From 714d310766bba63d4b5218f98fa8d8ad5b93124f Mon Sep 17 00:00:00 2001
From: joshua-gould <jgould@broadinstitute.org>
Date: Fri, 1 Apr 2016 11:51:28 -0400
Subject: [PATCH] auto scale 'copynumber' files

---
 src/ui/heat_map.js | 23 ++++++++++++++++++++---
 1 file changed, 20 insertions(+), 3 deletions(-)

diff --git a/src/ui/heat_map.js b/src/ui/heat_map.js
index 61a8649..4eb81d7 100644
--- a/src/ui/heat_map.js
+++ b/src/ui/heat_map.js
@@ -681,6 +681,9 @@ morpheus.HeatMap.prototype = {
 	gapSize : 10,
 	updatingScroll : false,
 	autoDisplay : function(options) {
+		if (options.filename == null) {
+			options.filename = '';
+		}
 		var colorScheme;
 		if (options.extension === 'segtab' || options.extension === 'seg') {
 			colorScheme = {
@@ -736,6 +739,20 @@ morpheus.HeatMap.prototype = {
 					color : 'red'
 				} ]
 			};
+		} else if (options.filename.toLowerCase().indexOf('copynumber') !== -1) {
+			colorScheme = {
+				type : 'fixed',
+				map : [ {
+					value : -1.5,
+					color : 'blue'
+				}, {
+					value : 0,
+					color : 'white'
+				}, {
+					value : 1.5,
+					color : 'red'
+				} ]
+			};
 		}
 
 		if (colorScheme && options.filename) {
@@ -1557,8 +1574,8 @@ morpheus.HeatMap.prototype = {
 
 			}
 			if (morpheus.DatasetUtil.getSeriesIndex(this.project
-					.getFullDataset(), 'ccf') !== -1) {
-				this.options.sizeBy = 'ccf';
+					.getFullDataset(), 'allelic_fraction') !== -1) {
+				this.options.sizeBy = 'allelic_fraction';
 			}
 
 		}
@@ -1579,7 +1596,7 @@ morpheus.HeatMap.prototype = {
 				sourcesSet.forEach(function(source) {
 					_this.autoDisplay({
 						extension : morpheus.Util.getExtension(source),
-						filename : source
+						filename : '' + source
 					});
 				});
 			}
-- 
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