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[Genoviz-cmts] SF.net SVN: genoviz:[8530] trunk/igb/src/com/affymetrix/igb
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From: <hi...@us...> - 2011-07-29 17:14:37
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Revision: 8530
http://genoviz.svn.sourceforge.net/genoviz/?rev=8530&view=rev
Author: hiralv
Date: 2011-07-29 17:14:31 +0000 (Fri, 29 Jul 2011)
Log Message:
-----------
Adding getName to MapViewGlyphFactoryI
Modified Paths:
--------------
trunk/igb/src/com/affymetrix/igb/glyph/CoverageSummarizerFactory.java
trunk/igb/src/com/affymetrix/igb/glyph/GenericAnnotGlyphFactory.java
trunk/igb/src/com/affymetrix/igb/glyph/GenericGraphGlyphFactory.java
trunk/igb/src/com/affymetrix/igb/glyph/MapViewGlyphFactoryI.java
trunk/igb/src/com/affymetrix/igb/glyph/ProbeSetDisplayGlyphFactory.java
trunk/igb/src/com/affymetrix/igb/glyph/ScoredContainerGlyphFactory.java
trunk/igb/src/com/affymetrix/igb/stylesheet/PropertyConstants.java
trunk/igb/src/com/affymetrix/igb/stylesheet/XmlStylesheetGlyphFactory.java
Modified: trunk/igb/src/com/affymetrix/igb/glyph/CoverageSummarizerFactory.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/glyph/CoverageSummarizerFactory.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/glyph/CoverageSummarizerFactory.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -40,6 +40,10 @@
public CoverageSummarizerFactory() {
}
+ public String getName(){
+ return "coverage";
+ }
+
public void init(Map options) {
if (options.get("height") != null) {
try {
Modified: trunk/igb/src/com/affymetrix/igb/glyph/GenericAnnotGlyphFactory.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/glyph/GenericAnnotGlyphFactory.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/glyph/GenericAnnotGlyphFactory.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -86,6 +86,10 @@
parent_labelled_glyph_class = default_elabelled_parent_class;
}
+ public String getName(){
+ return "annots";
+ }
+
public void init(Map options) {
if (DEBUG) {
System.out.println(" @@@@@@@@@@@@@ in GenericAnnotGlyphFactory.init(), props: " + options);
@@ -122,7 +126,7 @@
String meth = BioSeq.determineMethod(sym);
if (meth != null) {
- ITrackStyleExtended style = DefaultStateProvider.getGlobalStateProvider().getAnnotStyle(meth);
+ ITrackStyleExtended style = DefaultStateProvider.getGlobalStateProvider().getAnnotStyle(meth);
int glyph_depth = style.getShow2Tracks();
TierGlyph[] tiers = smv.getTiers(false, style);
Modified: trunk/igb/src/com/affymetrix/igb/glyph/GenericGraphGlyphFactory.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/glyph/GenericGraphGlyphFactory.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/glyph/GenericGraphGlyphFactory.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -41,6 +41,10 @@
}
}
+ public String getName(){
+ return "Graph";
+ }
+
public void createGlyph(SeqSymmetry sym, SeqMapView smv) {
if (sym instanceof GraphSym) {
displayGraph((GraphSym) sym, smv, check_same_seq);
Modified: trunk/igb/src/com/affymetrix/igb/glyph/MapViewGlyphFactoryI.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/glyph/MapViewGlyphFactoryI.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/glyph/MapViewGlyphFactoryI.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -21,4 +21,5 @@
public interface MapViewGlyphFactoryI {
public void init(Map options);
public void createGlyph(SeqSymmetry sym, SeqMapView smv);
+ public String getName();
}
Modified: trunk/igb/src/com/affymetrix/igb/glyph/ProbeSetDisplayGlyphFactory.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/glyph/ProbeSetDisplayGlyphFactory.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/glyph/ProbeSetDisplayGlyphFactory.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -90,6 +90,10 @@
public ProbeSetDisplayGlyphFactory() {
}
+ public String getName(){
+ return "ProbeSet";
+ }
+
public void createGlyph(SeqSymmetry sym, SeqMapView smv) {
gviewer = smv;
String meth = BioSeq.determineMethod(sym);
Modified: trunk/igb/src/com/affymetrix/igb/glyph/ScoredContainerGlyphFactory.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/glyph/ScoredContainerGlyphFactory.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/glyph/ScoredContainerGlyphFactory.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -52,6 +52,10 @@
public void init(Map options) {
}
+ public String getName(){
+ return "scored";
+ }
+
public void createGlyph(SeqSymmetry sym, SeqMapView smv) {
boolean attach_graphs = PreferenceUtils.getBooleanParam(ScoredIntervalParser.PREF_ATTACH_GRAPHS,
ScoredIntervalParser.default_attach_graphs);
Modified: trunk/igb/src/com/affymetrix/igb/stylesheet/PropertyConstants.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/stylesheet/PropertyConstants.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/stylesheet/PropertyConstants.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -19,6 +19,7 @@
static final String PROP_DIRECTION_TYPE = "direction_type";
static final String PROP_START_COLOR = "start_color";
static final String PROP_END_COLOR = "end_color";
+ static final String PROP_VIEW_MODE = "view_mode";
static final String TRUE = "true";
static final String FALSE = "false";
Modified: trunk/igb/src/com/affymetrix/igb/stylesheet/XmlStylesheetGlyphFactory.java
===================================================================
--- trunk/igb/src/com/affymetrix/igb/stylesheet/XmlStylesheetGlyphFactory.java 2011-07-29 17:13:13 UTC (rev 8529)
+++ trunk/igb/src/com/affymetrix/igb/stylesheet/XmlStylesheetGlyphFactory.java 2011-07-29 17:14:31 UTC (rev 8530)
@@ -45,6 +45,10 @@
public void init(Map options) {
}
+ public String getName(){
+ return "XML StyleSheet";
+ }
+
public void createGlyph(SeqSymmetry sym, SeqMapView gviewer) {
// fixing bug encountered when sym doesn't have span on sequence it is annotating --
// currently should only see these as "dummy" placeholder syms that are
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