private void findPathwayToolStripMenuItem_Click(object sender, EventArgs e)
{
if (CompleteScreening == null) return;
FormForNameRequest FormForRequest = new FormForNameRequest();
if (FormForRequest.ShowDialog() != System.Windows.Forms.DialogResult.OK) return;
int NumberOfPlates = CompleteScreening.ListPlatesActive.Count;
FormForKeggGene KeggWin = new FormForKeggGene();
KEGG ServKegg = new KEGG();
string[] intersection_gene_pathways = new string[1];
string[] Pathways = { FormForRequest.textBoxForName.Text };
intersection_gene_pathways = ServKegg.get_genes_by_pathway("path:" + Pathways[0]);
if ((Pathways == null) || (Pathways.Length == 0))
{
MessageBox.Show("No pathway founded !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
return;
}
string[] fg_list = { "black" };
string[] bg_list = { "orange" };
string pathway_map_html = "";
// KEGG ServKegg = new KEGG();
string[] ListGenesinPathway = ServKegg.get_genes_by_pathway("path:" + Pathways[0]);
if (ListGenesinPathway.Length == 0)
{
return;
}
double[] ListValues = new double[ListGenesinPathway.Length];
int IDxGeneOfInterest = 0;
foreach (cPlate CurrentPlate in CompleteScreening.ListPlatesActive)
{
foreach (cWell CurrentWell in CurrentPlate.ListActiveWells)
{
string CurrentLID = "hsa:" + (int)CurrentWell.LocusID;
for (int IdxGene = 0; IdxGene < ListGenesinPathway.Length; IdxGene++)
{
if (CurrentLID == intersection_gene_pathways[0])
IDxGeneOfInterest = IdxGene;
if (CurrentLID == ListGenesinPathway[IdxGene])
{
ListValues[IdxGene] = CurrentWell.ListDescriptors[CompleteScreening.ListDescriptors.CurrentSelectedDescriptor].GetValue();
break;
}
}
}
}
bg_list = new string[ListGenesinPathway.Length];
fg_list = new string[ListGenesinPathway.Length];
double MinValue = ListValues.Min();
double MaxValue = ListValues.Max();
for (int IdxCol = 0; IdxCol < bg_list.Length; IdxCol++)
{
int ConvertedValue = (int)((((CompleteScreening.GlobalInfo.LUTs.LUT_GREEN_TO_RED[0].Length - 1) * (ListValues[IdxCol] - MinValue)) / (MaxValue - MinValue)));
Color Coul = Color.FromArgb(CompleteScreening.GlobalInfo.LUTs.LUT_GREEN_TO_RED[0][ConvertedValue], CompleteScreening.GlobalInfo.LUTs.LUT_GREEN_TO_RED[1][ConvertedValue], CompleteScreening.GlobalInfo.LUTs.LUT_GREEN_TO_RED[2][ConvertedValue]);
if (IdxCol == IDxGeneOfInterest)
fg_list[IdxCol] = "white";
else
fg_list[IdxCol] = "#000000";
bg_list[IdxCol] = "#" + Coul.Name.Remove(0, 2);
}
// foreach (string item in ListP.listBoxPathways.SelectedItems)
{
pathway_map_html = ServKegg.get_html_of_colored_pathway_by_objects(Pathways[0], ListGenesinPathway, fg_list, bg_list);
}
pathway_map_html = ServKegg.get_html_of_colored_pathway_by_objects((string)(Pathways[0]), intersection_gene_pathways, fg_list, bg_list);
// FormForKegg KeggWin = new FormForKegg();
if (pathway_map_html.Length == 0) return;
//
//KeggWin.Show();
//ListP.listBoxPathways.MouseDoubleClick += new MouseEventHandler(listBox1_MouseDoubleClick);
KeggWin.webBrowser.Navigate(pathway_map_html);
KeggWin.Show();
}
void DisplayPathways(object sender, EventArgs e)
{
if (LocusID == -1) return;
FormForKeggGene KeggWin = new FormForKeggGene();
KEGG ServKegg = new KEGG();
string[] intersection_gene_pathways = new string[1];
intersection_gene_pathways[0] = "hsa:" + LocusID;
string[] Pathways = ServKegg.get_pathways_by_genes(intersection_gene_pathways);
if ((Pathways == null) || (Pathways.Length == 0))
{
MessageBox.Show("No pathway founded !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
return;
}
string GenInfo = ServKegg.bget(intersection_gene_pathways[0]);
// FormForPathway PathwaysGenes = new FormForPathway();
KeggWin.richTextBox.Text = GenInfo;
KeggWin.Text = "Gene Infos";
//PathwaysGenes.Show();
ListP = new FormForPathway();
ListP.listBoxPathways.DataSource = Pathways;
ListP.Text = this.Name;
ListP.Show();
//foreach (string item in Pathways)
//{
// string PathwayInfo = ServKegg.bget(item);
// FormPathwaysGenes PathwaysGenes = new FormPathwaysGenes();
