Author: kono
Date: 2010-02-11 21:39:33 -0800 (Thu, 11 Feb 2010)
New Revision: 19313
Added:
csplugins/trunk/ucsd/kono/KGMLReader/testData/hsa00030.xml
Modified:
csplugins/trunk/ucsd/kono/KGMLReader/src/org/cytoscape/data/reader/kgml/PathwayMapper.java
Log:
Basic visual style builder is done.
Modified:
csplugins/trunk/ucsd/kono/KGMLReader/src/org/cytoscape/data/reader/kgml/PathwayMapper.java
===================================================================
---
csplugins/trunk/ucsd/kono/KGMLReader/src/org/cytoscape/data/reader/kgml/PathwayMapper.java
2010-02-12 03:25:46 UTC (rev 19312)
+++
csplugins/trunk/ucsd/kono/KGMLReader/src/org/cytoscape/data/reader/kgml/PathwayMapper.java
2010-02-12 05:39:33 UTC (rev 19313)
@@ -24,6 +24,7 @@
import cytoscape.visual.ArrowShape;
import cytoscape.visual.EdgeAppearanceCalculator;
import cytoscape.visual.GlobalAppearanceCalculator;
+import cytoscape.visual.LineStyle;
import cytoscape.visual.NodeAppearanceCalculator;
import cytoscape.visual.NodeShape;
import cytoscape.visual.VisualPropertyType;
@@ -146,15 +147,17 @@
.getGlobalAppearanceCalculator();
// Default values
- final Color nodeColor = new Color(200,200,200);
+ final Color nodeColor = Color.WHITE;
final Color nodeLineColor = new Color(20, 20, 20);
final Color nodeLabelColor = new Color(30, 30, 30);
+
+ final Color geneNodeColor = new Color(153,255,153);
- final Font nodeLabelFont = new Font("SansSerif.BOLD", 12,
Font.BOLD);
+ final Font nodeLabelFont = new Font("SansSerif", 7, Font.PLAIN);
gac.setDefaultBackgroundColor(Color.white);
- final PassThroughMapping m = new PassThroughMapping("",
"KEGG.name");
+ final PassThroughMapping m = new PassThroughMapping("",
KEGG_LABEL);
final Calculator nodeLabelMappingCalc = new
BasicCalculator(vsName + "-"
+ "NodeLabelMapping", m,
VisualPropertyType.NODE_LABEL);
@@ -171,16 +174,51 @@
nac.getDefaultAppearance().set(VisualPropertyType.NODE_BORDER_COLOR,
nodeLineColor);
nac.getDefaultAppearance().set(VisualPropertyType.NODE_LINE_WIDTH,
- 2);
+ 1);
nac.getDefaultAppearance().set(VisualPropertyType.NODE_LABEL_COLOR,
nodeLabelColor);
-
nac.getDefaultAppearance().set(VisualPropertyType.NODE_FONT_FACE,
- nodeLabelFont);
+
nac.getDefaultAppearance().set(VisualPropertyType.NODE_FONT_FACE,
nodeLabelFont);
+
nac.getDefaultAppearance().set(VisualPropertyType.NODE_FONT_SIZE, 6);
//Default Edge appr
eac.getDefaultAppearance().set(VisualPropertyType.EDGE_TGTARROW_SHAPE,
ArrowShape.DELTA);
+ final DiscreteMapping edgeLineStyle = new
DiscreteMapping(LineStyle.SOLID,
+ KEGG_RELATION_TYPE, ObjectMapping.EDGE_MAPPING);
+ final Calculator edgeLineStyleCalc = new BasicCalculator(vsName
+ "-"
+ + "EdgeLineStyleMapping", edgeLineStyle,
+ VisualPropertyType.EDGE_LINE_STYLE);
+ edgeLineStyle.putMapValue(KEGGRelationType.MAPLINK.getTag(),
LineStyle.LONG_DASH);
+ eac.setCalculator(edgeLineStyleCalc);
+
+ final DiscreteMapping nodeShape = new
DiscreteMapping(NodeShape.RECT,
+ KEGG_ENTRY_TYPE, ObjectMapping.NODE_MAPPING);
+ final Calculator nodeShapeCalc = new BasicCalculator(vsName +
"-"
+ + "NodeShapeMapping", nodeShape,
+ VisualPropertyType.NODE_SHAPE);
+ nodeShape.putMapValue(KEGGEntryType.MAP.getTag(),
NodeShape.ROUND_RECT);
+ nodeShape.putMapValue(KEGGEntryType.GENE.getTag(),
NodeShape.RECT);
+ nodeShape.putMapValue(KEGGEntryType.ORTHOLOG.getTag(),
NodeShape.RECT);
+ nodeShape.putMapValue(KEGGEntryType.COMPOUND.getTag(),
NodeShape.ELLIPSE);
+ nac.setCalculator(nodeShapeCalc);
+
+ final DiscreteMapping nodeColorMap = new
DiscreteMapping(nodeColor,
+ KEGG_ENTRY_TYPE, ObjectMapping.NODE_MAPPING);
+ final Calculator nodeColorCalc = new BasicCalculator(vsName +
"-"
+ + "NodeColorMapping", nodeColorMap,
+ VisualPropertyType.NODE_FILL_COLOR);
+ nodeColorMap.putMapValue(KEGGEntryType.GENE.getTag(),
geneNodeColor);
+ nac.setCalculator(nodeColorCalc);
+
+ final DiscreteMapping nodeBorderColorMap = new
DiscreteMapping(nodeColor,
