@Override
public List<FieldChange> cleanup(BibEntry entry) {
ArrayList<FieldChange> changes = new ArrayList<>();
// First check if the Doi Field is empty
if (entry.getField("doi") != null) {
String doiFieldValue = entry.getField("doi");
Optional<DOI> doi = DOI.build(doiFieldValue);
if (doi.isPresent()) {
String newValue = doi.get().getDOI();
if (!doiFieldValue.equals(newValue)) {
entry.setField("doi", newValue);
FieldChange change = new FieldChange(entry, "doi", doiFieldValue, newValue);
changes.add(change);
}
// Doi field seems to contain Doi -> cleanup note, url, ee field
for (String field : fields) {
DOI.build(entry.getField((field)))
.ifPresent(unused -> removeFieldValue(entry, field, changes));
}
}
} else {
// As the Doi field is empty we now check if note, url, or ee field contains a Doi
for (String field : fields) {
Optional<DOI> doi = DOI.build(entry.getField(field));
if (doi.isPresent()) {
// update Doi
String oldValue = entry.getField("doi");
String newValue = doi.get().getDOI();
entry.setField("doi", newValue);
FieldChange change = new FieldChange(entry, "doi", oldValue, newValue);
changes.add(change);
removeFieldValue(entry, field, changes);
}
}
}
return changes;
}
/**
* Removes the http://... for each DOI Moves DOIs from URL and NOTE filed to DOI field
*
* @param ce
*/
private static void doCleanUpDOI(BibtexEntry bes, NamedCompound ce) {
// fields to check
String[] fields = {"note", "url", "ee"};
// First check if the Doi Field is empty
if (bes.getField("doi") != null) {
String doiFieldValue = bes.getField("doi");
Optional<DOI> doi = DOI.build(doiFieldValue);
if (doi.isPresent()) {
String newValue = doi.get().getDOI();
if (!doiFieldValue.equals(newValue)) {
ce.addEdit(new UndoableFieldChange(bes, "doi", doiFieldValue, newValue));
bes.setField("doi", newValue);
}
// Doi field seems to contain Doi
// -> cleanup note, url, ee field
for (String field : fields) {
DOI.build(bes.getField((field))).ifPresent(unused -> removeFieldValue(bes, field, ce));
}
}
} else {
// As the Doi field is empty we now check if note, url, or ee field contains a Doi
for (String field : fields) {
Optional<DOI> doi = DOI.build(bes.getField(field));
if (doi.isPresent()) {
// update Doi
String oldValue = bes.getField("doi");
String newValue = doi.get().getDOI();
ce.addEdit(new UndoableFieldChange(bes, "doi", oldValue, newValue));
bes.setField("doi", newValue);
removeFieldValue(bes, field, ce);
}
}
}
}
/**
* Tries to find a fulltext URL for a given BibTex entry.
*
* <p>Currently only uses the DOI if found.
*
* @param entry The Bibtex entry
* @return The fulltext PDF URL Optional, if found, or an empty Optional if not found.
* @throws NullPointerException if no BibTex entry is given
* @throws java.io.IOException
*/
public Optional<URL> findFullText(BibtexEntry entry) throws IOException {
Objects.requireNonNull(entry);
Optional<URL> pdfLink = Optional.empty();
// DOI search
Optional<DOI> doi = DOI.build(entry.getField("doi"));
if (doi.isPresent()) {
String source = String.format(SOURCE, doi.get().getDOI());
// Retrieve PDF link
Document html = Jsoup.connect(source).ignoreHttpErrors(true).get();
Element link = html.select(".pdf-high-res a").first();
if (link != null) {
LOGGER.info("Fulltext PDF found @ ACS.");
pdfLink = Optional.of(new URL(source.replaceFirst("/abs/", "/pdf/")));
}
}
return pdfLink;
}
/**
* Set up a mouse listener for opening an external viewer and fetching by DOI
*
* @param fieldEditor
* @param panel
* @return
*/
public static Optional<JComponent> getDoiExtraComponent(
BasePanel panel, EntryEditor entryEditor, FieldEditor fieldEditor) {
JPanel controls = new JPanel();
controls.setLayout(new BorderLayout());
// open doi link
JButton button = new JButton(Localization.lang("Open"));
button.setEnabled(false);
button.addActionListener(
actionEvent -> {
try {
JabRefDesktop.openExternalViewer(
panel.getBibDatabaseContext(), fieldEditor.getText(), fieldEditor.getFieldName());
} catch (IOException ex) {
panel.output(Localization.lang("Unable to open link."));
}
});
// lookup doi
JButton doiButton = new JButton(Localization.lang("Lookup DOI"));
doiButton.addActionListener(
actionEvent -> {
Optional<DOI> doi = DOI.fromBibEntry(entryEditor.getEntry());
if (doi.isPresent()) {
entryEditor.getEntry().setField(FieldName.DOI, doi.get().getDOI());
} else {
panel
.frame()
.setStatus(
Localization.lang("No %0 found", FieldName.getDisplayName(FieldName.DOI)));
}
});
// fetch bibtex data
JButton fetchButton =
new JButton(
Localization.lang("Get BibTeX data from %0", FieldName.getDisplayName(FieldName.DOI)));
fetchButton.setEnabled(false);
fetchButton.addActionListener(
actionEvent -> {
BibEntry entry = entryEditor.getEntry();
new FetchAndMergeEntry(entry, panel, FieldName.DOI);
});
controls.add(button, BorderLayout.NORTH);
controls.add(doiButton, BorderLayout.CENTER);
controls.add(fetchButton, BorderLayout.SOUTH);
// enable/disable button
JTextComponent doi = (JTextComponent) fieldEditor;
doi.getDocument()
.addDocumentListener(
new DocumentListener() {
@Override
public void changedUpdate(DocumentEvent documentEvent) {
checkDoi();
}
@Override
public void insertUpdate(DocumentEvent documentEvent) {
checkDoi();
}
@Override
public void removeUpdate(DocumentEvent documentEvent) {
checkDoi();
}
private void checkDoi() {
Optional<DOI> doiUrl = DOI.build(doi.getText());
if (doiUrl.isPresent()) {
button.setEnabled(true);
fetchButton.setEnabled(true);
} else {
button.setEnabled(false);
fetchButton.setEnabled(false);
}
}
});
return Optional.of(controls);
}