProductMz);
heavy.Intensities = (from s in scans
select s.Heavy).ToList();
ion.Heavy = heavy;
}
}
}
else
{
ion.Light = ElementToTransaction(p.Element("LightTransaction"));
ion.Heavy = ElementToTransaction(p.Element("HeavyTransaction"));
}
if (p.Element("LightArea") != null)
{
ion.LightArea = MyConvert.ToDouble(p.Element("LightArea").Value);
ion.HeavyArea = MyConvert.ToDouble(p.Element("HeavyArea").Value);
}
result.ProductIonPairs.Add(ion);
}
if (item.Element("Ratio") != null)
{
result.Ratio = MyConvert.ToDouble(item.Element("Ratio").Value);
if (item.Element("SD").Value.Equals("-"))
{
result.SD = double.NaN;
}
else
{
result.SD = MyConvert.ToDouble(item.Element("SD").Value);
}
}
else
{
result.CalculatePeptideRatio();
}
var objname = string.Empty;
var pepname = string.Empty;
var pepcharge = 0;
if (item.Element("ObjectName") != null)
{
objname = item.Element("ObjectName").Value;
}
if (item.Element("PrecursorFormula") != null)
{
pepname = item.Element("PrecursorFormula").Value;
}
if (item.Element("PrecursorCharge") != null)
{
pepcharge = int.Parse(item.Element("PrecursorCharge").Value);
}
result.ProductIonPairs.ForEach(m =>
{
if (m.Light != null)
{
m.Light.ObjectName = objname;
m.Light.PrecursorFormula = pepname;
m.Light.PrecursorCharge = pepcharge;
}
if (m.Heavy != null)
{
m.Heavy.ObjectName = objname;
m.Heavy.PrecursorFormula = pepname;
m.Heavy.PrecursorCharge = pepcharge;
}
});
return(result);
}
public bool Accept(SrmPairedProductIon t)
{
return(!t.IsPaired || t.Ratio > 0);
}
public bool Accept(SrmPairedProductIon t)
{
return(t.EnabledScanCount >= minEnabledScan);
}
private SrmPairedPeptideItem FindItemByProductIon(SrmPairedProductIon ion)
{
return(CurrentResult.Find(m => m.ProductIonPairs.Contains(ion)));
}
public bool Accept(SrmPairedProductIon t)
{
return(!t.IsPaired || t.RegressionCorrelation >= minCorrel);
}
public SrmFileItem FindFileItem(SrmPairedProductIon ion)
{
return((from s in Items
where s.PairedProductIon == ion
select s).FirstOrDefault());
}
public void SetHeavyIon(SrmPairedProductIon heavy)
{
this.Heavy = heavy.Light;
}
public bool Accept(SrmPairedProductIon t)
{
return(t.EnabledRetentionWindow >= minRetentionWindow);
}
public UpdateMRMPairedProductIonEventArgs(SrmPairedProductIon item, SrmViewOption viewOption)
: base()
{
this.Item = item;
this.ViewOption = viewOption;
}