Merge remote-tracking branch 'upstream/master' into fixCopyPasteCodeArea

* upstream/master: Fix sort order in main table not stored (#6898) Window "Manage field names & content": make title consistent with menu (+ localization) (#6895) Complete rebranding of `bibtexkey` as `citationkey` (#6875) Dev-doc: ADR list (#6887) Bump lucene-queryparser from 8.6.1 to 8.6.2 (#6881) Bump fontbox from 2.0.20 to 2.0.21 (#6883) Bump org.beryx.jlink from 2.21.3 to 2.21.4 (#6882) Bump com.github.ben-manes.versions from 0.29.0 to 0.30.0 (#6884) Bump pdfbox from 2.0.20 to 2.0.21 (#6885) Bump mockito-core from 3.5.7 to 3.5.10 (#6886) lint changelog Dev Doc: Moving around ADR (end?) (#6873) Add MD031 to lint ignore list Add mlep's other email adress Fetch by ID: SAO/NASA Astrophysics Data System -> SAO/NASA ADS (#6876)
JabRef · Sep 12, 2020 · 897f5e0 · 897f5e0
2 parents b671459 + 1d2ecff
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diff --git a/.mailmap b/.mailmap
@@ -47,6 +47,7 @@ Frédéric Darboux <Frederic.Darboux@orleans.inra.fr>
 Frédéric Darboux <Frederic.Darboux@orleans.inra.fr> <fdar@users.sourceforge.net>
 Frédéric Darboux <Frederic.Darboux@orleans.inra.fr> <mlep@users.noreply.github.com>
 Frédéric Darboux <Frederic.Darboux@orleans.inra.fr> <mlep@github.com>
+Frédéric Darboux <frederic.darboux@inrae.fr>
 Florian Straßer <strassfn@studi.informatik.uni-stuttgart.de>
 Gregor Herrmann <gregoa@debian.org>
 Hakan Duran <ehakanduran@gmail.com> hakova <ehakanduran@gmail.com>

diff --git a/.markdownlint.yml b/.markdownlint.yml
@@ -13,6 +13,9 @@ MD013: false
 MD026:
   punctuation: ".,;:!"
 
+# not supported by gitbook
+MD031: false
+
 MD033:
   # we have <a> tags with ids and superscript
   allowed_elements: ['a', 'sup']
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -22,18 +22,22 @@ Note that this project **does not** adhere to [Semantic Versioning](http://semve
 - JabRef now offers journal lists from <https://abbrv.jabref.org>. JabRef the lists which use a dot inside the abbreviations. [#5749](https://github.com/JabRef/jabref/pull/5749)
 - We removed two useless preferences in the groups preferences dialog. [#6836](https://github.com/JabRef/jabref/pull/6836)
 - Synchronization of SpecialFields to keywords is now disabled by default. [#6621](https://github.com/JabRef/jabref/issues/6621)
-- JabRef no longer opens the entry editor with the first entry on startup [6855](https://github.com/JabRef/jabref/issues/6855)
+- JabRef no longer opens the entry editor with the first entry on startup [#6855](https://github.com/JabRef/jabref/issues/6855)
+- We completed the rebranding of `bibtexkey` as `citationkey` which was started in JabRef 5.1.
+- JabRef no longer opens the entry editor with the first entry on startup [#6855](https://github.com/JabRef/jabref/issues/6855)
+- Fetch by ID: (long) "SAO/NASA Astrophysics Data System" replaced by (short) "SAO/NASA ADS" [#6876](https://github.com/JabRef/jabref/pull/6876)
+- We changed the title of the window  "Manage field names and content":  to have the same title as the corresponding menu item  [#6895](https://github.com/JabRef/jabref/pull/6895)
 
 ### Fixed
 
 - We fixed an issue changing the icon link_variation_off that is not meaningful. [#6834][https://github.com/JabRef/jabref/issues/6834]
 - We fixed an issue where the `.sav` file was not deleted upon exiting JabRef. [#6109](https://github.com/JabRef/jabref/issues/6109)
 - We fixed a linked identifier icon inconsistency. [#6705](https://github.com/JabRef/jabref/issues/6705)
 - We fixed the wrong behavior that font size changes are not reflected in dialogs. [#6039](https://github.com/JabRef/jabref/issues/6039)
+- We fixed an issue where the sort order of the entry table was reset after a restart of JabRef [#6898](https://github.com/JabRef/jabref/pull/6898)
 
