+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
package jalview.io;
-import jalview.datamodel.Alignment;
-import jalview.datamodel.AlignmentAnnotation;
-import jalview.datamodel.SequenceI;
-import jalview.gui.AlignViewport;
+import jalview.bin.Cache;
import jalview.gui.AlignmentPanel;
-import jalview.gui.AnnotationPanel;
-import jalview.gui.Desktop;
-import jalview.gui.FeatureRenderer;
-import jalview.gui.HTMLOptions;
+import jalview.gui.LineartOptions;
+import jalview.gui.OOMWarning;
import jalview.math.AlignmentDimension;
import jalview.util.MessageManager;
-import java.awt.Color;
-import java.awt.FontMetrics;
import java.awt.Graphics;
-import java.awt.print.Printable;
import java.awt.print.PrinterException;
import java.io.File;
import java.io.FileOutputStream;
+import java.io.IOException;
+import java.util.concurrent.atomic.AtomicBoolean;
import org.jfree.graphics2d.svg.SVGGraphics2D;
import org.jfree.graphics2d.svg.SVGHints;
-public class HtmlSvgOutput
+public class HtmlSvgOutput extends HTMLOutput
{
- AlignViewport av;
-
- FeatureRenderer fr;
- AlignmentPanel ap;
-
- AnnotationPanel annotationPanel;
-
- public HtmlSvgOutput(File file, AlignmentPanel ap)
+ public HtmlSvgOutput(AlignmentPanel ap)
{
-
- this.av = ap.av;
- this.ap = ap;
- this.annotationPanel = ap.getAnnotationPanel();
- generateHtmlSvgOutput(file);
+ super(ap, "HTML");
}
- public void generateHtmlSvgOutput(File file)
- {
- try
- {
- if (file == null /*
- * && !(System.getProperty("java.awt.headless") != null
- * && System
- * .getProperty("java.awt.headless").equals("true"))
- */)
- {
-
- JalviewFileChooser chooser = getHTMLChooser();
- chooser.setFileView(new jalview.io.JalviewFileView());
- chooser.setDialogTitle(ap.alignFrame.getTitle());
- chooser.setToolTipText(MessageManager.getString("action.save"));
- int value = chooser.showSaveDialog(ap.alignFrame);
-
- if (value == jalview.io.JalviewFileChooser.APPROVE_OPTION)
- {
- jalview.bin.Cache.setProperty("LAST_DIRECTORY", chooser
- .getSelectedFile().getParent());
- file = chooser.getSelectedFile();
- }
- }
-
- AlignmentDimension aDimension = ap.getAlignmentDimension();
- SVGGraphics2D g1 = new SVGGraphics2D(aDimension.getWidth(),
- aDimension.getHeight());
- SVGGraphics2D g2 = new SVGGraphics2D(aDimension.getWidth(),
- aDimension.getHeight());
-
- String renderStyle = jalview.bin.Cache.getDefault("HTML_RENDERING",
- "Prompt each time");
-
- // If we need to prompt, and if the GUI is visible then
- // Prompt for rendering style
- if (renderStyle.equalsIgnoreCase("Prompt each time")
- && !(System.getProperty("java.awt.headless") != null && System
- .getProperty("java.awt.headless").equals("true")))
- {
- HTMLOptions svgOption = new HTMLOptions();
- renderStyle = svgOption.getValue();
-
- if (renderStyle == null || svgOption.cancelled)
- {
- return;
- }
- }
-
- if (renderStyle.equalsIgnoreCase("lineart"))
- {
- g1.setRenderingHint(SVGHints.KEY_DRAW_STRING_TYPE,
- SVGHints.VALUE_DRAW_STRING_TYPE_VECTOR);
- g2.setRenderingHint(SVGHints.KEY_DRAW_STRING_TYPE,
- SVGHints.VALUE_DRAW_STRING_TYPE_VECTOR);
- }
- printUnwrapped(aDimension.getWidth(), aDimension.getHeight(), 0, g1,
- g2);
- FileOutputStream out = new FileOutputStream(file);
-
- String titleSvgData = g1.getSVGDocument();
- String alignSvgData = g2.getSVGDocument();
- String jsonData = getJSONData();
