X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FIdCanvas.java;h=dc906f4943bc61e14d08d1d9f61dcfe94b08c8f8;hb=53507580ea0d347514d4f5e092a4d3d815609b9e;hp=cc042ed02b613d3ba12fb5254e4667373bcbdf3b;hpb=ec955aa655d8320258b91eb079bc57f688cd0a07;p=jalview.git diff --git a/src/jalview/appletgui/IdCanvas.java b/src/jalview/appletgui/IdCanvas.java index cc042ed..dc906f4 100755 --- a/src/jalview/appletgui/IdCanvas.java +++ b/src/jalview/appletgui/IdCanvas.java @@ -1,204 +1,457 @@ -package jalview.appletgui; - -import java.awt.*; -import jalview.datamodel.*; -import jalview.analysis.*; -public class IdCanvas extends Panel -{ - protected AlignViewport av; - - protected boolean showScores = true; - - protected int maxIdLength = -1; - protected String maxIdStr = null; - Image image; - Graphics gg; - int imgHeight=0; - boolean fastPaint = false; - - java.util.Vector searchResults; - - public IdCanvas(AlignViewport av) - { - setLayout(null); - this.av = av; - PaintRefresher.Register(this); - } - - public void drawIdString(Graphics gg,SequenceI s,int i, int starty, int ypos) { - int charHeight = av.getCharHeight(); - - if(searchResults!=null && searchResults.contains(s)) - { - gg.setColor(Color.black); - gg.fillRect(0,AlignmentUtil.getPixelHeight(starty,i,charHeight)+ ypos,getSize().width,charHeight); - gg.setColor(Color.white); - } - else if (av.getSelectionGroup()!=null && av.getSelectionGroup().sequences.contains(s)) { - gg.setColor(Color.lightGray); - gg.fillRect(0,AlignmentUtil.getPixelHeight(starty,i,charHeight)+ ypos,getSize().width,charHeight); - gg.setColor(Color.white); - } else { - gg.setColor(s.getColor()); - gg.fillRect(0,AlignmentUtil.getPixelHeight(starty,i,charHeight)+ ypos,getSize().width,charHeight); - gg.setColor(Color.black); - } - - String string = s.getName(); - if(av.getShowFullId()) - string = s.getDisplayId(); - - gg.drawString(string,0,AlignmentUtil.getPixelHeight(starty,i,charHeight) + ypos + charHeight- (charHeight/5)); - - } - - public void fastPaint(int vertical) - { - if(gg==null) - { repaint(); return;} - - gg.copyArea( 0,0, getSize().width, imgHeight, 0, -vertical*av.charHeight ); - - int ss=av.startSeq, es=av.endSeq, transY = 0; - if (vertical > 0) // scroll down - { - ss = es - vertical; - if(ss av.endSeq) - es = av.endSeq; - } - - - - gg.translate(0, transY); - - drawIds(ss, es); - - gg.translate( 0, -transY ); - - - fastPaint = true; - repaint(); - } - - public void update(Graphics g) - { - paint(g); - } - public void paint(Graphics g) - { - if(getSize().height<0 || getSize().width<0) - return; - if (fastPaint) - { - fastPaint = false; - g.drawImage(image, 0, 0, this); - return; - } - - imgHeight = getSize().height; - imgHeight -= imgHeight % av.charHeight; - - if(image==null || imgHeight!=image.getHeight(this)) - { - image = createImage(getSize().width, imgHeight); - gg = image.getGraphics(); - gg.setFont(av.getFont()); - } - - //Fill in the background - gg.setColor(Color.white); - Font italic = new Font(av.getFont().getName(), Font.ITALIC, - av.getFont().getSize()); - gg.setFont(italic); - - gg.fillRect(0, 0, getSize().width, getSize().height); - drawIds( av.getStartSeq(), av.endSeq); - g.drawImage(image, 0, 0, this); - } - - void drawIds(int starty, int endy) - { - Color currentColor = Color.white; - Color currentTextColor = Color.black; - - if (av.getWrapAlignment()) - { - - int rowSize = av.getEndRes() - av.getStartRes(); - // Draw the rest of the panels - - for(int ypos=2*av.charHeight, row=av.getEndRes()-rowSize; - ypos <= getSize().height && row. + * The Jalview Authors are detailed in the 'AUTHORS' file. + */ +package jalview.appletgui; + +import jalview.datamodel.SequenceI; +import jalview.viewmodel.ViewportListenerI; +import jalview.viewmodel.ViewportRanges; + +import java.awt.Color; +import java.awt.Font; +import java.awt.Graphics; +import java.awt.Image; +import java.awt.Panel; +import java.beans.PropertyChangeEvent; +import java.util.List; + +public class IdCanvas extends Panel implements ViewportListenerI +{ + protected AlignViewport av; + + protected boolean showScores = true; + + protected int maxIdLength = -1; + + protected String maxIdStr = null; + + Image image; + + Graphics gg; + + int imgHeight = 0; + + boolean fastPaint = false; + + List searchResults; + + public IdCanvas(AlignViewport av) + { + setLayout(null); + this.av = av; + PaintRefresher.Register(this, av.getSequenceSetId()); + av.getRanges().addPropertyChangeListener(this); + } + + public void drawIdString(Graphics gg, boolean hiddenRows, SequenceI s, + int i, int starty, int ypos) + { + int charHeight = av.getCharHeight(); + + if (searchResults != null && searchResults.contains(s)) + { + gg.setColor(Color.black); + gg.fillRect(0, ((i - starty) * charHeight) + ypos, getSize().width, + charHeight); + gg.setColor(Color.white); + } + else if (av.getSelectionGroup() != null + && av.getSelectionGroup().getSequences(null).contains(s)) + { + gg.setColor(Color.lightGray); + gg.fillRect(0, ((i - starty) * charHeight) + ypos, getSize().width, + charHeight); + gg.setColor(Color.white); + } + else + { + gg.setColor(av.getSequenceColour(s)); + gg.fillRect(0, ((i - starty) * charHeight) + ypos, getSize().width, + charHeight); + gg.setColor(Color.black); + } + + gg.drawString(s.getDisplayId(av.getShowJVSuffix()), 0, + ((i - starty) * charHeight) + ypos + charHeight + - (charHeight / 5)); + + if (hiddenRows) + { + drawMarker(i, starty, ypos); + } + + } + + public void fastPaint(int vertical) + { + if (gg == null || av.getWrapAlignment()) + { + repaint(); + return; + } + + ViewportRanges ranges = av.getRanges(); + + gg.copyArea(0, 0, getSize().width, imgHeight, 0, + -vertical * av.getCharHeight()); + + int ss = ranges.getStartSeq(), es = ranges.getEndSeq(), transY = 0; + if (vertical > 0) // scroll down + { + ss = es - vertical; + if (ss < ranges.getStartSeq()) // ie scrolling too fast, more than a page + // at a + // time + { + ss = ranges.getStartSeq(); + } + else + { + transY = imgHeight - ((vertical + 1) * av.getCharHeight()); + } + } + else if (vertical < 0) + { + es = ss - vertical; + if (es > ranges.getEndSeq()) + { + es = ranges.getEndSeq(); + } + } + + gg.translate(0, transY); + + drawIds(ss, es); + + gg.translate(0, -transY); + + fastPaint = true; + repaint(); + } + + @Override + public void update(Graphics g) + { + paint(g); + } + + @Override + public void paint(Graphics g) + { + if (getSize().height < 0 || getSize().width < 0) + { + return; + } + if (fastPaint) + { + fastPaint = false; + g.drawImage(image, 0, 0, this); + return; + } + + imgHeight = getSize().height; + imgHeight -= imgHeight % av.getCharHeight(); + + if (imgHeight < 1) + { + return; + } + + if (image == null || imgHeight != image.getHeight(this)) + { + image = createImage(getSize().width, imgHeight); + gg = image.getGraphics(); + gg.setFont(av.getFont()); + } + + // Fill in the background + gg.setColor(Color.white); + Font italic = new Font(av.getFont().getName(), Font.ITALIC, + av.getFont().getSize()); + gg.setFont(italic); + + gg.fillRect(0, 0, getSize().width, getSize().height); + drawIds(av.getRanges().getStartSeq(), av.getRanges().getEndSeq()); + g.drawImage(image, 0, 0, this); + } + + /** + * local copy of av.getCharHeight set at top of drawIds + */ + private int avcharHeight; + + void drawIds(int starty, int endy) + { + avcharHeight = av.getCharHeight(); + + Color currentColor = Color.white; + Color currentTextColor = Color.black; + + final boolean doHiddenCheck = av.isDisplayReferenceSeq() + || av.hasHiddenRows(); + boolean hiddenRows = av.hasHiddenRows() && av.getShowHiddenMarkers(); + + if (av.getWrapAlignment()) + { + drawIdsWrapped(starty, doHiddenCheck, hiddenRows); + return; + } + + // Now draw the id strings + SequenceI seq; + for (int i = starty; i <= endy; i++) + { + seq = av.getAlignment().getSequenceAt(i); + if (seq == null) + { + continue; + } + // hardwired italic IDs in applet currently + Font italic = new Font(av.getFont().getName(), Font.ITALIC, + av.getFont().getSize()); + gg.setFont(italic); + // boolean isrep=false; + if (doHiddenCheck) + { + // isrep = + setHiddenFont(seq); + } + + // Selected sequence colours + if ((searchResults != null) && searchResults.contains(seq)) + { + currentColor = Color.black; + currentTextColor = Color.white; + } + else if ((av.getSelectionGroup() != null) + && av.getSelectionGroup().getSequences(null).contains(seq)) + { + currentColor = Color.lightGray; + currentTextColor = Color.black; + } + else + { + currentColor = av.getSequenceColour(seq); + currentTextColor = Color.black; + } + + gg.setColor(currentColor); + // TODO: isrep could be used to highlight the representative in a + // different way + gg.fillRect(0, (i - starty) * avcharHeight, getSize().width, + avcharHeight); + gg.setColor(currentTextColor); + + gg.drawString(seq.getDisplayId(av.getShowJVSuffix()), 0, + (((i - starty) * avcharHeight) + avcharHeight) + - (avcharHeight / 5)); + + if (hiddenRows) + { + drawMarker(i, starty, 0); + } + } + } + + /** + * Draws sequence ids in wrapped mode + * + * @param starty + * @param doHiddenCheck + * @param hiddenRows + */ + protected void drawIdsWrapped(int starty, final boolean doHiddenCheck, + boolean hiddenRows) + { + int maxwidth = av.getAlignment().getWidth(); + int alheight = av.getAlignment().getHeight(); + + if (av.hasHiddenColumns()) + { + maxwidth = av.getAlignment().getHiddenColumns() + .findColumnPosition(maxwidth) - 1; + } + + int annotationHeight = 0; + AnnotationLabels labels = null; + + if (av.isShowAnnotation()) + { + AnnotationPanel ap = new AnnotationPanel(av); + annotationHeight = ap.adjustPanelHeight(); + labels = new AnnotationLabels(av); + } + int hgap = avcharHeight; + if (av.getScaleAboveWrapped()) + { + hgap += avcharHeight; + } + + int cHeight = alheight * avcharHeight + hgap + annotationHeight; + + int rowSize = av.getRanges().getViewportWidth(); + + // hardwired italic IDs in applet currently + Font italic = new Font(av.getFont().getName(), Font.ITALIC, + av.getFont().getSize()); + gg.setFont(italic); + + /* + * draw repeating sequence ids until out of sequence data or + * out of visible