#pragma warning restore 649
public SequenceGraph()
{
InitializeComponent();
Graph = new DataGraph();
BuildSequenceGraphLogicCore();
SelectedSequence = new Sequence(new List <AminoAcid>());
#pragma warning disable 618
SelectedVertices = new List <List <DataVertex> >();
#pragma warning restore 618
SequenceGraphArea.Loaded += SequenceGraphArea_Loaded;
SequenceGraphArea.VertexSelected += VertexSelectedEvent;
}
/// <summary>Initializes a new instance of the <see cref="GraphXSequenceGraph"/> class.</summary>
/// <param name="aminoAcidSet">The amino acid set.</param>
/// <param name="nterm">The n-terminal residue of the sequence.</param>
/// <param name="sequence">The sequence.</param>
/// <param name="cterm">The c-terminal residue of the sequence.</param>
/// <param name="mods">The search modification to apply to the sequence.</param>
protected GraphXSequenceGraph(AminoAcidSet aminoAcidSet, AminoAcid nterm, string sequence, AminoAcid cterm, IEnumerable <SearchModification> mods) :
base(aminoAcidSet, nterm, sequence, cterm)
{
var modList = mods.ToList();
var ntermMods = (from m in modList
where (m.IsFixedModification && (m.Location == SequenceLocation.ProteinNTerm || m.Location == SequenceLocation.PeptideNTerm))
select m).ToList();
var ctermMods = (from m in modList
where (m.IsFixedModification && (m.Location == SequenceLocation.ProteinCTerm || m.Location == SequenceLocation.PeptideCTerm))
select m).ToList();
Modification ntermMod = null;
foreach (var nmod in ntermMods)
{
ntermMod = nmod.Modification;
if (nmod.TargetResidue == nterm.Residue)
{
break;
}
}
Modification ctermMod = null;
foreach (var cmod in ctermMods)
{
ctermMod = cmod.Modification;
if (cmod.TargetResidue == cterm.Residue)
{
break;
}
}
nterminal = null;
cterminal = null;
if (ntermMod != null)
{
nterminal = new ModifiedAminoAcid(new AminoAcid('(', "NTerm", Composition.Zero), ntermMod);
}
if (ctermMod != null)
{
cterminal = new ModifiedAminoAcid(new AminoAcid(')', "CTerm", Composition.Zero), ctermMod);
}
DataGraph = new DataGraph();
BuildGraph();
}
/// <summary>
/// Generate sequence graph from data graph.
/// </summary>
private void GenerateSequenceGraph()
{
this.sequenceGraph = GraphXSequenceGraph.Create(
new AminoAcidSet(this.SearchModifications, this.MaxDynamicModifications),
string.Empty,
this.SearchModifications.ToList());
if (this.sequenceGraph == null)
{
return;
}
var graph = this.sequenceGraph.DataGraph;
this.Graph = graph;
this.SequenceGraphArea.LogicCore.Graph = graph;
this.SequenceGraphArea.ShowAllEdgesLabels();
this.SequenceGraphArea.GenerateGraph(true);
}
