public void mouseClicked(MouseEvent e) {
if (e.isPopupTrigger()) {
processPopupTrigger(e);
return;
}
// if (e.)
final int col = entryTable.columnAtPoint(e.getPoint()),
row = entryTable.rowAtPoint(e.getPoint());
if (col < PAD) {
BibtexEntry entry = sortedEntries.get(row);
BasePanel p = entryHome.get(entry);
switch (col) {
case FILE_COL:
Object o = entry.getField(GUIGlobals.FILE_FIELD);
if (o != null) {
FileListTableModel tableModel = new FileListTableModel();
tableModel.setContent((String) o);
if (tableModel.getRowCount() == 0) return;
FileListEntry fl = tableModel.getEntry(0);
(new ExternalFileMenuItem(
frame, entry, "", fl.getLink(), null, p.metaData(), fl.getType()))
.actionPerformed(null);
}
break;
case URL_COL:
Object link = entry.getField("url");
try {
if (link != null) Util.openExternalViewer(p.metaData(), (String) link, "url");
} catch (IOException ex) {
ex.printStackTrace();
}
break;
}
}
}
/**
* If the user has signalled the opening of a context menu, the event gets redirected to this
* method. Here we open a file link menu if the user is pointing at a file link icon. Otherwise
* a general context menu should be shown.
*
* @param e The triggering mouse event.
*/
public void processPopupTrigger(MouseEvent e) {
BibtexEntry entry = sortedEntries.get(entryTable.rowAtPoint(e.getPoint()));
BasePanel p = entryHome.get(entry);
int col = entryTable.columnAtPoint(e.getPoint());
JPopupMenu menu = new JPopupMenu();
int count = 0;
if (col == FILE_COL) {
// We use a FileListTableModel to parse the field content:
Object o = entry.getField(GUIGlobals.FILE_FIELD);
FileListTableModel fileList = new FileListTableModel();
fileList.setContent((String) o);
// If there are one or more links, open the first one:
for (int i = 0; i < fileList.getRowCount(); i++) {
FileListEntry flEntry = fileList.getEntry(i);
String description = flEntry.getDescription();
if ((description == null) || (description.trim().length() == 0))
description = flEntry.getLink();
menu.add(
new ExternalFileMenuItem(
p.frame(),
entry,
description,
flEntry.getLink(),
flEntry.getType().getIcon(),
p.metaData(),
flEntry.getType()));
count++;
}
}
if (count > 0) menu.show(entryTable, e.getX(), e.getY());
}
@Override
public void update() {
if (cancelled) {
frame.unblock();
return;
}
if (unsuccessfulRenames > 0) { // Rename failed for at least one entry
JOptionPane.showMessageDialog(
frame,
Localization.lang(
"File rename failed for %0 entries.", Integer.toString(unsuccessfulRenames)),
Localization.lang("Autogenerate PDF Names"),
JOptionPane.INFORMATION_MESSAGE);
}
if (modifiedEntriesCount > 0) {
panel.updateEntryEditorIfShowing();
panel.markBaseChanged();
}
String message;
switch (modifiedEntriesCount) {
case 0:
message = Localization.lang("No entry needed a clean up");
break;
case 1:
message = Localization.lang("One entry needed a clean up");
break;
default:
message =
Localization.lang(
"%0 entries needed a clean up", Integer.toString(modifiedEntriesCount));
break;
}
panel.output(message);
frame.unblock();
}
@Override
public void actionPerformed(ActionEvent e) {
BasePanel bp = frame.basePanel();
if (bp == null) {
return;
}
BibtexEntry[] entries = bp.getSelectedEntries();
// Lazy creation of the dialog:
if (diag == null) {
createDialog();
}
cancelled = true;
prepareDialog(entries.length > 0);
Util.placeDialog(diag, frame);
diag.setVisible(true);
if (cancelled) {
return;
}
Collection<BibtexEntry> entryList;
// If all entries should be treated, change the entries array:
if (all.isSelected()) {
entryList = bp.database().getEntries();
} else {
entryList = Arrays.asList(entries);
}
String toSet = text.getText();
if (toSet.isEmpty()) {
toSet = null;
}
String[] fields = getFieldNames(field.getText().trim().toLowerCase());
NamedCompound ce = new NamedCompound(Globals.lang("Set field"));
if (rename.isSelected()) {
if (fields.length > 1) {
// TODO: message: can only rename a single field
} else {
ce.addEdit(
Util.massRenameField(entryList, fields[0], renameTo.getText(), overwrite.isSelected()));
}
} else {
for (String field1 : fields) {
ce.addEdit(
Util.massSetField(
entryList, field1, set.isSelected() ? toSet : null, overwrite.isSelected()));
}
}
ce.end();
bp.undoManager.addEdit(ce);
bp.markBaseChanged();
}
/**
* Cycle through all databases, and make sure everything is updated with the new type
* customization. This includes making sure all entries have a valid type, that no obsolete entry
* editors are around, and that the right-click menus' change type menu is up-to-date.