space, whichever comes first + */ + int ypos = hgap; + int row = av.getRanges().getStartRes(); + while ((ypos <= getHeight()) && (row < maxwidth)) + { + for (int i = starty; i < alheight; i++) + { + + SequenceI s = av.getAlignment().getSequenceAt(i); + // gg.setFont(italic); + if (doHiddenCheck) + { + setHiddenFont(s); + } + drawIdString(gg, hiddenRows, s, i, 0, ypos); + } + + if (labels != null) + { + gg.translate(0, ypos + (alheight * avcharHeight)); + labels.drawComponent(gg, getSize().width); + gg.translate(0, -ypos - (alheight * avcharHeight)); + } + ypos += cHeight; + row += rowSize; + } + } + + public void setHighlighted(List list) + { + searchResults = list; + repaint(); + } + + void drawMarker(int i, int starty, int yoffset) + { + SequenceI[] hseqs = av.getAlignment() + .getHiddenSequences().hiddenSequences; + // Use this method here instead of calling hiddenSeq adjust + // 3 times. + int hSize = hseqs.length; + + int hiddenIndex = i; + int lastIndex = i - 1; + int nextIndex = i + 1; + + for (int j = 0; j < hSize; j++) + { + if (hseqs[j] != null) + { + if (j - 1 < hiddenIndex) + { + hiddenIndex++; + } + if (j - 1 < lastIndex) + { + lastIndex++; + } + if (j - 1 < nextIndex) + { + nextIndex++; + } + } + } + + boolean below = (hiddenIndex > lastIndex + 1); + boolean above = (nextIndex > hiddenIndex + 1); + + gg.setColor(Color.blue); + if (below) + { + gg.fillPolygon( + new int[] + { getSize().width - avcharHeight, + getSize().width - avcharHeight, getSize().width }, + new int[] + { (i - starty) * avcharHeight + yoffset, + (i - starty) * avcharHeight + yoffset + avcharHeight / 4, + (i - starty) * avcharHeight + yoffset }, + 3); + } + if (above) + { + gg.fillPolygon( + new int[] + { getSize().width - avcharHeight, + getSize().width - avcharHeight, getSize().width }, + new int[] + { (i - starty + 1) * avcharHeight + yoffset, + (i - starty + 1) * avcharHeight + yoffset + - avcharHeight / 4, + (i - starty + 1) * avcharHeight + yoffset }, + 3); + + } + } + + boolean setHiddenFont(SequenceI seq) + { + Font bold = new Font(av.getFont().getName(), Font.BOLD, + av.getFont().getSize()); + + if (av.isReferenceSeq(seq) || av.isHiddenRepSequence(seq)) + { + gg.setFont(bold); + return true; + } + return false; + } + + /** + * Respond to viewport range changes (e.g. alignment panel was scrolled). Both + * scrolling and resizing change viewport ranges. Scrolling changes both start + * and end points, but resize only changes end values. Here we only want to + * fastpaint on a scroll, with resize using a normal paint, so scroll events + * are identified as changes to the horizontal or vertical start value. + *

+ * In unwrapped mode, only responds to a vertical scroll, as horizontal scroll + * leaves sequence ids unchanged. In wrapped mode, only vertical scroll is + * provided, but it generates a change of "startres" which does require an + * update here. + */ + @Override + public void propertyChange(PropertyChangeEvent evt) + { + String propertyName = evt.getPropertyName(); + if (propertyName.equals(ViewportRanges.STARTSEQ) + || (av.getWrapAlignment() + && propertyName.equals(ViewportRanges.STARTRES))) + { + fastPaint((int) evt.getNewValue() - (int) evt.getOldValue()); + } + else if (propertyName.equals(ViewportRanges.STARTRESANDSEQ)) + { + fastPaint(((int[]) evt.getNewValue())[1] + - ((int[]) evt.getOldValue())[1]); + } + } +}