+ KEGG_ENTRY_TYPE, ObjectMapping.NODE_MAPPING);
+ final Calculator nodeBorderColorCalc = new
BasicCalculator(vsName + "-"
+ + "NodeBorderColorMapping", nodeBorderColorMap,
+ VisualPropertyType.NODE_BORDER_COLOR);
+ nodeBorderColorMap.putMapValue(KEGGEntryType.MAP.getTag(),
Color.BLUE);
+ nac.setCalculator(nodeBorderColorCalc);
+
final DiscreteMapping nodeWidth = new DiscreteMapping(30,
"ID", ObjectMapping.NODE_MAPPING);
final Calculator nodeWidthCalc = new BasicCalculator(vsName +
"-"
Added: csplugins/trunk/ucsd/kono/KGMLReader/testData/hsa00030.xml
===================================================================
--- csplugins/trunk/ucsd/kono/KGMLReader/testData/hsa00030.xml
(rev 0)
+++ csplugins/trunk/ucsd/kono/KGMLReader/testData/hsa00030.xml 2010-02-12
05:39:33 UTC (rev 19313)
@@ -0,0 +1,764 @@
+<?xml version="1.0"?>
+<!DOCTYPE pathway SYSTEM "http://www.genome.jp/kegg/xml/KGML_v0.7.0_.dtd";>
+<!-- Creation date: Oct 7, 2009 14:31:05 +0900 (JST) -->
+<pathway name="path:hsa00030" org="hsa" number="00030"
+ title="Pentose phosphate pathway"
+ image="http://www.genome.jp/kegg/pathway/hsa/hsa00030.png";
+ link="http://www.genome.jp/kegg-bin/show_pathway?hsa00030";>
+ <entry id="1" name="cpd:C01151" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C01151";>
+ <graphics name="C01151" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="692" y="552" width="8" height="8"/>
+ </entry>
+ <entry id="2" name="ko:K05774" type="ortholog" reaction="rn:R06836"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K05774";>
+ <graphics name="K05774" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="628" y="554" width="46" height="17"/>
+ </entry>
+ <entry id="3" name="cpd:C00668" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00668";>
+ <graphics name="C00668" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="201" y="303" width="8" height="8"/>
+ </entry>
+ <entry id="4" name="hsa:2821" type="gene" reaction="rn:R02739"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:2821";>
+ <graphics name="GPI" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="258" y="304" width="46" height="17"/>
+ </entry>
+ <entry id="5" name="cpd:C00118" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00118";>
+ <graphics name="C00118" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="819" y="303" width="8" height="8"/>
+ </entry>
+ <entry id="6" name="cpd:C00022" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00022";>
+ <graphics name="C00022" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="790" y="228" width="8" height="8"/>
+ </entry>
+ <entry id="7" name="ko:K01625" type="ortholog" reaction="rn:R05605"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01625";>
+ <graphics name="K01625" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="752" y="293" width="46" height="17"/>
+ </entry>
+ <entry id="8" name="path:hsa00010" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa00010";>
+ <graphics name="Glycolysis / Gluconeogenesis" fgcolor="#000000"
bgcolor="#FFFFFF"
+ type="roundrectangle" x="994" y="227" width="68" height="26"/>
+ </entry>
+ <entry id="9" name="hsa:64080" type="gene" reaction="rn:R02750"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:64080";>
+ <graphics name="RBKS" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="401" y="612" width="46" height="17"/>
+ </entry>
+ <entry id="10" name="ko:K01839" type="ortholog" reaction="rn:R02749"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01839";>
+ <graphics name="K01839" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="402" y="644" width="46" height="17"/>
+ </entry>
+ <entry id="11" name="hsa:51071" type="gene" reaction="rn:R01066"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:51071";>
+ <graphics name="DERA" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="262" y="644" width="46" height="17"/>
+ </entry>