- String htmlData = getHtml(titleSvgData, alignSvgData, jsonData);
-
- out.write(htmlData.getBytes());
- out.flush();
- out.close();
- if (!(System.getProperty("java.awt.headless") != null && System
- .getProperty("java.awt.headless").equals("true")))
- {
- jalview.util.BrowserLauncher.openURL("file:///" + file);
- }
- } catch (Exception e)
- {
- e.printStackTrace();
- }
- }
-
- static JalviewFileChooser getHTMLChooser()
+ public int printUnwrapped(int pwidth, int pheight, int pi,
+ Graphics idGraphics, Graphics alignmentGraphics)
+ throws PrinterException
{
- return new jalview.io.JalviewFileChooser(
- jalview.bin.Cache.getProperty("LAST_DIRECTORY"), new String[]
- { "html" }, new String[]
- { "Hypertext Markup Language" }, "Hypertext Markup Language");
+ return ap.printUnwrapped(pwidth, pheight, pi, idGraphics,
+ alignmentGraphics);
}
- public int printUnwrapped(int pwidth, int pheight, int pi, Graphics... pg)
+ public int printWrapped(int pwidth, int pheight, int pi, Graphics... pg)
throws PrinterException
{
- int idWidth = ap.getVisibleIdWidth(false);
- FontMetrics fm = ap.getFontMetrics(av.getFont());
- int scaleHeight = av.getCharHeight() + fm.getDescent();
-
- pg[0].setColor(Color.white);
- pg[0].fillRect(0, 0, pwidth, pheight);
- pg[0].setFont(av.getFont());
-
- // //////////////////////////////////
- // / How many sequences and residues can we fit on a printable page?
- int totalRes = (pwidth - idWidth) / av.getCharWidth();
- int totalSeq = (pheight - scaleHeight) / av.getCharHeight() - 1;
- int pagesWide = (av.getAlignment().getWidth() / totalRes) + 1;
-
- // ///////////////////////////
- // / Only print these sequences and residues on this page
- int startRes;
-
- // ///////////////////////////
- // / Only print these sequences and residues on this page
- int endRes;
-
- // ///////////////////////////
- // / Only print these sequences and residues on this page
- int startSeq;
-
- // ///////////////////////////
- // / Only print these sequences and residues on this page
- int endSeq;
- startRes = (pi % pagesWide) * totalRes;
- endRes = (startRes + totalRes) - 1;
+ return ap.printWrappedAlignment(pwidth, pheight, pi, pg[0]);
+ }
- if (endRes > (av.getAlignment().getWidth() - 1))
+ String getHtml(String titleSvg, String alignmentSvg, String jsonData,
+ boolean wrapped)
+ {
+ StringBuilder htmlSvg = new StringBuilder();
+ htmlSvg.append("<html>\n");
+ if (jsonData != null)
{
- endRes = av.getAlignment().getWidth() - 1;
+ htmlSvg.append(
+ "<button onclick=\"javascipt:openJalviewUsingCurrentUrl();\">Launch in Jalview</button> ");
+ htmlSvg.append(
+ "<input type=\"submit\" value=\"View raw BioJSON Data\" onclick=\"jQuery.facebox({ div:'#seqData' }); return false;\" />");
+ htmlSvg.append(
+ "<div style=\"display: none;\" name=\"seqData\" id=\"seqData\" >"
+ + jsonData + "</div>");
+ htmlSvg.append("<br/> ");
}
- startSeq = (pi / pagesWide) * totalSeq;
- endSeq = startSeq + totalSeq;
- if (endSeq > av.getAlignment().getHeight())
+ htmlSvg.append("\n<style type=\"text/css\"> "
+ + "div.parent{ width:100%;<!-- overflow: auto; -->}\n"
+ + "div.titlex{ width:11%; float: left; }\n"
+ + "div.align{ width:89%; float: right; }\n"
+ + "div.main-container{ border: 2px solid blue; border: 2px solid blue; width: 99%; min-height: 99%; }\n"
+ + ".sub-category-container {overflow-y: scroll; overflow-x: hidden; width: 100%; height: 100%;}\n"
