private void Score()
{
Peptides = ePeptides.Text
.Split('\n')
.Select(p => p.Trim())
.Where(p => !string.IsNullOrEmpty(p))
.ToList();
if (Peptides.Count == 0)
{
MessageBox.Show("Please load a peptide list to score.");
return;
}
if (Motif == null)
{
MessageBox.Show("Please load a motif.");
return;
}
Scorer = new Scorer();
Scorer.Motif = Motif;
Scorer.PeptideList = Peptides;
if (double.TryParse(eScorerPosThreshold.Text, out double posthres))
{
Scorer.UserEnteredPosThreshold = posthres;
}
else
{
Scorer.UserEnteredPosThreshold = null;
}
if (double.TryParse(eScorerNegThreshold.Text, out double negthres))
{
Scorer.UserEnteredNegThreshold = negthres;
}
else
{
Scorer.UserEnteredNegThreshold = null;
}
if (int.TryParse(ePosCutoff.Text, out int poscutoff))
{
Scorer.PosMatchCutoff = poscutoff;
}
if (int.TryParse(eNegCutoff.Text, out int negcutoff))
{
Scorer.NegMatchCutoff = negcutoff;
}
if (!Int32.TryParse(eTarget.Text, out int keyPosition))
{
keyPosition = 0;
}
Scorer.KeyPosition = keyPosition - 1;
if (Scorer.KeyPosition < 0)
{
if (MessageBox.Show("It is recommended to have a key position. Do you want to continue?",
"Warning", MessageBoxButtons.OKCancel) != DialogResult.OK)
{
eTarget.Focus();
return;
}
}
dgScores.Rows.Clear();
Scorer.StopScoringRequested = false;
frmProgressDialog prdlg = new frmProgressDialog
{
ProgressMax = Peptides.Count
};
Task maintask = Task.Run(() =>
{
Scorer.ScorePeptideList(() => Invoke(new Action(() => prdlg.ProgressValue++)));
Thread.Sleep(200);
Invoke(new Action(() => prdlg.Close()));
});
if (prdlg.ShowDialog() == DialogResult.Cancel)
{
Scorer.StopScoringRequested = true;
}
maintask.Wait();
AddScoresToGrid(Scorer.ScoreList);
}
protected override void Score()
{
if (Proteins.Count == 0)
{
MessageBox.Show("Please load a protein sequence to score.");
return;
}
if (Motif == null)
{
MessageBox.Show("Please load a motif.");
return;
}
Scorer = new Scorer();
Scorer.Motif = Motif;
Scorer.ProteinList = Proteins;
if (double.TryParse(eScorerPosThreshold.Text, out double posthres))
{
Scorer.UserEnteredPosThreshold = posthres;
}
else
{
Scorer.UserEnteredPosThreshold = null;
}
if (double.TryParse(eScorerNegThreshold.Text, out double negthres))
{
Scorer.UserEnteredNegThreshold = negthres;
}
else
{
Scorer.UserEnteredNegThreshold = null;
}
if (int.TryParse(ePosCutoff.Text, out int poscutoff))
{
Scorer.PosMatchCutoff = poscutoff;
}
if (int.TryParse(eNegCutoff.Text, out int negcutoff))
{
Scorer.NegMatchCutoff = negcutoff;
}
if (!Int32.TryParse(eTargetPosition.Text, out int keyPosition))
{
keyPosition = 0;
}
Scorer.KeyPosition = keyPosition - 1;
if (Scorer.KeyPosition < 0)
{
if (MessageBox.Show("It is recommended to have a key position. Do you want to continue?",
"Warning", MessageBoxButtons.OKCancel) != DialogResult.OK)
{
eTargetPosition.Focus();
return;
}
}
ClearResults();
Scorer.StopScoringRequested = false;
frmProgressDialog prdlg = new frmProgressDialog
{
ProgressMax = (int)Proteins.Sum(p => Math.Ceiling((double)(p.AASequence.Length - Motif.PeptideLength + 1)))
};
Task maintask = Task.Run(() =>
{
Scorer.ScoreProteinList(progress => Invoke(new Action(() => prdlg.ProgressValue = progress)));
Thread.Sleep(200);
Invoke(new Action(() => prdlg.Close()));
});
if (prdlg.ShowDialog() == DialogResult.Cancel)
{
Scorer.StopScoringRequested = true;
}
maintask.Wait();
AddScoresToGrid(Scorer.ScoreList);
}