+ <entry id="12" name="hsa:221823 hsa:5631 hsa:5634" type="gene"
reaction="rn:R01049"
+
link="http://www.kegg.jp/dbget-bin/www_bget?hsa:221823+hsa:5631+hsa:5634";>
+ <graphics name="PRPS1L1..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="529" y="516" width="46" height="17"/>
+ </entry>
+ <entry id="13" name="ko:K01839" type="ortholog" reaction="rn:R01057"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01839";>
+ <graphics name="K01839" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="628" y="490" width="46" height="17"/>
+ </entry>
+ <entry id="14" name="hsa:64080" type="gene" reaction="rn:R01051"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:64080";>
+ <graphics name="RBKS" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="628" y="469" width="46" height="17"/>
+ </entry>
+ <entry id="15" name="hsa:7086 hsa:8277 hsa:84076" type="gene"
reaction="rn:R01641"
+
link="http://www.kegg.jp/dbget-bin/www_bget?hsa:7086+hsa:8277+hsa:84076";>
+ <graphics name="TKT..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="420" y="509" width="46" height="17"/>
+ </entry>
+ <entry id="16" name="hsa:22934" type="gene" reaction="rn:R01056"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:22934";>
+ <graphics name="RPIA" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="531" y="434" width="46" height="17"/>
+ </entry>
+ <entry id="17" name="hsa:6120 hsa:729020" type="gene" reaction="rn:R01529"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:6120+hsa:729020";>
+ <graphics name="RPE..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="476" y="396" width="46" height="17"/>
+ </entry>
+ <entry id="18" name="hsa:7086 hsa:8277 hsa:84076" type="gene"
reaction="rn:R01830"
+
link="http://www.kegg.jp/dbget-bin/www_bget?hsa:7086+hsa:8277+hsa:84076";>
+ <graphics name="TKT..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="305" y="396" width="46" height="17"/>
+ </entry>
+ <entry id="19" name="hsa:226 hsa:229 hsa:230" type="gene"
reaction="rn:R01070"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:226+hsa:229+hsa:230";>
+ <graphics name="ALDOA..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="200" y="511" width="46" height="17"/>
+ </entry>
+ <entry id="20" name="hsa:5211 hsa:5213 hsa:5214" type="gene"
reaction="rn:R04779"
+
link="http://www.kegg.jp/dbget-bin/www_bget?hsa:5211+hsa:5213+hsa:5214";>
+ <graphics name="PFKL..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="201" y="435" width="46" height="17"/>
+ </entry>
+ <entry id="21" name="hsa:2203 hsa:8789" type="gene" reaction="rn:R04780"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:2203+hsa:8789";>
+ <graphics name="FBP1..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="150" y="435" width="46" height="17"/>
+ </entry>
+ <entry id="22" name="hsa:2821" type="gene" reaction="rn:R02740"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:2821";>
+ <graphics name="GPI" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="200" y="349" width="46" height="17"/>
+ </entry>
+ <entry id="23" name="ko:K00032" type="ortholog" reaction="rn:R02032
rn:R02034"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00032";>
+ <graphics name="K00032" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="489" y="277" width="46" height="17"/>
+ </entry>
+ <entry id="24" name="ko:K11441" type="ortholog" reaction="rn:R02658"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K11441";>
+ <graphics name="K11441" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="450" y="241" width="46" height="17"/>
+ </entry>
+ <entry id="25" name="hsa:5226" type="gene" reaction="rn:R01528"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:5226";>
+ <graphics name="PGD" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="529" y="350" width="46" height="17"/>
+ </entry>
+ <entry id="26" name="hsa:25796 hsa:9563" type="gene" reaction="rn:R02035"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:25796+hsa:9563";>
