int max; //used by mouseDragged to see if user\r
boolean mouseDragging = false;\r
\r
+ boolean MAC = false;\r
+\r
/**\r
* Creates a new AnnotationPanel object.\r
*\r
*/\r
public AnnotationPanel(AlignmentPanel ap)\r
{\r
+\r
+ if(System.getProperty("os.name").startsWith("Mac"))\r
+ MAC = true;\r
+\r
ToolTipManager.sharedInstance().registerComponent(this);\r
ToolTipManager.sharedInstance().setInitialDelay(0);\r
ToolTipManager.sharedInstance().setDismissDelay(10000);\r
*/\r
public void paintComponent(Graphics g)\r
{\r
+ g.setColor(Color.white);\r
+ g.fillRect(0, 0, getWidth(), getHeight());\r
+\r
if(image!=null)\r
{if (fastPaint\r
|| (getVisibleRect().width != g.getClipBounds().width)\r
{\r
case 'H':\r
g.setColor(HELIX_COLOUR);\r
+ if(MAC)\r
+ {\r
+ //Off by 1 offset when drawing rects and ovals\r
+ //to offscreen image on the MAC\r
+ g.fillRoundRect(lastSSX, y + 4 + iconOffset,\r
+ x - lastSSX, 7, 8, 8);\r
+ break;\r
+ }\r
+\r
int sCol = (lastSSX / av.charWidth) + startRes;\r
int x1 = lastSSX;\r
int x2 = x;\r
\r
- if(row.annotations[sCol-1]==null ||\r
+ if(sCol==0 ||\r
+ row.annotations[sCol-1]==null ||\r
row.annotations[sCol-1].secondaryStructure!='H')\r
{\r
- g.fillArc(lastSSX, y+4+iconOffset, av.charWidth, 8, 90,180) ;\r
+ g.fillArc(lastSSX, y+4+iconOffset, av.charWidth+1, 7, 90,180) ;\r
x1 += av.charWidth/2;\r
}\r
\r
if(row.annotations[column]==null ||\r
row.annotations[column].secondaryStructure!='H')\r
{\r
- g.fillArc(x-av.charWidth, y+4+iconOffset, av.charWidth, 8, 270,180);\r
+ g.fillArc(x-av.charWidth, y+4+iconOffset, av.charWidth, 7, 270,180);\r
x2 -= av.charWidth/2;\r
}\r
\r
- g.fillRect(x1, y+4+iconOffset, x2-x1, 8);\r
+ g.fillRect(x1, y+4+iconOffset, x2-x1+1, 7);\r
break;\r
\r
case 'E':\r
g.setColor(SHEET_COLOUR);\r
g.fillRect(lastSSX, y + 4 + iconOffset,\r
x - lastSSX - 4, 7);\r
- g.fillPolygon(new int[] { x - 4, x - 4, x },\r
+ g.fillPolygon(new int[] { x - 5, x - 5, x },\r
new int[]\r
{\r
y + iconOffset, y + 14 + iconOffset,\r
- y + 8 + iconOffset\r
+ y + 7 + iconOffset\r
}, 3);\r
\r
break;\r
{\r
case 'H':\r
g.setColor(HELIX_COLOUR);\r
+ if (MAC)\r
+ {\r
+ //Off by 1 offset when drawing rects and ovals\r
+ //to offscreen image on the MAC\r
+ g.fillRoundRect(lastSSX, y + 4 + iconOffset,\r
+ x - lastSSX, 7, 8, 8);\r
+ break;\r
+ }\r
+\r
\r
int sCol = (lastSSX / av.charWidth) + startRes;\r
int x1 = lastSSX;\r
int x2 = x;\r
\r
- if(row.annotations[sCol-1]==null ||\r
+ if(sCol==0 ||\r
+ row.annotations[sCol-1]==null ||\r
row.annotations[sCol-1].secondaryStructure!='H')\r
{\r
- g.fillArc(lastSSX, y+4+iconOffset, av.charWidth, 8, 90,180) ;\r
+ g.fillArc(lastSSX, y+4+iconOffset, av.charWidth+1, 7, 90,180) ;\r
x1 += av.charWidth/2;\r
}\r
\r
if(row.annotations[column]==null ||\r
row.annotations[column].secondaryStructure!='H')\r
{\r
- g.fillArc(x-av.charWidth, y+4+iconOffset, av.charWidth, 8, 270,180);\r
+ g.fillArc(x-av.charWidth, y+4+iconOffset, av.charWidth, 7, 270,180);\r
x2 -= av.charWidth/2;\r
}\r
\r
- g.fillRect(x1, y+4+iconOffset, x2-x1, 8);\r
+ g.fillRect(x1, y+4+iconOffset, x2-x1+1, 7);\r
\r
break;\r
\r
case 'E':\r
g.setColor(SHEET_COLOUR);\r
\r
- if (row.annotations[endRes] !=null\r
- && row.annotations[endRes].secondaryStructure != 'E')\r
+ if (row.annotations[endRes] ==null\r
+ || row.annotations[endRes].secondaryStructure != 'E')\r
{\r
g.fillRect(lastSSX, y + 4 + iconOffset,\r
x - lastSSX - 4, 7);\r
g.fillPolygon(new int[]\r
- {x - 4, x - 4, x},\r
+ {x - 5, x - 5, x},\r
new int[]\r
{\r
y + iconOffset, y + 14 + iconOffset,\r
}, 3);\r
}\r
else\r
- g.setColor(Color.gray);\r
g.fillRect(lastSSX, y + 4 + iconOffset,\r
x - lastSSX, 7);\r
\r
\r
\r
default:\r
- g.setColor(Color.ORANGE);\r
+ g.setColor(Color.gray);\r
if(!av.wrapAlignment || endRes==av.endRes)\r
g.fillRect(lastSSX, y + 6 + iconOffset, x - lastSSX, 2);\r
\r
if(sRes>aa.annotations.length)\r
return;\r
\r
- eRes = Math.min(eRes, aa.annotations.length);\r
\r
int x = 0;\r
\r
if(eRes<av.endRes)\r
eRes++;\r
\r
+ eRes = Math.min(eRes, aa.annotations.length);\r
+\r
if(sRes==0)\r
{\r
sRes++;\r