+ + "object {pointer-events: none;}");
+ if (jsonData != null)
{
- endSeq = av.getAlignment().getHeight();
+ // facebox style sheet for displaying raw BioJSON data
+ htmlSvg.append(
+ "#facebox { position: absolute; top: 0; left: 0; z-index: 100; text-align: left; }\n"
+ + "#facebox .popup{ position:relative; border:3px solid rgba(0,0,0,0); -webkit-border-radius:5px;"
+ + "-moz-border-radius:5px; border-radius:5px; -webkit-box-shadow:0 0 18px rgba(0,0,0,0.4); -moz-box-shadow:0 0 18px rgba(0,0,0,0.4);"
+ + "box-shadow:0 0 18px rgba(0,0,0,0.4); }\n"
+ + "#facebox .content { display:table; width: 98%; padding: 10px; background: #fff; -webkit-border-radius:4px; -moz-border-radius:4px;"
+ + " border-radius:4px; }\n"
+ + "#facebox .content > p:first-child{ margin-top:0; }\n"
+ + "#facebox .content > p:last-child{ margin-bottom:0; }\n"
+ + "#facebox .close{ position:absolute; top:5px; right:5px; padding:2px; background:#fff; }\n"
+ + "#facebox .close img{ opacity:0.3; }\n"
+ + "#facebox .close:hover img{ opacity:1.0; }\n"
+ + "#facebox .loading { text-align: center; }\n"
+ + "#facebox .image { text-align: center;}\n"
+ + "#facebox img { border: 0; margin: 0; }\n"
+ + "#facebox_overlay { position: fixed; top: 0px; left: 0px; height:100%; width:100%; }\n"
+ + ".facebox_hide { z-index:-100; }\n"
+ + ".facebox_overlayBG { background-color: #000; z-index: 99; }");
}
- int pagesHigh = ((av.getAlignment().getHeight() / totalSeq) + 1)
- * pheight;
- if (av.isShowAnnotation())
+ htmlSvg.append("</style>");
+ if (!wrapped)
{
- pagesHigh += ap.getAnnotationPanel().adjustPanelHeight() + 3;
+ htmlSvg.append("<div class=\"main-container\" \n>");
+ htmlSvg.append("<div class=\"titlex\">\n");
+ htmlSvg.append("<div class=\"sub-category-container\"> \n");
+ htmlSvg.append(titleSvg);
+ htmlSvg.append("</div>");
+ htmlSvg.append(
+ "</div>\n\n<!-- ========================================================================================== -->\n\n");
+ htmlSvg.append("<div class=\"align\" >");
+ htmlSvg.append(
+ "<div class=\"sub-category-container\"> <div style=\"overflow-x: scroll;\">")
+ .append(alignmentSvg).append("</div></div>").append("</div>");
+ htmlSvg.append("</div>");
+
+ htmlSvg.append(
+ "<script language=\"JavaScript\" type=\"text/javascript\" src=\"http://ajax.googleapis.com/ajax/libs/jquery/1/jquery.min.js\"></script>\n"
+ + "<script language=\"JavaScript\" type=\"text/javascript\" src=\"http://ajax.googleapis.com/ajax/libs/jqueryui/1.11.2/jquery-ui.min.js\"></script>\n"
+ + "<script>\n"
+ + "var subCatContainer = $(\".sub-category-container\");\n"
+ + "subCatContainer.scroll(\nfunction() {\n"
+ + "subCatContainer.scrollTop($(this).scrollTop());\n});\n");
+
+ htmlSvg.append("</script>\n");
}
- pagesHigh /= pheight;
- if (pi >= (pagesWide * pagesHigh))
+ else
{
- return Printable.NO_SUCH_PAGE;
+ htmlSvg.append("<div>\n").append(alignmentSvg).append("</div>");
+ htmlSvg.append(
+ "<script language=\"JavaScript\" type=\"text/javascript\" src=\"http://ajax.googleapis.com/ajax/libs/jquery/1/jquery.min.js\"></script>\n"
+ + "<script language=\"JavaScript\" type=\"text/javascript\" src=\"http://ajax.googleapis.com/ajax/libs/jqueryui/1.11.2/jquery-ui.min.js\"></script>\n");
}
- // draw Scale
- pg[1].translate(0, 0);
- ap.getScalePanel().drawScale(pg[1], startRes, endRes, pwidth - idWidth,
- scaleHeight);