*/
private void updateTypesForEntries(String typeName) {
if (frame.getTabbedPane().getTabCount() == 0) {
return;
}
for (int i = 0; i < frame.getTabbedPane().getTabCount(); i++) {
BasePanel bp = (BasePanel) frame.getTabbedPane().getComponentAt(i);
// Invalidate associated cached entry editor
bp.entryEditors.remove(typeName);
for (BibtexEntry entry : bp.database().getEntries()) {
entry.updateType();
}
}
}
@Override
public void run() {
for (int i = 0; i < databases; i++) {
if (i < frame.getTabbedPane().getTabCount()) {
// System.out.println("Base "+i);
BasePanel panel = frame.baseAt(i);
if (panel.getFile() == null) {
frame.showBaseAt(i);
}
panel.runCommand("save");
// TODO: can we find out whether the save was actually done or not?
saved++;
}
}
}
private void doMakePathsRelative(BibtexEntry entry, NamedCompound ce) {
String oldValue = entry.getField(Globals.FILE_FIELD);
if (oldValue == null) {
return;
}
FileListTableModel flModel = new FileListTableModel();
flModel.setContent(oldValue);
if (flModel.getRowCount() == 0) {
return;
}
boolean changed = false;
for (int i = 0; i < flModel.getRowCount(); i++) {
FileListEntry flEntry = flModel.getEntry(i);
String oldFileName = flEntry.getLink();
String newFileName =
FileUtil.shortenFileName(
new File(oldFileName), panel.metaData().getFileDirectory(Globals.FILE_FIELD))
.toString();
if (!oldFileName.equals(newFileName)) {
flEntry.setLink(newFileName);
changed = true;
}
}
if (changed) {
String newValue = flModel.getStringRepresentation();
assert (!oldValue.equals(newValue));
entry.setField(Globals.FILE_FIELD, newValue);
ce.addEdit(new UndoableFieldChange(entry, Globals.FILE_FIELD, oldValue, newValue));
}
}
public void init() {
// Get entries and check if it makes sense to perform this operation
entries = panel.getSelectedEntries();
if (entries.length == 0) {
database = panel.getDatabase();
entries = database.getEntries().toArray(new BibtexEntry[] {});
if (entries.length == 0) {
JOptionPane.showMessageDialog(
panel,
Globals.lang("This operation requires at least one entry."),
Globals.lang("Write XMP-metadata"),
JOptionPane.ERROR_MESSAGE);
goOn = false;
return;
} else {
int response =
JOptionPane.showConfirmDialog(
panel,
Globals.lang("Write XMP-metadata for all PDFs in current database?"),
Globals.lang("Write XMP-metadata"),
JOptionPane.YES_NO_CANCEL_OPTION,
JOptionPane.QUESTION_MESSAGE);
if (response != JOptionPane.YES_OPTION) {
goOn = false;
return;
}
}
}
errors = entriesChanged = skipped = 0;
if (optDiag == null) {
optDiag = new OptionsDialog(panel.frame().getFrame());
}
optDiag.open();
panel.output(Globals.lang("Writing XMP metadata..."));
}
public void update() {
if (!goOn) return;
panel.output(
Globals.lang(
"Finished writing XMP for %0 file (%1 skipped, %2 errors).",
String.valueOf(entriesChanged), String.valueOf(skipped), String.valueOf(errors)));
}
public void listChanged(ListEvent<BibtexEntry> listEvent) {
if (listEvent.getSourceList().size() == 1) {
BibtexEntry entry = listEvent.getSourceList().get(0);
// Find out which BasePanel the selected entry belongs to:
BasePanel p = entryHome.get(entry);
// Update the preview's metadata reference:
preview.setMetaData(p.metaData());
// Update the preview's entry:
preview.setEntry(entry);
contentPane.setDividerLocation(0.5f);
SwingUtilities.invokeLater(
new Runnable() {
public void run() {
preview.scrollRectToVisible(toRect);
}
});
}
}
@Override
public void init() {
cancelled = false;
modifiedEntriesCount = 0;
int numSelected = panel.getSelectedEntries().length;
if (numSelected == 0) { // None selected. Inform the user to select entries first.
JOptionPane.showMessageDialog(
frame,
Localization.lang("First select entries to clean up."),
Localization.lang("Cleanup entry"),
JOptionPane.INFORMATION_MESSAGE);
cancelled = true;
return;
}
frame.block();
panel.output(
Localization.lang("Doing a cleanup for %0 entries...", Integer.toString(numSelected)));
}
/**
* This method performs the actual changes.
*
* @param panel
* @param pr
* @param fileDir The path to the file directory to set, or null if it should not be set.