 ### Removed
 
-
 ## [5.1] – 2020-08-30
 
 ### Added

diff --git a/build.gradle b/build.gradle
@@ -13,10 +13,10 @@ plugins {
     id 'application'
     id "com.simonharrer.modernizer" version '2.1.0-1'
     id 'me.champeau.gradle.jmh' version '0.5.1'
-    id 'com.github.ben-manes.versions' version '0.29.0'
+    id 'com.github.ben-manes.versions' version '0.30.0'
     id 'org.javamodularity.moduleplugin' version '1.7.0'
     id 'org.openjfx.javafxplugin' version '0.0.9'
-    id 'org.beryx.jlink' version '2.21.3'
+    id 'org.beryx.jlink' version '2.21.4'
 
     // nicer test outputs during running and completion
     // Homepage: https://github.com/radarsh/gradle-test-logger-plugin
@@ -105,8 +105,8 @@ dependencies {
     // Include all jar-files in the 'lib' folder as dependencies
     implementation fileTree(dir: 'lib', includes: ['*.jar'])
 
-    implementation 'org.apache.pdfbox:pdfbox:2.0.20'
-    implementation 'org.apache.pdfbox:fontbox:2.0.20'
+    implementation 'org.apache.pdfbox:pdfbox:2.0.21'
+    implementation 'org.apache.pdfbox:fontbox:2.0.21'
     implementation 'org.apache.pdfbox:xmpbox:2.0.20'
 
     implementation group: 'org.apache.commons', name: 'commons-csv', version: '1.8'
@@ -137,7 +137,7 @@ dependencies {
     antlr4 'org.antlr:antlr4:4.8-1'
     implementation 'org.antlr:antlr4-runtime:4.8-1'
 
-    implementation (group: 'org.apache.lucene', name: 'lucene-queryparser', version: '8.6.1') {
+    implementation (group: 'org.apache.lucene', name: 'lucene-queryparser', version: '8.6.2') {
         exclude group: 'org.apache.lucene', module: 'lucene-sandbox'
     }
 
@@ -207,7 +207,7 @@ dependencies {
     testImplementation 'net.bytebuddy:byte-buddy-parent:1.10.14'
     testRuntime group: 'org.apache.logging.log4j', name: 'log4j-core', version: '3.0.0-SNAPSHOT'
     testRuntime group: 'org.apache.logging.log4j', name: 'log4j-jul', version: '3.0.0-SNAPSHOT'
-    testImplementation 'org.mockito:mockito-core:3.5.7'
+    testImplementation 'org.mockito:mockito-core:3.5.10'
     testImplementation 'org.xmlunit:xmlunit-core:2.7.0'
     testImplementation 'org.xmlunit:xmlunit-matchers:2.7.0'
     testRuntime 'com.tngtech.archunit:archunit-junit5-engine:0.14.1'

diff --git a/docs/adr.md b/docs/adr.md
@@ -1,8 +1,27 @@
 # Architectural Decisions
 
-This directory contains the architectural decisions for JabRef.
+Architectural decisions for JabRef:
 