+ <graphics name="PGLS..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="472" y="304" width="46" height="17"/>
+ </entry>
+ <entry id="27" name="hsa:2539" type="gene" reaction="rn:R02736"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:2539";>
+ <graphics name="G6PD" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="365" y="303" width="46" height="17"/>
+ </entry>
+ <entry id="29" name="ko:K00874" type="ortholog" reaction="rn:R01541"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00874";>
+ <graphics name="K00874" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="691" y="241" width="46" height="17"/>
+ </entry>
+ <entry id="30" name="ko:K01690" type="ortholog" reaction="rn:R02036"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01690";>
+ <graphics name="K01690" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="608" y="304" width="46" height="17"/>
+ </entry>
+ <entry id="31" name="ko:K00851" type="ortholog" reaction="rn:R01737"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00851";>
+ <graphics name="K00851" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="532" y="241" width="46" height="17"/>
+ </entry>
+ <entry id="32" name="ko:K05308" type="ortholog" reaction="rn:R01538"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K05308";>
+ <graphics name="K05308" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="608" y="156" width="46" height="17"/>
+ </entry>
+ <entry id="33" name="ko:K01053" type="ortholog" reaction="rn:R01519"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01053";>
+ <graphics name="K01053" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="421" y="156" width="46" height="17"/>
+ </entry>
+ <entry id="34" name="ko:K00117" type="ortholog" reaction="rn:R06620"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00117";>
+ <graphics name="K00117" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="267" y="214" width="46" height="17"/>
+ </entry>
+ <entry id="35" name="ko:K00115" type="ortholog" reaction="rn:R00305"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00115";>
+ <graphics name="K00115" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="267" y="193" width="46" height="17"/>
+ </entry>
+ <entry id="37" name="hsa:9563" type="gene" reaction="rn:R01520 rn:R01521"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:9563";>
+ <graphics name="H6PD" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="267" y="125" width="46" height="17"/>
+ </entry>
+ <entry id="38" name="path:hsa00010" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa00010";>
+ <graphics name="Glycolysis / Gluconeogenesis" fgcolor="#000000"
bgcolor="#FFFFFF"
+ type="roundrectangle" x="50" y="426" width="64" height="276"/>
+ </entry>
+ <entry id="39" name="path:hsa00040" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa00040";>
+ <graphics name="Pentose and glucuronate interconversions"
fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="429" y="356" width="136" height="34"/>
+ </entry>
+ <entry id="40" name="path:hsa00230" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa00230";>
+ <graphics name="Purine metabolism" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="635" y="593" width="73" height="32"/>
+ </entry>
+ <entry id="41" name="path:hsa00030" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?pathway+hsa00030";>
+ <graphics name="TITLE:Pentose phosphate pathway" fgcolor="#000000"
bgcolor="#FFFFFF"
+ type="roundrectangle" x="165" y="58" width="249" height="25"/>
+ </entry>
+ <entry id="42" name="path:hsa00240" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa00240";>
+ <graphics name="Pyrimidine metabolism" fgcolor="#000000"
bgcolor="#FFFFFF"
+ type="roundrectangle" x="635" y="628" width="73" height="32"/>
+ </entry>
+ <entry id="43" name="path:hsa00340" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa00340";>
