From: miles <miles@localhost>
Date: Wed, 25 Jul 2012 20:48:54 +0000 (+0000)
Subject: Added webpage stuff.
X-Git-Url: http://gitweb.planteome.org/?a=commitdiff_plain;h=e03122fd8b2e7b22ea8e4d041941f78ef8008c6b;p=old-jaiswallab-svn%2F.git

Added webpage stuff.

svn path=/; revision=370
---

diff --git a/Personnel/miles/2/src/Heatmap.java b/Personnel/miles/2/src/Heatmap.java
index 6d72a35..2c587c2 100644
--- a/Personnel/miles/2/src/Heatmap.java
+++ b/Personnel/miles/2/src/Heatmap.java
@@ -23,6 +23,7 @@ public class Heatmap {
 	String[] species;
 	static int[] allClusterIDs;
 	static int maxCount = 0;
+	static String option = "webpage";
 	
 	public static void main(String[] args) {
 		String[] geneIDs = new String[] {"mgf009407m", "GRMZM2G457201_T02", "LOC_Os03g53530.1", "Bradi3g44220.1"};
@@ -30,15 +31,44 @@ public class Heatmap {
 		Species[] species = getHeatChartData(geneIDs);
 		
 		// IF asked for table
-		//generateDelimitedTable(species);
+		if (option.equals("table")) {
+			generateDelimitedTable(species);
+		}
 		
 		// IF asked for image
-		generateHeatMapImage(species);
-		
+		if (option.equals("image")) {
+			generateHeatMapImage(species);	
+		}
 		// IF asked for webpage
-		//displayHeatChart(species);
+		if (option.equals("webpage")) {
+			//return generateWebPageData(species);
+		}
+		//return null;
 	}
 	
+	private static String[][] generateWebPageData(Species[] species) {
+		String[][] heatChartData = new String[species.length + 1][];
+		heatChartData[0] = new String[species.length];
+		for(int s = 0; s < species.length; s ++) {
+			heatChartData[0][s] = species[s].name;
+		}
+		for(int s = 1; s <= species.length; s ++) {
+			heatChartData[s] = new String[allClusterIDs.length];
+			for(int c = 0; c < allClusterIDs.length; c ++) {
+				int frequency = species[s].findClusterFrequency(allClusterIDs[c]);
+                // -1 means that species contains no genes in the specified cluster, but can't have negative color
+                // ensure that frequency is never negative
+                if (frequency == -1) {
+                        frequency = 0;
+                }
+                heatChartData[s][c] = Integer.toString(frequency);
+			}
+		}
+		
+		return heatChartData;
+	}
+	
+	
     private static void generateHeatMapImage(Species[] species) {
         
     	File output = new File("heatMap");