- pg[1].translate(-idWidth, scaleHeight);
+ // javascript for launching file in Jalview
+ htmlSvg.append("<script language=\"JavaScript\">\n");
+ htmlSvg.append("function openJalviewUsingCurrentUrl(){\n");
+ htmlSvg.append(
+ " var json = JSON.parse(document.getElementById(\"seqData\").innerHTML);\n");
+ htmlSvg.append(
+ " var jalviewVersion = json['appSettings'].version;\n");
+ htmlSvg.append(" var url = json['appSettings'].webStartUrl;\n");
+ htmlSvg.append(
+ " var myForm = document.createElement(\"form\");\n\n");
+ htmlSvg.append(" var heap = document.createElement(\"input\");\n");
+ htmlSvg.append(" heap.setAttribute(\"name\", \"jvm-max-heap\") ;\n");
+ htmlSvg.append(" heap.setAttribute(\"value\", \"2G\");\n\n");
+ htmlSvg.append(" var target = document.createElement(\"input\");\n");
+ htmlSvg.append(" target.setAttribute(\"name\", \"open\");\n");
+ htmlSvg.append(" target.setAttribute(\"value\", document.URL);\n\n");
+ htmlSvg.append(
+ " var jvVersion = document.createElement(\"input\");\n");
+ htmlSvg.append(" jvVersion.setAttribute(\"name\", \"version\") ;\n");
+ htmlSvg.append(
+ " jvVersion.setAttribute(\"value\", jalviewVersion);\n\n");
+ htmlSvg.append(" myForm.action = url;\n");
+ htmlSvg.append(" myForm.appendChild(heap);\n");
+ htmlSvg.append(" myForm.appendChild(target);\n");
+ htmlSvg.append(" myForm.appendChild(jvVersion);\n");
+ htmlSvg.append(" document.body.appendChild(myForm);\n");
+ htmlSvg.append(" myForm.submit() ;\n");
+ htmlSvg.append(" document.body.removeChild(myForm);\n");
+ htmlSvg.append("}\n");
- // //////////////
- // Draw the ids
- Color currentColor = null;
- Color currentTextColor = null;
- pg[0].translate(0, scaleHeight);
- pg[0].setFont(ap.getIdPanel().getIdCanvas().getIdfont());
- SequenceI seq;
- for (int i = startSeq; i < endSeq; i++)
+ if (jsonData != null)
{
- seq = av.getAlignment().getSequenceAt(i);
- if ((av.getSelectionGroup() != null)
- && av.getSelectionGroup().getSequences(null).contains(seq))
- {
- currentColor = Color.gray;
- currentTextColor = Color.black;
- }
- else
+ // JQuery FaceBox for displaying raw BioJSON data");
+ File faceBoxJsFile = new File("examples/javascript/facebox-1.3.js");
+ try
{
- currentColor = av.getSequenceColour(seq);
- currentTextColor = Color.black;
- }
- pg[0].setColor(currentColor);
- pg[0].fillRect(0, (i - startSeq) * av.getCharHeight(), idWidth,
- av.getCharHeight());
- pg[0].setColor(currentTextColor);
- int xPos = 0;
- if (av.isRightAlignIds())
+ htmlSvg.append(HTMLOutput.readFileAsString(faceBoxJsFile));
+ } catch (IOException e)
{
- fm = pg[0].getFontMetrics();
- xPos = idWidth
- - fm.stringWidth(seq.getDisplayId(av.getShowJVSuffix()))
- - 4;
+ e.printStackTrace();
}
- pg[0].drawString(
- seq.getDisplayId(av.getShowJVSuffix()),
- xPos,
- (((i - startSeq) * av.getCharHeight()) + av.getCharHeight())
- - (av.getCharHeight() / 5));
}
- pg[0].setFont(av.getFont());
- pg[0].translate(idWidth, 0);
- // draw main sequence panel
- pg[1].translate(idWidth, 0);
- ap.getSeqPanel().seqCanvas.drawPanel(pg[1], startRes, endRes, startSeq,
- endSeq, 0);
- if (av.isShowAnnotation() && (endSeq == av.getAlignment().getHeight()))
- {
- // draw annotation label - need to offset for current scroll position
- int offset = -ap.getAlabels().getScrollOffset();
- pg[0].translate(0, offset);
- pg[0].translate(-idWidth - 3,