+* [ADR-0000](https://github.com/JabRef/jabref/tree/docs/adr/0000-use-markdown-architectural-decision-records.md) - Use Markdown Architectural Decision Records
+* [ADR-0001](https://github.com/JabRef/jabref/tree/docs/adr/0001-use-crowdin-for-translations.md) - Use Crowdin for translations
+* [ADR-0002](https://github.com/JabRef/jabref/tree/docs/adr/0002-use-slf4j-for-logging.md) - Use slf4j together with log4j2 for logging
+* [ADR-0003](https://github.com/JabRef/jabref/tree/docs/adr/0003-use-gradle-as-build-tool.md) - Use Gradle as build tool
+* [ADR-0004](https://github.com/JabRef/jabref/tree/docs/adr/0004-use-mariadb-connector.md) - Use MariaDB Connector
+* [ADR-0005](https://github.com/JabRef/jabref/tree/docs/adr/0005-fully-support-utf8-only-for-latex-files.md) - Fully Support UTF-8 Only For LaTeX Files
+* [ADR-0006](https://github.com/JabRef/jabref/tree/docs/adr/0006-only-translated-strings-in-language-file.md) - Only translated strings in language file
+* [ADR-0007](https://github.com/JabRef/jabref/tree/docs/adr/0007-human-readable-changelog.md) - Provide a human-readable changelog
+* [ADR-0008](https://github.com/JabRef/jabref/tree/docs/adr/0008-use-public-final-instead-of-getters.md) - Use public final instead of getters to offer access to immutable variables
+* [ADR-0009](https://github.com/JabRef/jabref/tree/docs/adr/0009-use-plain-junit5-for-testing.md) - Use Plain JUnit5 for advanced test assertions
+* [ADR-0010](https://github.com/JabRef/jabref/tree/docs/adr/0010-use-h2-as-internal-database.md) - Use H2 as Internal SQL Database
+* [ADR-0011](https://github.com/JabRef/jabref/tree/docs/adr/0011-test-external-links-in-documentation.md) - Test external links in documentation
+* [ADR-0012](https://github.com/JabRef/jabref/tree/docs/adr/0012-handle-different-bibEntry-formats-of-fetchers.md) - Handle different bibentry formats of fetchers by adding a layer
+* [ADR-0013](https://github.com/JabRef/jabref/tree/docs/adr/0013-add-native-support-biblatex-software.md) - Add Native Support for BibLatex-Sotware
+fix checkstyle in adr
+* [ADR-0014](https://github.com/JabRef/jabref/tree/docs/adr/0014-separate-URL-creation-to-enable-proper-logging.md) - Separate URL creation to enable proper logging
+* [ADR-0015](https://github.com/JabRef/jabref/tree/docs/adr/0015-support-an-abstract-query-syntax-for-query-conversion.md) - Query syntax design
+* [ADR-0016](https://github.com/JabRef/jabref/tree/docs/adr/0016-mutable-preferences-objects.md) - Mutable preferences objects
+* [ADR-0017](https://github.com/JabRef/jabref/tree/docs/adr/0017-allow-model-access-logic.md) - Allow org.jabref.model to access org.jabref.logic
 
 
-For new ADRs, please use [template.md](https://github.com/JabRef/jabref/tree/98e9fc3ddc7b59ca35101c7f37b183ca2e69d8a0/docs/adr/template.md) as basis. More information on the used format is available at [https://adr.github.io/madr/](https://adr.github.io/madr/). General information about architectural decision records is available at [https://adr.github.io/](https://adr.github.io/).
+For new ADRs, please use [template.md](https://github.com/JabRef/jabref/tree/98e9fc3ddc7b59ca35101c7f37b183ca2e69d8a0/docs/adr/template.md) as basis. More information on the used format is available at [https://adr.github.io/madr/](https://adr.github.io/madr/). General information about architectural decision records is available at [https://adr.github.io/](https://adr.github.io/). Then add them to the above list.
 
diff --git a/docs/adr/0015-allow-model-access-logic.md → docs/adr/0017-allow-model-access-logic.md b/docs/adr/0015-allow-model-access-logic.md → docs/adr/0017-allow-model-access-logic.md
diff --git a/docs/getting-into-the-code/high-level-documentation.md b/docs/getting-into-the-code/high-level-documentation.md
@@ -35,5 +35,5 @@ All packages and classes which are currently not part of these packages \(we are
 