*/
private void makeChanges(
BasePanel panel,
ParserResult pr,
boolean upgradePrefs,
boolean upgradeDatabase,
String fileDir) {
if (upgradeDatabase) {
// Update file links links in the database:
NamedCompound ce =
Util.upgradePdfPsToFile(pr.getDatabase(), FileLinksUpgradeWarning.FIELDS_TO_LOOK_FOR);
panel.undoManager.addEdit(ce);
panel.markBaseChanged();
}
if (fileDir != null) {
Globals.prefs.put(GUIGlobals.FILE_FIELD + "Directory", fileDir);
}
if (upgradePrefs) {
// Exchange table columns:
Globals.prefs.putBoolean(JabRefPreferences.PDF_COLUMN, Boolean.FALSE);
Globals.prefs.putBoolean(JabRefPreferences.FILE_COLUMN, Boolean.TRUE);
// Modify General fields if necessary:
// If we don't find the file field, insert it at the bottom of the first tab:
if (!showsFileInGenFields()) {
String gfs = Globals.prefs.get(JabRefPreferences.CUSTOM_TAB_FIELDS + "0");
// System.out.println(gfs);
StringBuilder sb = new StringBuilder(gfs);
if (gfs.length() > 0) {
sb.append(";");
}
sb.append(GUIGlobals.FILE_FIELD);
Globals.prefs.put(JabRefPreferences.CUSTOM_TAB_FIELDS + "0", sb.toString());
Globals.prefs.updateEntryEditorTabList();
panel.frame().removeCachedEntryEditors();
}
panel.frame().setupAllTables();
}
}
public void run() {
// net.sf.jabref.journals.JournalList.downloadJournalList(frame);
BibtexEntry[] entries = panel.getSelectedEntries();
if (entries == null) return;
NamedCompound ce = new NamedCompound("Abbreviate journal names");
int count = 0;
for (BibtexEntry entry : entries) {
if (Globals.journalAbbrev.abbreviate(panel.database(), entry, "journal", ce, iso)) count++;
if (Globals.journalAbbrev.abbreviate(panel.database(), entry, "journaltitle", ce, iso))
count++;
}
if (count > 0) {
ce.end();
panel.undoManager.addEdit(ce);
panel.markBaseChanged();
message = Globals.lang("Abbreviated %0 journal names.", String.valueOf(count));
} else {
message = Globals.lang("No journal names could be abbreviated.");
}
}
public void mousePressed(MouseEvent e) {
if (e.isPopupTrigger()) {
processPopupTrigger(e);
return;
}
// First find the row on which the user has clicked.
final int row = entryTable.rowAtPoint(e.getPoint());
// A double click on an entry should highlight the entry in its BasePanel:
if (e.getClickCount() == 2) {
// Get the selected entry:
BibtexEntry toShow = model.getElementAt(row);
// Look up which BasePanel it belongs to:
BasePanel p = entryHome.get(toShow);
// Show the correct tab in the main window:
frame.showBasePanel(p);
// Highlight the entry:
p.highlightEntry(toShow);
}
}
public CleanUpAction(BasePanel panel) {
this.panel = panel;
this.frame = panel.frame();
initOptionsPanel();
}
public void init() {
// new FieldWeightDialog(frame).setVisible(true);
panel.output("Abbreviating...");
}
@Override
public void run() {
BasePanel panel = frame.basePanel();
if (panel == null) {
return;
}
if (panel.getSelectedEntries().length == 0) {
message = Localization.lang("No entries selected.");
getCallBack().update();
return;
}
Map<String, IExportFormat> m = ExportFormats.getExportFormats();
IExportFormat[] formats = new ExportFormat[m.size()];
String[] array = new String[formats.length];
int piv = 0;
for (IExportFormat format : m.values()) {
formats[piv] = format;
array[piv] = format.getDisplayName();
piv++;
}
JList list = new JList(array);
list.setBorder(BorderFactory.createEtchedBorder());
list.setSelectionInterval(0, 0);
list.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);
int answer =
JOptionPane.showOptionDialog(
frame,
list,
Localization.lang("Select format"),
JOptionPane.YES_NO_OPTION,
JOptionPane.QUESTION_MESSAGE,
null,
new String[] {Localization.lang("Ok"), Localization.lang("Cancel")},
Localization.lang("Ok"));
if (answer == JOptionPane.NO_OPTION) {
return;
}
IExportFormat format = formats[list.getSelectedIndex()];
// Set the global variable for this database's file directory before exporting,
// so formatters can resolve linked files correctly.
// (This is an ugly hack!)
Globals.prefs.fileDirForDatabase =
frame.basePanel().metaData().getFileDirectory(GUIGlobals.FILE_FIELD);
// Also store the database's file in a global variable:
Globals.prefs.databaseFile = frame.basePanel().metaData().getFile();
/*final boolean custom = (list.getSelectedIndex() >= Globals.STANDARD_EXPORT_COUNT);
String dir = null;
if (custom) {
int index = list.getSelectedIndex() - Globals.STANDARD_EXPORT_COUNT;
dir = (String) (Globals.prefs.customExports.getElementAt(index)[1]);
File f = new File(dir);
lfName = f.getName();
lfName = lfName.substring(0, lfName.indexOf("."));
// Remove file name - we want the directory only.
dir = f.getParent() + System.getProperty("file.separator");
}
final String format = lfName,
directory = dir;
*/
File tmp = null;
Reader reader = null;
try {
// To simplify the exporter API we simply do a normal export to a temporary
// file, and read the contents afterwards:
tmp = File.createTempFile("jabrefCb", ".tmp");
tmp.deleteOnExit();
BibtexEntry[] bes = panel.getSelectedEntries();
HashSet<String> entries = new HashSet<String>(bes.length);
for (BibtexEntry be : bes) {
entries.add(be.getId());
}
// Write to file:
format.performExport(database, panel.metaData(), tmp.getPath(), panel.getEncoding(), entries);
// Read the file and put the contents on the clipboard:
StringBuilder sb = new StringBuilder();
reader = new InputStreamReader(new FileInputStream(tmp), panel.getEncoding());
int s;
while ((s = reader.read()) != -1) {
sb.append((char) s);
}
ClipboardOwner owner =
new ClipboardOwner() {
@Override
public void lostOwnership(Clipboard clipboard, Transferable content) {}
};
// StringSelection ss = new StringSelection(sw.toString());
RtfSelection rs = new RtfSelection(sb.toString());
Toolkit.getDefaultToolkit().getSystemClipboard().setContents(rs, owner);
message = Localization.lang("Entries exported to clipboard") + ": " + bes.length;
} catch (Exception e) {
e
.printStackTrace(); // To change body of catch statement use File | Settings | File
// Templates.