- (endSeq - startSeq) * av.getCharHeight() + 3);
- ap.getAlabels().drawComponent(pg[0], idWidth);
- pg[0].translate(idWidth + 3, 0);
- pg[0].translate(0, -offset);
+ htmlSvg.append("</script>\n");
+ htmlSvg.append("</html>");
+ return htmlSvg.toString();
+ }
- // draw annotation - need to offset for current scroll position
- pg[1].translate(0, offset);
- pg[1].translate(-idWidth - 3,
- (endSeq - startSeq) * av.getCharHeight() + 3);
- pg[1].translate(idWidth + 3, 0);
- ap.getAnnotationPanel().renderer.drawComponent(
- ap.getAnnotationPanel(), av, pg[1], -1, startRes, endRes + 1);
- pg[1].translate(0, -offset);
- }
+ @Override
+ public boolean isEmbedData()
+ {
+ return Boolean
+ .valueOf(Cache.getDefault("EXPORT_EMBBED_BIOJSON", "true"));
+ }
- return Printable.PAGE_EXISTS;
+ @Override
+ public boolean isLaunchInBrowserAfterExport()
+ {
+ return true;
}
-
- private String getJSONData()
+
+ @Override
+ public void run()
{
- JSONFile jsonFile = new JSONFile();
- Alignment al = new Alignment(av.getAlignment().getSequencesArray());
- jsonFile.seqGroups = av.getAlignment().getGroups();
- // jsonFile.addAnnotations(al);
- jsonFile.setDisplayedFeatures(av.getFeaturesDisplayed());
- Desktop.setCurrentAlignFrame(av.getAlignPanel().alignFrame);
- for (SequenceI seq : av.getAlignment().getSequences())
+ try
{
- jsonFile.seqs.add(seq);
- }
+ String renderStyle = Cache.getDefault("HTML_RENDERING",
+ "Prompt each time");
+ AtomicBoolean textOption = new AtomicBoolean(
+ !"Lineart".equals(renderStyle));
- // Add non auto calculated annotation to AlignFile
- for (AlignmentAnnotation annot : av.getAlignment()
- .getAlignmentAnnotation())
- {
- if (annot != null && !annot.autoCalculated)
+ /*
+ * configure the action to run on OK in the dialog
+ */
+ Runnable okAction = new Runnable()
{
- if (annot.label.equals("PDB.CATempFactor"))
+ @Override
+ public void run()
{
- continue;
+ doOutput(textOption.get());
}
- jsonFile.annotations.add(annot);
+ };
+
+ /*
+ * Prompt for character rendering style if preference is not set
+ */
+ if (renderStyle.equalsIgnoreCase("Prompt each time") && !isHeadless())
+ {
+ LineartOptions svgOption = new LineartOptions("HTML", textOption);
+ svgOption.setResponseAction(1, new Runnable()
+ {
+ @Override
+ public void run()
+ {
+ setProgressMessage(MessageManager.formatMessage(
+ "status.cancelled_image_export_operation",
+ getDescription()));
+ }
+ });
+ svgOption.setResponseAction(0, okAction);
+ svgOption.showDialog();
+ /* no code here - JalviewJS cannot execute it */
}
+ else
+ {
+ /*
+ * else (if preference set) just do the export action
+ */
+ doOutput(textOption.get());
+ }
+ } catch (OutOfMemoryError err)
+ {
+ System.out.println("########################\n" + "OUT OF MEMORY "
+ + generatedFile + "\n" + "########################");
+ new OOMWarning("Creating Image for " + generatedFile, err);
+ } catch (Exception e)
+ {
+ e.printStackTrace();
+ setProgressMessage(MessageManager
+ .formatMessage("info.error_creating_file", getDescription()));
}
-
- // jsonFile.setGlobalColorScheme(av.getGlobalColourScheme());
- String jsonString = jsonFile.print();
- System.out.println(">>>>>>>>>>> JSONFile : " + jsonString);
- return jsonString;
}
- private String getHtml(String titleSvg, String alignmentSvg,
- String jsonData)
+ /**
+ * Builds and writes the image to the file specified by field