+ <graphics name="Histidine metabolism" fgcolor="#000000"
bgcolor="#FFFFFF"
+ type="roundrectangle" x="636" y="663" width="73" height="32"/>
+ </entry>
+ <entry id="45" name="ko:K06151 ko:K06152" type="ortholog"
reaction="rn:R01741"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K06151+K06152";>
+ <graphics name="K06151..." fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="451" y="185" width="46" height="17"/>
+ </entry>
+ <entry id="46" name="hsa:6888" type="gene" reaction="rn:R01827"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:6888";>
+ <graphics name="TALDO1" fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="364" y="475" width="46" height="17"/>
+ </entry>
+ <entry id="47" name="hsa:5236 hsa:55276" type="gene" reaction="rn:R01057"
+ link="http://www.kegg.jp/dbget-bin/www_bget?hsa:5236+hsa:55276";>
+ <graphics name="PGM1..." fgcolor="#000000" bgcolor="#BFFFBF"
+ type="rectangle" x="628" y="511" width="46" height="17"/>
+ </entry>
+ <entry id="48" name="cpd:C00257" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00257";>
+ <graphics name="C00257" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="529" y="155" width="8" height="8"/>
+ </entry>
+ <entry id="49" name="cpd:C00198" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00198";>
+ <graphics name="C00198" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="331" y="155" width="8" height="8"/>
+ </entry>
+ <entry id="50" name="cpd:C00031" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00031";>
+ <graphics name="C00031" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="201" y="203" width="8" height="8"/>
+ </entry>
+ <entry id="51" name="cpd:C00221" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00221";>
+ <graphics name="C00221" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="201" y="155" width="8" height="8"/>
+ </entry>
+ <entry id="52" name="cpd:C00345" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00345";>
+ <graphics name="C00345" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="529" y="303" width="8" height="8"/>
+ </entry>
+ <entry id="53" name="cpd:C00204" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00204";>
+ <graphics name="C00204" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="692" y="155" width="8" height="8"/>
+ </entry>
+ <entry id="54" name="cpd:C03752" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C03752";>
+ <graphics name="C03752" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="689" y="84" width="8" height="8"/>
+ </entry>
+ <entry id="55" name="cpd:C04442" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C04442";>
+ <graphics name="C04442" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="692" y="303" width="8" height="8"/>
+ </entry>
+ <entry id="56" name="cpd:C00117" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00117";>
+ <graphics name="C00117" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="529" y="469" width="8" height="8"/>
+ </entry>
+ <entry id="57" name="cpd:C00119" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00119";>
+ <graphics name="C00119" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="529" y="552" width="8" height="8"/>
+ </entry>
+ <entry id="58" name="cpd:C00620" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00620";>
+ <graphics name="C00620" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="692" y="500" width="8" height="8"/>
+ </entry>
+ <entry id="59" name="cpd:C00121" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00121";>
+ <graphics name="C00121" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="692" y="469" width="8" height="8"/>
+ </entry>
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+</pathway>
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![http://www.genome.jp/kegg/pathway/hsa/hsa00030.png"](http://www.genome.jp/kegg/pathway/hsa/hsa00030.png"){kind=link}