public UniquePeptideSettings(UniquePeptidesDlg dlg)
{
ProteinPeptideSelections = new Dictionary <int, ProteinPeptideSelection>();
for (var i = 0; i < dlg.dataGridView1.Rows.Count; ++i)
{
var row = dlg.dataGridView1.Rows[i];
var rowTag = (Tuple <IdentityPath, PeptideDocNode>)row.Tag;
if (!(bool)row.Cells[dlg.PeptideIncludedColumn.Name].Value)
{
var id = rowTag.Item1.GetIdentity(0);
if (!ProteinPeptideSelections.ContainsKey(id.GlobalIndex))
{
var node = (PeptideGroupDocNode)dlg.SrmDocument.FindNode(id);
ProteinPeptideSelections.Add(id.GlobalIndex, new ProteinPeptideSelection(node.ProteinMetadata.Name, new List <string>()));
}
var item = ProteinPeptideSelections[id.GlobalIndex];
item.Peptides.Add(PeptideTreeNode.GetLabel(rowTag.Item2, string.Empty));
++_excludedCount;
}
}
}
public ToolStripMenuItem MakeExcludeStandardMenuItem(int replicateIndex)
{
var document = DocumentUiContainer.DocumentUI;
if (!document.Settings.HasResults)
{
return(null);
}
ChromatogramSet chromatogramSet = null;
if (replicateIndex >= 0 &&
replicateIndex < document.Settings.MeasuredResults.Chromatograms.Count)
{
chromatogramSet = document.Settings.MeasuredResults.Chromatograms[replicateIndex];
}
if (chromatogramSet == null)
{
return(null);
}
if (!chromatogramSet.SampleType.AllowExclude)
{
return(null);
}
PeptideDocNode peptideDocNode;
PeptideGroupDocNode peptideGroupDocNode;
if (!TryGetSelectedPeptide(out peptideGroupDocNode, out peptideDocNode))
{
return(null);
}
bool isExcluded = peptideDocNode.IsExcludeFromCalibration(replicateIndex);
var menuItemText = isExcluded ? QuantificationStrings.CalibrationForm_MakeExcludeStandardMenuItem_Include_Standard
: QuantificationStrings.CalibrationForm_MakeExcludeStandardMenuItem_Exclude_Standard;
var peptideIdPath = new IdentityPath(peptideGroupDocNode.Id, peptideDocNode.Id);
var menuItem = new ToolStripMenuItem(menuItemText, null, (sender, args) =>
{
_skylineWindow.ModifyDocument(menuItemText,
doc => SetExcludeStandard(doc, peptideIdPath, replicateIndex, !isExcluded), docPair =>
{
var msgType = isExcluded
? MessageType.set_included_standard
: MessageType.set_excluded_standard;
return(AuditLogEntry.CreateSingleMessageEntry(new MessageInfo(msgType, docPair.NewDocumentType, PeptideTreeNode.GetLabel(peptideDocNode, string.Empty), chromatogramSet.Name)));
});
});
return(menuItem);
}