message = Localization.lang("Error exporting to clipboard");
} finally {
// Clean up:
if (tmp != null) {
tmp.delete();
}
if (reader != null) {
try {
reader.close();
} catch (IOException ex) {
ex.printStackTrace();
}
}
}
}
public void update() {
// pdfURL = new URL("http://geog-www.sbs.ohio-state.edu/faculty/bmark/abbott_etal_ppp03.pdf");
if (result.url != null) {
// System.out.println("PDF URL: "+result.url);
String bibtexKey = entry.getCiteKey();
String fileDir = basePanel.metaData().getFileDirectory(GUIGlobals.FILE_FIELD);
if (fileDir == null) {
// TODO: error message if file dir not defined
// JOptionPane.showMessageDialog(frame, Globals.lang);
return;
}
DownloadExternalFile def =
new DownloadExternalFile(basePanel.frame(), basePanel.metaData(), bibtexKey);
try {
def.download(
result.url,
new DownloadExternalFile.DownloadCallback() {
public void downloadComplete(FileListEntry file) {
System.out.println("finished");
FileListTableModel tm = new FileListTableModel();
String oldValue = entry.getField(GUIGlobals.FILE_FIELD);
tm.setContent(oldValue);
tm.addEntry(tm.getRowCount(), file);
String newValue = tm.getStringRepresentation();
UndoableFieldChange edit =
new UndoableFieldChange(entry, GUIGlobals.FILE_FIELD, oldValue, newValue);
entry.setField(GUIGlobals.FILE_FIELD, newValue);
basePanel.undoManager.addEdit(edit);
basePanel.markBaseChanged();
}
});
} catch (IOException e) {
e.printStackTrace();
}
basePanel.output(Globals.lang("Finished downloading full text document"));
} else {
String message = null;
switch (result.status) {
case FindFullText.UNKNOWN_DOMAIN:
message =
Globals.lang(
"Unable to find full text article. No search algorithm "
+ "defined for the '%0' web site.",
result.host);
break;
case FindFullText.WRONG_MIME_TYPE:
message =
Globals.lang(
"Found pdf link, but received the wrong MIME type. "
+ "This could indicate that you don't have access to the fulltext article.");
break;
case FindFullText.LINK_NOT_FOUND:
message = Globals.lang("Unable to find full text document in the linked web page.");
break;
case FindFullText.IO_EXCEPTION:
message = Globals.lang("Connection error when trying to find full text document.");
break;
case FindFullText.NO_URLS_DEFINED:
message = Globals.lang("This entry provides no URL or DOI links.");
break;
}
basePanel.output(Globals.lang("Full text article download failed"));
JOptionPane.showMessageDialog(
basePanel.frame(),
message,
Globals.lang("Full text article download failed"),
JOptionPane.ERROR_MESSAGE);
}
}
public void run() {
entry = basePanel.getSelectedEntries()[0];
FindFullText fft = new FindFullText();
result = fft.findFullText(entry);
}
private void doRenamePDFs(BibtexEntry entry, NamedCompound ce) {
// Extract the path
String oldValue = entry.getField(Globals.FILE_FIELD);
if (oldValue == null) {
return;
}
FileListTableModel flModel = new FileListTableModel();
flModel.setContent(oldValue);
if (flModel.getRowCount() == 0) {
return;
}
boolean changed = false;
for (int i = 0; i < flModel.getRowCount(); i++) {
String realOldFilename = flModel.getEntry(i).getLink();
if (cleanUpRenamePDFonlyRelativePaths.isSelected()
&& (new File(realOldFilename).isAbsolute())) {
continue;
}
String newFilename = Util.getLinkedFileName(panel.database(), entry);
// String oldFilename = bes.getField(GUIGlobals.FILE_FIELD); // would have to be stored for
// undoing purposes
// Add extension to newFilename
newFilename = newFilename + "." + flModel.getEntry(i).getType().getExtension();
// get new Filename with path
// Create new Path based on old Path and new filename
File expandedOldFile =
FileUtil.expandFilename(
realOldFilename, panel.metaData().getFileDirectory(Globals.FILE_FIELD));
if (expandedOldFile.getParent() == null) {
// something went wrong. Just skip this entry
continue;
}
String newPath =
expandedOldFile
.getParent()
.concat(System.getProperty("file.separator"))
.concat(newFilename);
if (new File(newPath).exists()) {
// we do not overwrite files
// TODO: we could check here if the newPath file is linked with the current entry. And if
// not, we could add a link
continue;
}
// do rename
boolean renameSuccessful = FileUtil.renameFile(expandedOldFile.toString(), newPath);
if (renameSuccessful) {
changed = true;
// Change the path for this entry
String description = flModel.getEntry(i).getDescription();
ExternalFileType type = flModel.getEntry(i).getType();
flModel.removeEntry(i);
// we cannot use "newPath" to generate a FileListEntry as newPath is absolute, but we want
// to keep relative paths whenever possible
File parent = (new File(realOldFilename)).getParentFile();
String newFileEntryFileName;
if (parent == null) {
newFileEntryFileName = newFilename;
} else {
newFileEntryFileName =
parent.toString().concat(System.getProperty("file.separator")).concat(newFilename);
}
flModel.addEntry(i, new FileListEntry(description, newFileEntryFileName, type));
} else {
unsuccessfulRenames++;
}
}
if (changed) {
String newValue = flModel.getStringRepresentation();
assert (!oldValue.equals(newValue));
entry.setField(Globals.FILE_FIELD, newValue);
// we put an undo of the field content here
// the file is not being renamed back, which leads to inconsistencies
// if we put a null undo object here, the change by "doMakePathsRelative" would overwrite the
// field value nevertheless.