// PathwaysGenes.richTextBox1.Text = PathwayInfo;
// PathwaysGenes.Text = "Pathways Infos";
// PathwaysGenes.Show();
//}
string[] fg_list = { "black" };
string[] bg_list = { "orange" };
// string[] intersection_gene_pathways = new string[1];
// intersection_gene_pathways[0] = "hsa:" + LocusID;
string pathway_map_html = "";
// KEGG ServKegg = new KEGG();
pathway_map_html = ServKegg.get_html_of_colored_pathway_by_objects((string)(ListP.listBoxPathways.SelectedItem), intersection_gene_pathways, fg_list, bg_list);
// FormForKegg KeggWin = new FormForKegg();
if (pathway_map_html.Length == 0) return;
//
//KeggWin.Show();
ListP.listBoxPathways.MouseDoubleClick += new MouseEventHandler(listBox1_MouseDoubleClick);
KeggWin.webBrowser.Navigate(pathway_map_html);
KeggWin.Show();
}
//void DisplayPathways(object sender, EventArgs e)
//{
// if (LocusID == -1) return;
// FormForKeggGene KeggWin = new FormForKeggGene();
// KEGG ServKegg = new KEGG();
// string[] intersection_gene_pathways = new string[1];
// intersection_gene_pathways[0] = "hsa:" + LocusID;
// string[] Pathways = ServKegg.get_pathways_by_genes(intersection_gene_pathways);
// if ((Pathways == null) || (Pathways.Length == 0))
// {
// MessageBox.Show("No pathway founded !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
// return;
// }
// string GenInfo = ServKegg.bget(intersection_gene_pathways[0]);
// // FormForPathway PathwaysGenes = new FormForPathway();
// KeggWin.richTextBox.Text = GenInfo;
// KeggWin.Text = "Gene Infos";
// //PathwaysGenes.Show();
// ListP = new FormForPathway();
// ListP.listBoxPathways.DataSource = Pathways;
// ListP.Text = this.Name;
// ListP.Show();
// //foreach (string item in Pathways)
// //{
// // string PathwayInfo = ServKegg.bget(item);
// // FormPathwaysGenes PathwaysGenes = new FormPathwaysGenes();
// // PathwaysGenes.richTextBox1.Text = PathwayInfo;
// // PathwaysGenes.Text = "Pathways Infos";
// // PathwaysGenes.Show();
// //}
// string[] fg_list = { "black" };
// string[] bg_list = { "orange" };
// // string[] intersection_gene_pathways = new string[1];
// // intersection_gene_pathways[0] = "hsa:" + LocusID;
// string pathway_map_html = "";
// // KEGG ServKegg = new KEGG();
// pathway_map_html = ServKegg.get_html_of_colored_pathway_by_objects((string)(ListP.listBoxPathways.SelectedItem), intersection_gene_pathways, fg_list, bg_list);
// // FormForKegg KeggWin = new FormForKegg();
// if (pathway_map_html.Length == 0) return;
// //
// //KeggWin.Show();
// ListP.listBoxPathways.MouseDoubleClick += new MouseEventHandler(listBox1_MouseDoubleClick);
// KeggWin.webBrowser.Navigate(pathway_map_html);
// KeggWin.Show();
//}
void DisplayPathways(object sender, EventArgs e)
{
object ValObj = this.ListProperties.FindValueByName("Locus ID");
if (ValObj == null) return;
int LocusID = (int)ValObj;
List<string> Pathways2 = null;
try
{
Pathways2 = HCSAnalyzer.HCSAnalyzer.Find_Pathways(LocusID); //appel de la function static je ne sais pas pourquoi elle doit etre static…
}
catch (Exception)
{
MessageBox.Show("No pathway founded !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
return;
}
if (Pathways2.Count > 0)
{
string getvars2 = "/get/hsa:" + LocusID;
HttpWebRequest req2 = WebRequest.Create(string.Format("http://rest.kegg.jp" + getvars2)) as HttpWebRequest;
req2.Method = "GET";
HttpWebResponse response = req2.GetResponse() as HttpWebResponse;
StreamReader reader2 = new StreamReader(response.GetResponseStream());
string GenInfo = reader2.ReadToEnd();
reader2.Close();
foreach (string item in Pathways2)
{
FormForKeggGene KeggWin = new FormForKeggGene();
KeggWin.webBrowser.Navigate("http://www.kegg.jp/kegg-bin/show_pathway?" + item + "/default%3dpink/" + "hsa:" + LocusID + "%09,blue");
KeggWin.richTextBox.Text = GenInfo;
KeggWin.Text = "Gene Infos";
KeggWin.Show();
}
response.Close();
}
else
{
MessageBox.Show("No pathway founded !", "Warning", MessageBoxButtons.OK, MessageBoxIcon.Exclamation);
}
}