 ## Most Important Classes and their Relation
 
-Both GUI and CLI are started via the `JabRefMain` which will in turn call `JabRef` which then decides whether the GUI \(`JabRefFrame`\) or the CLI \(`JabRefCLI` and a lot of code in `JabRef`\) will be started. The `JabRefFrame` represents the Window which contains a `SidePane` on the left used for the fetchers/groups Each tab is a `BasePanel` which has a `SearchBar` at the top, a `MainTable` at the center and a `PreviewPanel` or an `EntryEditor` at the bottom. Any right click on the `MainTable` is handled by the `RightClickMenu`. Each `BasePanel` holds a `BibDatabaseContext` consisting of a `BibDatabase` and the `MetaData`, which are the only relevant data of the currently shown database. A `BibDatabase` has a list of `BibEntries`. Each `BibEntry` has a key, a bibtex key and a key/value store for the fields with their values. Interpreted data \(such as the type or the file field\) is stored in the `TypedBibentry` type. The user can change the `JabRefPreferences` through the `PreferencesDialog`.
+Both GUI and CLI are started via the `JabRefMain` which will in turn call `JabRef` which then decides whether the GUI \(`JabRefFrame`\) or the CLI \(`JabRefCLI` and a lot of code in `JabRef`\) will be started. The `JabRefFrame` represents the Window which contains a `SidePane` on the left used for the fetchers/groups Each tab is a `BasePanel` which has a `SearchBar` at the top, a `MainTable` at the center and a `PreviewPanel` or an `EntryEditor` at the bottom. Any right click on the `MainTable` is handled by the `RightClickMenu`. Each `BasePanel` holds a `BibDatabaseContext` consisting of a `BibDatabase` and the `MetaData`, which are the only relevant data of the currently shown database. A `BibDatabase` has a list of `BibEntries`. Each `BibEntry` has an ID, a citation key and a key/value store for the fields with their values. Interpreted data \(such as the type or the file field\) is stored in the `TypedBibentry` type. The user can change the `JabRefPreferences` through the `PreferencesDialog`.
 
diff --git a/src/jmh/java/org/jabref/benchmarks/Benchmarks.java b/src/jmh/java/org/jabref/benchmarks/Benchmarks.java
@@ -55,7 +55,7 @@ public void init() throws Exception {
         Random randomizer = new Random();
         for (int i = 0; i < 1000; i++) {
             BibEntry entry = new BibEntry();
-            entry.setCiteKey("id" + i);
+            entry.setCitationKey("id" + i);
             entry.setField(StandardField.TITLE, "This is my title " + i);
             entry.setField(StandardField.AUTHOR, "Firstname Lastname and FirstnameA LastnameA and FirstnameB LastnameB" + i);
             entry.setField(StandardField.JOURNAL, "Journal Title " + i);

diff --git a/src/main/java/org/jabref/gui/autocompleter/BibEntrySuggestionProvider.java b/src/main/java/org/jabref/gui/autocompleter/BibEntrySuggestionProvider.java
@@ -13,7 +13,7 @@
 import org.controlsfx.control.textfield.AutoCompletionBinding;
 
 /**
- * Delivers possible completions as a list of {@link BibEntry} based on their cite key.
+ * Delivers possible completions as a list of {@link BibEntry} based on their citation key.
  */
 public class BibEntrySuggestionProvider extends SuggestionProvider<BibEntry> {
 
@@ -25,7 +25,7 @@ public BibEntrySuggestionProvider(BibDatabase database) {
 
     @Override
     protected Equivalence<BibEntry> getEquivalence() {
-        return Equivalence.equals().onResultOf(BibEntry::getCiteKeyOptional);
+        return Equivalence.equals().onResultOf(BibEntry::getCitationKey);
     }
 
     @Override
@@ -36,7 +36,7 @@ protected Comparator<BibEntry> getComparator() {
     @Override
     protected boolean isMatch(BibEntry entry, AutoCompletionBinding.ISuggestionRequest request) {
         String userText = request.getUserText();
-        return entry.getCiteKeyOptional()
+        return entry.getCitationKey()
                     .map(key -> StringUtil.containsIgnoreCase(key, userText))
                     .orElse(false);
     }

diff --git a/src/main/java/org/jabref/gui/citationkeypattern/GenerateCitationKeyAction.java b/src/main/java/org/jabref/gui/citationkeypattern/GenerateCitationKeyAction.java
@@ -68,15 +68,14 @@ public static boolean confirmOverwriteKeys(DialogService dialogService) {
     private void checkOverwriteKeysChosen() {
         // We don't want to generate keys for entries which already have one thus remove the entries
         if (Globals.prefs.getBoolean(JabRefPreferences.AVOID_OVERWRITING_KEY)) {
-            entries.removeIf(BibEntry::hasCiteKey);
-            // if we're going to override some cite keys warn the user about it
-        } else if (entries.parallelStream().anyMatch(BibEntry::hasCiteKey)) {
+            entries.removeIf(BibEntry::hasCitationKey);
+            // if we're going to override some citation keys warn the user about it
+        } else if (entries.parallelStream().anyMatch(BibEntry::hasCitationKey)) {
             boolean overwriteKeys = confirmOverwriteKeys(dialogService);
 