ce.addEdit(new UndoableFieldChange(entry, Globals.FILE_FIELD, oldValue, newValue));
}
}
public void run() {
if (!goOn) return;
for (int i = 0; i < entries.length; i++) {
BibtexEntry entry = entries[i];
// Make a list of all PDFs linked from this entry:
List<File> files = new ArrayList<File>();
// First check the (legacy) "pdf" field:
String pdf = entry.getField("pdf");
String dir = panel.metaData().getFileDirectory("pdf");
File f = Util.expandFilename(pdf, new String[] {dir, "."});
if (f != null) files.add(f);
// Then check the "file" field:
dir = panel.metaData().getFileDirectory(GUIGlobals.FILE_FIELD);
String field = entry.getField(GUIGlobals.FILE_FIELD);
if (field != null) {
FileListTableModel tm = new FileListTableModel();
tm.setContent(field);
for (int j = 0; j < tm.getRowCount(); j++) {
FileListEntry flEntry = tm.getEntry(j);
if ((flEntry.getType() != null)
&& (flEntry.getType().getName().toLowerCase().equals("pdf"))) {
f = Util.expandFilename(flEntry.getLink(), new String[] {dir, "."});
if (f != null) files.add(f);
}
}
}
optDiag.progressArea.append(entry.getCiteKey() + "\n");
if (files.size() == 0) {
skipped++;
optDiag.progressArea.append(" " + Globals.lang("Skipped - No PDF linked") + ".\n");
} else
for (File file : files) {
if (!file.exists()) {
skipped++;
optDiag.progressArea.append(
" " + Globals.lang("Skipped - PDF does not exist") + ":\n");
optDiag.progressArea.append(" " + file.getPath() + "\n");
} else {
try {
XMPUtil.writeXMP(file, entry, database);
optDiag.progressArea.append(" " + Globals.lang("Ok") + ".\n");
entriesChanged++;
} catch (Exception e) {
optDiag.progressArea.append(
" " + Globals.lang("Error while writing") + " '" + file.getPath() + "':\n");
optDiag.progressArea.append(" " + e.getLocalizedMessage() + "\n");
errors++;
}
}
}
if (optDiag.canceled) {
optDiag.progressArea.append("\n" + Globals.lang("Operation canceled.\n"));
break;
}
}
optDiag.progressArea.append(
"\n"
+ Globals.lang(
"Finished writing XMP for %0 file (%1 skipped, %2 errors).",
String.valueOf(entriesChanged), String.valueOf(skipped), String.valueOf(errors)));
optDiag.done();
}
public void update() {
panel.output(message);
}
@Override
public void run() {
if (cancelled) {
return;
}
int choice = showCleanUpDialog();
if (choice != JOptionPane.OK_OPTION) {
cancelled = true;
return;
}
storeSettings();
boolean choiceCleanUpSuperscripts = cleanUpSuperscripts.isSelected();
boolean choiceCleanUpDOI = cleanUpDOI.isSelected();
boolean choiceCleanUpMonth = cleanUpMonth.isSelected();
boolean choiceCleanUpPageNumbers = cleanUpPageNumbers.isSelected();
boolean choiceCleanUpDate = cleanUpDate.isSelected();
boolean choiceCleanUpUpgradeExternalLinks = cleanUpUpgradeExternalLinks.isSelected();
boolean choiceMakePathsRelative = cleanUpMakePathsRelative.isSelected();
boolean choiceRenamePDF = cleanUpRenamePDF.isSelected();
boolean choiceConvertHTML = cleanUpHTML.isSelected();
boolean choiceConvertCase = cleanUpCase.isSelected();
boolean choiceConvertLaTeX = cleanUpLaTeX.isSelected();
boolean choiceConvertUnits = cleanUpUnits.isSelected();
boolean choiceConvertUnicode = cleanUpUnicode.isSelected();
boolean choiceConvertToBiblatex = cleanUpBibLatex.isSelected();
if (choiceRenamePDF && Globals.prefs.getBoolean(CleanUpAction.AKS_AUTO_NAMING_PDFS_AGAIN)) {
CheckBoxMessage cbm =
new CheckBoxMessage(
Localization.lang("Auto-generating PDF-Names does not support undo. Continue?"),
Localization.lang("Disable this confirmation dialog"),
false);
int answer =
JOptionPane.showConfirmDialog(
frame, cbm, Localization.lang("Autogenerate PDF Names"), JOptionPane.YES_NO_OPTION);
if (cbm.isSelected()) {
Globals.prefs.putBoolean(CleanUpAction.AKS_AUTO_NAMING_PDFS_AGAIN, false);
}
if (answer == JOptionPane.NO_OPTION) {
cancelled = true;
