Changeset 1554:c965b96e5c41 in orange-bioinformatics

Timestamp:

02/05/12 18:49:03 (16 months ago)

Author:

ales_erjavec

Branch:

default

Message:

Pre cache pathways, using (KEGG, pathways) gene set hierarchy.

File:

• widgets/OWKEGGPathwayBrowser.py (modified) (4 diffs)

widgets/OWKEGGPathwayBrowser.py

@@ -414 +414 @@
         items = []
         kegg_pathways = obiKEGG.KEGGPathways()
+        kegg_pathways.pre_cache(self.pathways.keys())
         
         if self.showOrthology:
@@ -602 +603 @@
             
         with orngServerFiles.DownloadProgress.setredirect(self.progressBarSet):
-            kegg_gs_collections = list(obiGeneSets.collections((("KEGG",), taxid)))
+            orngServerFiles.update(obiGeneSets.sfdomain, "index.pck")
+            kegg_gs_collections = list(obiGeneSets.collections((("KEGG", "pathways"), taxid)))
         
         print self.genes
@@ -778 +780 @@
             p_values.append(p_val)
         if callback is not None:
-            callback(100.0 * i / len(genes))
+            callback(100.0 * i / len(genesets))
     
     # FDR correction
@@ -794 +796 @@
 ##    app.setMainWidget(w)
     w.show()
-    w.SetData(orange.ExampleTable(data[-20:]))
+    w.SetData(orange.ExampleTable(data[:]))
     QTimer.singleShot(10, w.handleNewSignals)
     app.exec_()