-            // The user doesn't want to override cite keys
+            // The user doesn't want to override citation keys
             if (!overwriteKeys) {
                 isCanceled = true;
-                return;
             }
         }
     }
@@ -87,7 +86,7 @@ private void generateKeys() {
         }
 
         stateManager.getActiveDatabase().ifPresent(databaseContext -> {
-            // generate the new cite keys for each entry
+            // generate the new citation keys for each entry
             final NamedCompound compound = new NamedCompound(Localization.lang("Autogenerate citation keys"));
             CitationKeyGenerator keyGenerator =
                     new CitationKeyGenerator(databaseContext, Globals.prefs.getCitationKeyPatternPreferences());
@@ -97,7 +96,7 @@ private void generateKeys() {
             }
             compound.end();
 
-            // register the undo event only if new cite keys were generated
+            // register the undo event only if new citation keys were generated
             if (compound.hasEdits()) {
                 frame.getUndoManager().addEdit(compound);
             }

diff --git a/src/main/java/org/jabref/gui/citationkeypattern/GenerateCitationKeySingleAction.java b/src/main/java/org/jabref/gui/citationkeypattern/GenerateCitationKeySingleAction.java
@@ -32,7 +32,7 @@ public GenerateCitationKeySingleAction(BibEntry entry, BibDatabaseContext databa
 
     @Override
     public void execute() {
-        if (!entry.hasCiteKey() || GenerateCitationKeyAction.confirmOverwriteKeys(dialogService)) {
+        if (!entry.hasCitationKey() || GenerateCitationKeyAction.confirmOverwriteKeys(dialogService)) {
             new CitationKeyGenerator(databaseContext, preferencesService.getCitationKeyPatternPreferences())
                     .generateAndSetKey(entry)
                     .ifPresent(change -> undoManager.addEdit(new UndoableKeyChange(change)));

diff --git a/src/main/java/org/jabref/gui/collab/EntryAddChangeViewModel.java b/src/main/java/org/jabref/gui/collab/EntryAddChangeViewModel.java
@@ -17,7 +17,7 @@ class EntryAddChangeViewModel extends DatabaseChangeViewModel {
 
     public EntryAddChangeViewModel(BibEntry entry) {
         super();
-        this.name = entry.getCiteKeyOptional()
+        this.name = entry.getCitationKey()
                          .map(key -> Localization.lang("Added entry") + ": '" + key + '\'')
                          .orElse(Localization.lang("Added entry"));
         this.entry = entry;

diff --git a/src/main/java/org/jabref/gui/collab/EntryChangeViewModel.java b/src/main/java/org/jabref/gui/collab/EntryChangeViewModel.java
@@ -25,7 +25,7 @@ public EntryChangeViewModel(BibEntry entry, BibEntry newEntry) {
         this.oldEntry = entry;
         this.newEntry = newEntry;
 
-        name = entry.getCiteKeyOptional()
+        name = entry.getCitationKey()
                     .map(key -> Localization.lang("Modified entry") + ": '" + key + '\'')
                     .orElse(Localization.lang("Modified entry"));
     }

diff --git a/src/main/java/org/jabref/gui/collab/EntryDeleteChangeViewModel.java b/src/main/java/org/jabref/gui/collab/EntryDeleteChangeViewModel.java
@@ -22,7 +22,7 @@ class EntryDeleteChangeViewModel extends DatabaseChangeViewModel {
     public EntryDeleteChangeViewModel(BibEntry entry) {
         super(Localization.lang("Deleted entry"));
 