return;
}
}
// first upgrade the external links
// we have to use it separately as the Utils function generates a separate Named Compound
if (choiceCleanUpUpgradeExternalLinks) {
NamedCompound ce =
Util.upgradePdfPsToFile(
Arrays.asList(panel.getSelectedEntries()), new String[] {"pdf", "ps"});
if (ce.hasEdits()) {
panel.undoManager.addEdit(ce);
panel.markBaseChanged();
panel.updateEntryEditorIfShowing();
panel.output(Localization.lang("Upgraded links."));
}
}
for (BibtexEntry entry : panel.getSelectedEntries()) {
// undo granularity is on entry level
NamedCompound ce = new NamedCompound(Localization.lang("Cleanup entry"));
if (choiceCleanUpSuperscripts) {
doCleanUpSuperscripts(entry, ce);
}
if (choiceCleanUpDOI) {
doCleanUpDOI(entry, ce);
}
if (choiceCleanUpMonth) {
doCleanUpMonth(entry, ce);
}
if (choiceCleanUpPageNumbers) {
doCleanUpPageNumbers(entry, ce);
}
if (choiceCleanUpDate) {
doCleanUpDate(entry, ce);
}
fixWrongFileEntries(entry, ce);
if (choiceMakePathsRelative) {
doMakePathsRelative(entry, ce);
}
if (choiceRenamePDF) {
doRenamePDFs(entry, ce);
}
if (choiceConvertHTML) {
doConvertHTML(entry, ce);
}
if (choiceConvertUnits) {
doConvertUnits(entry, ce);
}
if (choiceConvertCase) {
doConvertCase(entry, ce);
}
if (choiceConvertLaTeX) {
doConvertLaTeX(entry, ce);
}
if (choiceConvertUnicode) {
doConvertUnicode(entry, ce);
}
if (choiceConvertToBiblatex) {
convertToBiblatex(entry, ce);
}
ce.end();
if (ce.hasEdits()) {
modifiedEntriesCount++;
panel.undoManager.addEdit(ce);
}
}
}
/**
* This method presents a dialog box explaining and offering to make the changes. If the user
* confirms, the changes are performed.
*
* @param panel
* @param pr
*/
@Override
public void performAction(BasePanel panel, ParserResult pr) {
// Find out which actions should be offered:
// Only offer to change Preferences if file column is not already visible:
boolean offerChangeSettings =
!Globals.prefs.getBoolean(JabRefPreferences.FILE_COLUMN) || !showsFileInGenFields();
// Only offer to upgrade links if the pdf/ps fields are used:
boolean offerChangeDatabase =
linksFound(pr.getDatabase(), FileLinksUpgradeWarning.FIELDS_TO_LOOK_FOR);
// If the "file" directory is not set, offer to migrate pdf/ps dir:
boolean offerSetFileDir =
!Globals.prefs.hasKey(GUIGlobals.FILE_FIELD + "Directory")
&& (Globals.prefs.hasKey("pdfDirectory") || Globals.prefs.hasKey("psDirectory"));
if (!offerChangeDatabase && !offerChangeSettings && !offerSetFileDir) {
return; // Nothing to do, just return.
}
JCheckBox changeSettings =
new JCheckBox(
Globals.lang("Change table column and General fields settings to use the new feature"),
offerChangeSettings);
JCheckBox changeDatabase =
new JCheckBox(
Globals.lang("Upgrade old external file links to use the new feature"),
offerChangeDatabase);
JCheckBox setFileDir =
new JCheckBox(Globals.lang("Set main external file directory") + ":", offerSetFileDir);
JTextField fileDir = new JTextField(30);
JCheckBox doNotShowDialog =
new JCheckBox(Globals.lang("Do not show these options in the future"), false);
JPanel message = new JPanel();
DefaultFormBuilder b = new DefaultFormBuilder(new FormLayout("left:pref", ""), message);
// Keep the formatting of these lines. Otherwise, strings have to be translated again.
// See updated JabRef_en.properties modifications by python syncLang.py -s -u
b.append(
new JLabel(
"<html>"
+ Globals.lang("This database was written using an older version of JabRef.")
+ "<br>"
+ Globals.lang(
"The current version features a new way of handling links to external files.<br>To take advantage of this, your links must be changed into the new format, and<br>JabRef must be configured to show the new links.")
+ "<p>"
+ Globals.lang("Do you want JabRef to do the following operations?")
