X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Frenderer%2FAnnotationRenderer.java;fp=src%2Fjalview%2Frenderer%2FAnnotationRenderer.java;h=1cd3d3b5f55aa7b8af5111bc6cabf796a09a94ba;hb=d9f0a24d9662a0b530fd79b51108dd074d03d6e0;hp=1311405e8294cf3d2a6319a75aef1e459ebbdfdd;hpb=d27da609341db336cdda77a6cc880a6059d8a2d9;p=jalview.git

diff --git a/src/jalview/renderer/AnnotationRenderer.java b/src/jalview/renderer/AnnotationRenderer.java
index 1311405..1cd3d3b 100644
--- a/src/jalview/renderer/AnnotationRenderer.java
+++ b/src/jalview/renderer/AnnotationRenderer.java
@@ -1389,7 +1389,8 @@ public class AnnotationRenderer
           boolean isStructureProfile = profl[0] == AlignmentAnnotation.STRUCTURE_PROFILE;
           boolean isCdnaProfile = profl[0] == AlignmentAnnotation.CDNA_PROFILE;
           float ht = normaliseProfile ? y - _aa.graphHeight : y1;
-          final double normaliseFactor = normaliseProfile ? _aa.graphHeight : (y2 - y1);
+          final double normaliseFactor = normaliseProfile ? _aa.graphHeight
+                  : (y2 - y1);
 
           /**
            * Render a single base for a sequence profile, a base pair for
@@ -1440,7 +1441,7 @@ public class AnnotationRenderer
               s = new String(dc);
             }
             // next profl[] position is profile % for the character(s)
-            
+
             int percent = profl[c++];
             if (percent == 0)
             {
@@ -1473,9 +1474,9 @@ public class AnnotationRenderer
             // (int)(scl));
             // g.setColor(profcolour.findColour(dc[0]).darker());
 
-            double sx = 1f * charWidth / fm.charsWidth(dc, 0, dc.length);            
+            double sx = 1f * charWidth / fm.charsWidth(dc, 0, dc.length);
             double sy = newHeight / asc;
-            double newAsc = asc * sy; 
+            double newAsc = asc * sy;
             double newDec = dec * sy;
             // it is not necessary to recalculate lm for the new font.
             // note: lm.getBaselineOffsets()[lm.getBaselineIndex()]) must be 0
@@ -1501,10 +1502,14 @@ public class AnnotationRenderer
               ht2 += newHeight;
             }
             else
+            /**
+             * Java only
+             * 
+             * @j2sNative
+             */
             {
-              /*
-               * Java ('normal') method is to scale the font to fit
-               */
+              // Java ('normal') method is to scale the font to fit
+
               final int hght = (int) (ht + (newAsc - newDec));
               Font font = ofont
                       .deriveFont(AffineTransform.getScaleInstance(sx, sy));
@@ -1523,7 +1528,7 @@ public class AnnotationRenderer
       Graphics2D g2 = (Graphics2D) g;
       g2.setStroke(new BasicStroke(1, BasicStroke.CAP_SQUARE,
               BasicStroke.JOIN_ROUND, 3f, new float[]
-      { 5f, 3f }, 0f));
+              { 5f, 3f }, 0f));
 
       y2 = (int) (y
               - ((_aa.threshold.value - min) / range) * _aa.graphHeight);