X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Frenderer%2FAnnotationRenderer.java;h=9438e9a9b869fd88b50809e11934aa13dadd3c9d;hb=cd669a0e8c7b91b379bca8fe6e702cf0fcbd1ce0;hp=cba36d23aceec1be81ee87654e13f3a20f4de760;hpb=c956ba7ae40dd7f269aa372044ed4ed5f28fb042;p=jalview.git diff --git a/src/jalview/renderer/AnnotationRenderer.java b/src/jalview/renderer/AnnotationRenderer.java index cba36d2..9438e9a 100644 --- a/src/jalview/renderer/AnnotationRenderer.java +++ b/src/jalview/renderer/AnnotationRenderer.java @@ -175,7 +175,6 @@ public class AnnotationRenderer int x, int y, int iconOffset, int startRes, int column, boolean validRes, boolean validEnd) { - g.setColor(STEM_COLOUR); int sCol = (lastSSX / charWidth) + hiddenColumns.visibleToAbsoluteColumn(startRes); int x1 = lastSSX; @@ -190,6 +189,13 @@ public class AnnotationRenderer || row_annotations[column] == null || dc != row_annotations[column].secondaryStructure; + if (diffupstream || diffdownstream) + { + // draw glyphline under arrow + drawGlyphLine(g, lastSSX, x, y, iconOffset); + } + g.setColor(STEM_COLOUR); + if (column > 0 && Rna.isClosingParenthesis(dc)) { if (diffupstream) @@ -202,7 +208,8 @@ public class AnnotationRenderer */ fillPolygon(g, new int[] { lastSSX + 5, lastSSX + 5, lastSSX }, new int[] - { y + iconOffset, y + 13 + iconOffset, y + 7 + iconOffset }, + { y + iconOffset + 1, y + 13 + iconOffset, + y + 7 + iconOffset }, 3); x1 += 5; } @@ -220,9 +227,10 @@ public class AnnotationRenderer * if annotation ending with an opeing base pair half of the stem, * display a forward arrow */ - fillPolygon(g, new int[] { x2 - 5, x2 - 5, x2 }, + fillPolygon(g, new int[] { x2 - 6, x2 - 6, x2 - 1 }, new int[] - { y + iconOffset, y + 13 + iconOffset, y + 7 + iconOffset }, + { y + iconOffset + 1, y + 13 + iconOffset, + y + 7 + iconOffset }, 3); x2 -= 5; } @@ -232,6 +240,7 @@ public class AnnotationRenderer } } // draw arrow body + unsetAntialias(g); fillRect(g, x1, y + 4 + iconOffset, x2 - x1, 6); } @@ -1267,7 +1276,6 @@ public class AnnotationRenderer } else { - // g.setColor(Color.orange); fillRoundRect(g, lastSSX, y + 3 + iconOffset, x2 - x1 - ofs, 8, 0, 0); } @@ -1278,7 +1286,6 @@ public class AnnotationRenderer } else { - // g.setColor(Color.magenta); fillRoundRect(g, lastSSX + ofs, y + 3 + iconOffset, x2 - x1 - ofs, 8, 0, 0); }