+ "</html>"));
b.nextLine();
if (offerChangeSettings) {
b.append(changeSettings);
b.nextLine();
}
if (offerChangeDatabase) {
b.append(changeDatabase);
b.nextLine();
}
if (offerSetFileDir) {
if (Globals.prefs.hasKey("pdfDirectory")) {
fileDir.setText(Globals.prefs.get("pdfDirectory"));
} else {
fileDir.setText(Globals.prefs.get("psDirectory"));
}
JPanel pan = new JPanel();
pan.add(setFileDir);
pan.add(fileDir);
JButton browse = new JButton(Globals.lang("Browse"));
browse.addActionListener(BrowseAction.buildForDir(fileDir));
pan.add(browse);
b.append(pan);
b.nextLine();
}
b.append("");
b.nextLine();
b.append(doNotShowDialog);
int answer =
JOptionPane.showConfirmDialog(
panel.frame(), message, Globals.lang("Upgrade file"), JOptionPane.YES_NO_OPTION);
if (doNotShowDialog.isSelected()) {
Globals.prefs.putBoolean(JabRefPreferences.SHOW_FILE_LINKS_UPGRADE_WARNING, false);
}
if (answer == JOptionPane.YES_OPTION) {
makeChanges(
panel,
pr,
changeSettings.isSelected(),
changeDatabase.isSelected(),
setFileDir.isSelected() ? fileDir.getText() : null);
}
}
private BibtexEntry createNewEntry() {
// Find out what type is wanted.
EntryTypeDialog etd = new EntryTypeDialog(frame);
// We want to center the dialog, to make it look nicer.
Util.placeDialog(etd, frame);
etd.setVisible(true);
BibtexEntryType type = etd.getChoice();
if (type != null) { // Only if the dialog was not cancelled.
String id = Util.createNeutralId();
final BibtexEntry be = new BibtexEntry(id, type);
try {
panel.database().insertEntry(be);
// Set owner/timestamp if options are enabled:
ArrayList<BibtexEntry> list = new ArrayList<BibtexEntry>();
list.add(be);
Util.setAutomaticFields(list, true, true, false);
// Create an UndoableInsertEntry object.
panel.undoManager.addEdit(new UndoableInsertEntry(panel.database(), be, panel));
panel.output(
Globals.lang("Added new")
+ " '"
+ type.getName().toLowerCase()
+ "' "
+ Globals.lang("entry")
+ ".");
// We are going to select the new entry. Before that, make sure that we are in
// show-entry mode. If we aren't already in that mode, enter the WILL_SHOW_EDITOR
// mode which makes sure the selection will trigger display of the entry editor
// and adjustment of the splitter.
if (panel.getMode() != panel.SHOWING_EDITOR) {
panel.setMode(panel.WILL_SHOW_EDITOR);
}
/*int row = entryTable.findEntry(be);
if (row >= 0)
// Selects the entry. The selection listener will open the editor.
if (row >= 0) {
try{
entryTable.setRowSelectionInterval(row, row);
}catch(IllegalArgumentException e){
System.out.println("RowCount: " + entryTable.getRowCount());
}
//entryTable.setActiveRow(row);
entryTable.ensureVisible(row);
}
else {
// The entry is not visible in the table, perhaps due to a filtering search
// or group selection. Show the entry editor anyway:
panel.showEntry(be);
} */
panel.showEntry(be);
panel.markBaseChanged(); // The database just changed.
new FocusRequester(panel.getEntryEditor(be));
return be;
} catch (KeyCollisionException ex) {
Util.pr(ex.getMessage());
}
}
return null;
}
@Override
public void actionPerformed(ActionEvent evt) {
final BibtexEntry[] entries = m_panel.getSelectedEntries();
final Vector<GroupTreeNode> removeGroupsNodes =
new Vector<GroupTreeNode>(); // used only when moving
if (m_move) {
// collect warnings for removal
Enumeration<GroupTreeNode> e = ((GroupTreeNode) m_node.getRoot()).preorderEnumeration();
GroupTreeNode node;
while (e.hasMoreElements()) {
node = e.nextElement();
if (!node.getGroup().supportsRemove()) {
continue;
}
for (BibtexEntry entry : entries) {
if (node.getGroup().contains(entry)) {
removeGroupsNodes.add(node);
}
}
}
// warning for all groups from which the entries are removed, and
// for the one to which they are added! hence the magical +1
AbstractGroup[] groups = new AbstractGroup[removeGroupsNodes.size() + 1];
for (int i = 0; i < removeGroupsNodes.size(); ++i) {
groups[i] = removeGroupsNodes.elementAt(i).getGroup();
}
groups[groups.length - 1] = m_node.getGroup();
if (!Util.warnAssignmentSideEffects(
groups, entries, m_panel.getDatabase(), m_panel.frame())) {
return; // user aborted operation
}
} else {
// warn if assignment has undesired side effects (modifies a field != keywords)
if (!Util.warnAssignmentSideEffects(
new AbstractGroup[] {m_node.getGroup()},
entries,
m_panel.getDatabase(),
m_panel.frame())) {
return; // user aborted operation
}
}
// if an editor is showing, its fields must be updated
// after the assignment, and before that, the current
// edit has to be stored:
m_panel.storeCurrentEdit();
NamedCompound undoAll = new NamedCompound(Globals.lang("change assignment of entries"));
if (m_move) {
// first remove
for (int i = 0; i < removeGroupsNodes.size(); ++i) {
GroupTreeNode node = removeGroupsNodes.elementAt(i);
if (node.getGroup().containsAny(entries)) {
undoAll.addEdit(node.removeFromGroup(entries));