+ * <code>generatedFile</code>
+ *
+ * @param textCharacters
+ * true for Text character rendering, false for Lineart
+ */
+ protected void doOutput(boolean textCharacters)
{
- StringBuilder htmlSvg = new StringBuilder();
- htmlSvg.append("<html>\n");
- if (jsonData != null)
+ try
{
- htmlSvg.append("<input type=\"hidden\" name=\"seqData\" id=\"seqData\" value='"
- + jsonData + "'>");
- }
- htmlSvg.append("\n<style type=\"text/css\"> "
- + "div.parent{ width:100%;<!-- overflow: auto; -->}\n"
- + "div.titlex{ width:11%; float: left; }\n"
- + "div.align{ width:89%; float: right; }\n"
- + ".sub-category-container {overflow-y: scroll; overflow-x: hidden; width: 100%; height: 100%;}\n"
- + "object {pointer-events: none;}"
- + "</style>");
- htmlSvg.append("<div>");
- htmlSvg.append(
-"<div class=\"titlex\">");
- htmlSvg.append(
-"<div class=\"sub-category-container\"> ")
- .append(titleSvg)
- .append("</div>")
- .append("</div>\n\n<!-- ========================================================================================== -->\n\n");
- htmlSvg.append(
-"<div class=\"align\" >");
- htmlSvg.append(
- "<div class=\"sub-category-container\"> <div style=\"overflow-x: scroll;\">")
- .append(alignmentSvg)
-.append("</div></div>")
- .append("</div>");
- htmlSvg.append("</div>");
-
- htmlSvg.append("<script language=\"JavaScript\" type=\"text/javascript\" src=\"http://ajax.googleapis.com/ajax/libs/jquery/1/jquery.min.js\"></script>\n"
- + "<script language=\"JavaScript\" type=\"text/javascript\" src=\"//ajax.googleapis.com/ajax/libs/jqueryui/1.11.2/jquery-ui.min.js\"></script>\n"
- + "<script>\n"
- + "var subCatContainer = $(\".sub-category-container\");\n"
- + "subCatContainer.scroll(\nfunction() {\n"
- + "subCatContainer.scrollTop($(this).scrollTop());\n});\n");
-
- htmlSvg.append("</script></hmtl>");
+ AlignmentDimension aDimension = ap.getAlignmentDimension();
+ SVGGraphics2D idPanelGraphics = new SVGGraphics2D(
+ aDimension.getWidth(), aDimension.getHeight());
+ SVGGraphics2D alignPanelGraphics = new SVGGraphics2D(
+ aDimension.getWidth(), aDimension.getHeight());
+ if (!textCharacters) // Lineart selected
+ {
+ idPanelGraphics.setRenderingHint(SVGHints.KEY_DRAW_STRING_TYPE,
+ SVGHints.VALUE_DRAW_STRING_TYPE_VECTOR);
+ alignPanelGraphics.setRenderingHint(SVGHints.KEY_DRAW_STRING_TYPE,
+ SVGHints.VALUE_DRAW_STRING_TYPE_VECTOR);
+ }
+ if (ap.av.getWrapAlignment())
+ {
+ printWrapped(aDimension.getWidth(), aDimension.getHeight(), 0,
+ alignPanelGraphics);
+ }
+ else
+ {
+ printUnwrapped(aDimension.getWidth(), aDimension.getHeight(), 0,
+ idPanelGraphics, alignPanelGraphics);
+ }
- return htmlSvg.toString();
+ String idPanelSvgData = idPanelGraphics.getSVGDocument();
+ String alignPanelSvgData = alignPanelGraphics.getSVGDocument();
+ String jsonData = getBioJSONData();
+ String htmlData = getHtml(idPanelSvgData, alignPanelSvgData, jsonData,
+ ap.av.getWrapAlignment());
+ FileOutputStream out = new FileOutputStream(generatedFile);
+ out.write(htmlData.getBytes());
+ out.flush();
+ out.close();
+ setProgressMessage(MessageManager
+ .formatMessage("status.export_complete", getDescription()));
+ exportCompleted();
+ } catch (Exception e)
+ {
+ e.printStackTrace();
+ setProgressMessage(MessageManager
+ .formatMessage("info.error_creating_file", getDescription()));
+ }
}
}
git://source.jalview.org / jalview.git / blobdiff