public TextSequence GetTextSequenceAtAaIndex(int residue)
{
Font font = ModFontHolder.Plain;
Color color = Color.Black;
String strAminoAcid = UnmodifiedSequence.Substring(residue, 1);
var modsAtResidue = GetModificationsAtResidue(residue).ToArray();
if (modsAtResidue.Length == 0)
{
return(new TextSequence
{
Color = color,
Font = font,
Text = strAminoAcid
});
}
var firstEntry = modsAtResidue[0];
color = ModFontHolder.GetModColor(firstEntry.Item1);
if (modsAtResidue.Skip(1).All(entry => entry.Item2.Equals(firstEntry.Item2)))
{
font = ModFontHolder.GetModFont(firstEntry.Item1);
return(new TextSequence
{
Color = color,
Font = font,
Text = strAminoAcid + DisplayModificationOption.GetModificationText(SrmSettings, firstEntry.Item2)
});
}
font = IsotopeLabelType.light.Equals(firstEntry.Item1)
? ModFontHolder.LightAndHeavy
: ModFontHolder.GetModFont(firstEntry.Item1);
string modText;
if (DisplayModificationOption == DisplayModificationOption.NOT_SHOWN)
{
modText = strAminoAcid;
}
else
{
modText = strAminoAcid + @"[*]";
}
return(new TextSequence
{
Color = color,
Font = font,
Text = modText
});
}
/// <summary>
/// Creates a text sequence with the fully modified peptide sequence text
/// and font information for a given label type.
/// </summary>
private static TextSequence CreateTypeTextSequence(PeptideDocNode nodePep, SrmSettings settings,
IsotopeLabelType labelType, ModFontHolder fonts)
{
var calc = settings.TryGetPrecursorCalc(labelType, nodePep.ExplicitMods);
if (calc == null)
{
return(null);
}
return(new TextSequence
{
Text = nodePep.IsProteomic
? calc.GetModifiedSequence(nodePep.Peptide.Target, SequenceModFormatType.mass_diff_narrow, false).Sequence
: nodePep.CustomMolecule.DisplayName,
Font = fonts.GetModFont(labelType),
Color = ModFontHolder.GetModColor(labelType)
});
}
/// <summary>
/// Creates a text sequence with the fully modified peptide sequence text
/// and font information for a given label type.
/// </summary>
private static TextSequence CreateTypeTextSequence(PeptideDocNode nodePep, SrmSettings settings,
IsotopeLabelType labelType, ModFontHolder fonts)
{
var calc = settings.TryGetPrecursorCalc(labelType, nodePep.ExplicitMods);
if (calc == null)
{
return(null);
}
return(new TextSequence
{
Text = nodePep.IsProteomic
? calc.GetModifiedSequence(nodePep.Peptide.Sequence, true)
: nodePep.CustomIon.DisplayName,
Font = fonts.GetModFont(labelType),
Color = ModFontHolder.GetModColor(labelType)
});
}
/// <summary>
/// Creates a text sequence with the fully modified peptide sequence text
/// and font information for a given label type.
/// </summary>
private static TextSequence CreateTypeTextSequence(PeptideDocNode nodePep, SrmSettings settings,
IsotopeLabelType labelType, ModFontHolder fonts)
{
var calc = settings.TryGetPrecursorCalc(labelType, nodePep.ExplicitMods);
if (calc == null)
return null;
return new TextSequence
{
Text = nodePep.IsProteomic
? calc.GetModifiedSequence(nodePep.Peptide.Sequence, true)
: nodePep.CustomIon.DisplayName,
Font = fonts.GetModFont(labelType),
Color = ModFontHolder.GetModColor(labelType)
};
}
public TextSequence GetTextSequenceAtAaIndex(DisplayModificationOption displayModificationOption, int residue)
{
Font font = ModFontHolder.Plain;
Color color = Color.Black;
string strAminoAcid = UnmodifiedSequence.Substring(residue, 1);
var modsAtResidue = GetModificationsAtResidue(displayModificationOption, residue).ToArray();
if (residue == CrosslinkedIndexAa ||
modsAtResidue.Any(labeledMod => labeledMod.Item2.Any(mod => mod.ExplicitMod.LinkedPeptide != null)) ||
_lightSequenceInfo.LooplinkSites.Contains(residue))
{
return(new TextSequence
{
Color = COLOR_CROSSLINK,
Font = ModFontHolder.LightAndHeavy,
Text = strAminoAcid
});
}
if (modsAtResidue.Length == 0)
{
return(new TextSequence
{
Color = color,
Font = font,
Text = strAminoAcid
});
}
var firstEntry = modsAtResidue[0];
color = ModFontHolder.GetModColor(firstEntry.Item1);
var firstMismatch = modsAtResidue.Skip(1).FirstOrDefault(entry => !entry.Item2.Equals(firstEntry.Item2));
if (firstMismatch == null)
{
font = ModFontHolder.GetModFont(firstEntry.Item1);
return(new TextSequence
{
Color = color,
Font = font,
Text = strAminoAcid + displayModificationOption.GetModificationText(SrmSettings, firstEntry.Item2)
});
}
if (IsotopeLabelType.light.Equals(firstEntry.Item1))
{
font = ModFontHolder.LightAndHeavy;
color = ModFontHolder.GetModColor(firstMismatch.Item1);
}
else
{
font = ModFontHolder.LightAndHeavy;
}
string modText;
if (displayModificationOption == DisplayModificationOption.NOT_SHOWN)
{
modText = strAminoAcid;
}
else
{
modText = strAminoAcid + @"[*]";
}
return(new TextSequence
{
Color = color,
Font = font,
Text = modText
});
}