}
}
// then add
AbstractUndoableEdit undoAdd = m_node.addToGroup(entries);
if (undoAdd != null) {
undoAll.addEdit(undoAdd);
}
} else {
AbstractUndoableEdit undoAdd = m_node.addToGroup(entries);
if (undoAdd == null) {
return; // no changed made
}
undoAll.addEdit(undoAdd);
}
undoAll.end();
m_panel.undoManager.addEdit(undoAll);
m_panel.markBaseChanged();
m_panel.updateEntryEditorIfShowing();
m_panel.getGroupSelector().valueChanged(null);
}
private boolean importPdfFiles(List<String> fileNames) {
if (panel == null) return false;
for (String fileName : fileNames) {
List<BibtexEntry> xmpEntriesInFile = readXmpEntries(fileName);
ImportDialog importDialog = new ImportDialog(dropRow, fileName);
if (!hasXmpEntries(xmpEntriesInFile)) {
importDialog.getRadioButtonXmp().setEnabled(false);
}
Tools.centerRelativeToWindow(importDialog, frame);
importDialog.showDialog();
if (importDialog.getResult() == JOptionPane.OK_OPTION) {
if (importDialog.getRadioButtonXmp().isSelected()) {
// SplDatabaseChangeListener dataListener = new SplDatabaseChangeListener(frame, panel,
// entryTable, fileName);
// panel.database().addDatabaseChangeListener(dataListener);
ImportMenuItem importer = new ImportMenuItem(frame, (entryTable == null));
importer.automatedImport(new String[] {fileName});
} else if (importDialog.getRadioButtonMrDlib().isSelected()) {
MetaDataListDialog metaDataListDialog = new MetaDataListDialog(fileName, true);
Tools.centerRelativeToWindow(metaDataListDialog, frame);
metaDataListDialog.showDialog();
XmlDocuments documents = metaDataListDialog.getXmlDocuments();
if (documents != null
&& documents.getDocuments() != null
&& documents.getDocuments().size() > 0
&& metaDataListDialog.getResult() == JOptionPane.OK_OPTION) {
int selected = metaDataListDialog.getTableMetadata().getSelectedRow();
if (selected > -1 && selected < documents.getDocuments().size()) {
XmlDocument document = documents.getDocuments().get(selected);
String id = Util.createNeutralId();
BibtexEntry entry = new BibtexEntry(id);
if (fieldExists(document.getType())) {
BibtexEntryType type = BibtexEntryType.getStandardType(document.getType());
if (type == null) {
type = BibtexEntryType.ARTICLE;
}
entry.setType(type);
} else {
entry.setType(BibtexEntryType.ARTICLE);
}
ArrayList<BibtexEntry> list = new ArrayList<BibtexEntry>();
list.add(entry);
Util.setAutomaticFields(list, true, true, false);
insertFields(entry.getRequiredFields(), entry, document);
insertFields(entry.getGeneralFields(), entry, document);
insertFields(entry.getOptionalFields(), entry, document);
panel.database().insertEntry(entry);
DroppedFileHandler dfh = new DroppedFileHandler(frame, panel);
dfh.linkPdfToEntry(fileName, entryTable, entry);
LabelPatternUtil.makeLabel(Globals.prefs.getKeyPattern(), panel.database(), entry);
} else {
createNewBlankEntry(fileName);
}
} else if (metaDataListDialog.getResult() == JOptionPane.CANCEL_OPTION) {
continue;
} else if (metaDataListDialog.getResult() == JOptionPane.NO_OPTION) {
createNewBlankEntry(fileName);
} else if (documents == null
|| documents.getDocuments() == null
|| documents.getDocuments().size() <= 0
&& metaDataListDialog.getResult() == JOptionPane.OK_OPTION) {
createNewBlankEntry(fileName);
}
} else if (importDialog.getRadioButtonNoMeta().isSelected()) {
createNewBlankEntry(fileName);
} else if (importDialog.getRadioButtonUpdateEmptyFields().isSelected()) {
MetaDataListDialog metaDataListDialog = new MetaDataListDialog(fileName, false);
Tools.centerRelativeToWindow(metaDataListDialog, frame);
metaDataListDialog.showDialog();
XmlDocuments documents = metaDataListDialog.getXmlDocuments();
if (documents != null
&& documents.getDocuments() != null
&& documents.getDocuments().size() > 0
&& metaDataListDialog.getResult() == JOptionPane.OK_OPTION) {
int selected = metaDataListDialog.getTableMetadata().getSelectedRow();
if (selected > -1 && selected < documents.getDocuments().size()) {
XmlDocument document = documents.getDocuments().get(selected);
BibtexEntry entry = entryTable.getEntryAt(dropRow);
if (fieldExists(document.getType())) {
BibtexEntryType type = BibtexEntryType.getStandardType(document.getType());
if (type != null) {
entry.setType(type);
}
}
insertFields(entry.getRequiredFields(), entry, document);
insertFields(entry.getGeneralFields(), entry, document);
insertFields(entry.getOptionalFields(), entry, document);
DroppedFileHandler dfh = new DroppedFileHandler(frame, panel);
dfh.linkPdfToEntry(fileName, entryTable, dropRow);
}
}
} else if (importDialog.getRadioButtononlyAttachPDF().isSelected()) {
DroppedFileHandler dfh = new DroppedFileHandler(frame, panel);
dfh.linkPdfToEntry(fileName, entryTable, dropRow);
}
}
}
return true;
}
public void init() throws Throwable {
basePanel.output(Globals.lang("Looking for full text document..."));
}