-        this.name = entry.getCiteKeyOptional()
+        this.name = entry.getCitationKey()
                          .map(key -> Localization.lang("Deleted entry") + ": '" + key + '\'')
                          .orElse(Localization.lang("Deleted entry"));
         this.entry = entry;

diff --git a/src/main/java/org/jabref/gui/customentrytypes/CustomEntryTypeDialogViewModel.java b/src/main/java/org/jabref/gui/customentrytypes/CustomEntryTypeDialogViewModel.java
@@ -50,7 +50,7 @@ public Field fromString(String string) {
         }
     };
 
-    private final ObservableList<Field> fieldsForAdding = FXCollections.observableArrayList(FieldFactory.getStandardFielsdsWithBibTexKey());
+    private final ObservableList<Field> fieldsForAdding = FXCollections.observableArrayList(FieldFactory.getStandardFieldsWithCitationKey());
     private final ObjectProperty<CustomEntryTypeViewModel> selectedEntryType = new SimpleObjectProperty<>();
     private final ObjectProperty<Field> selectedFieldToAdd = new SimpleObjectProperty<>();
     private final StringProperty entryTypeToAdd = new SimpleStringProperty("");

diff --git a/src/main/java/org/jabref/gui/edit/CopyMoreAction.java b/src/main/java/org/jabref/gui/edit/CopyMoreAction.java
@@ -104,8 +104,8 @@ private void copyKey() {
 
         // Collect all non-null keys.
         List<String> keys = entries.stream()
-                                   .filter(entry -> entry.getCiteKeyOptional().isPresent())
-                                   .map(entry -> entry.getCiteKeyOptional().get())
+                                   .filter(entry -> entry.getCitationKey().isPresent())
+                                   .map(entry -> entry.getCitationKey().get())
                                    .collect(Collectors.toList());
 
         if (keys.isEmpty()) {
@@ -131,8 +131,8 @@ private void copyCiteKey() {
 
         // Collect all non-null keys.
         List<String> keys = entries.stream()
-                                   .filter(entry -> entry.getCiteKeyOptional().isPresent())
-                                   .map(entry -> entry.getCiteKeyOptional().get())
+                                   .filter(entry -> entry.getCitationKey().isPresent())
+                                   .map(entry -> entry.getCitationKey().get())
                                    .collect(Collectors.toList());
 
         if (keys.isEmpty()) {
@@ -161,7 +161,7 @@ private void copyKeyAndTitle() {
         List<BibEntry> entries = stateManager.getSelectedEntries();
 
         // ToDo: this string should be configurable to allow arbitrary exports
-        StringReader layoutString = new StringReader("\\bibtexkey - \\begin{title}\\format[RemoveBrackets]{\\title}\\end{title}\n");
+        StringReader layoutString = new StringReader("\\citationkey - \\begin{title}\\format[RemoveBrackets]{\\title}\\end{title}\n");
         Layout layout;
         try {
             layout = new LayoutHelper(layoutString, preferencesService.getLayoutFormatterPreferences(Globals.journalAbbreviationRepository)).getLayoutFromText();
@@ -175,7 +175,7 @@ private void copyKeyAndTitle() {
         int entriesWithKeys = 0;
         // Collect all non-null keys.
         for (BibEntry entry : entries) {
-            if (entry.hasCiteKey()) {
+            if (entry.hasCitationKey()) {
                 entriesWithKeys++;
                 keyAndTitle.append(layout.doLayout(entry, stateManager.getActiveDatabase().get().getDatabase()));
             }
@@ -209,7 +209,7 @@ private void copyKeyAndLink() {
         StringBuilder keyAndLink = new StringBuilder();
 
         List<BibEntry> entriesWithKey = entries.stream()
-                                               .filter(BibEntry::hasCiteKey)
+                                               .filter(BibEntry::hasCitationKey)
                                                .collect(Collectors.toList());
 
         if (entriesWithKey.isEmpty()) {
@@ -218,7 +218,7 @@ private void copyKeyAndLink() {
         }
 
         for (BibEntry entry : entriesWithKey) {
-            String key = entry.getCiteKeyOptional().get();
+            String key = entry.getCitationKey().get();
             String url = entry.getField(StandardField.URL).orElse("");
             keyAndLink.append(url.isEmpty() ? key : String.format("<a href=\"%s\">%s</a>", url, key));
             keyAndLink.append(OS.NEWLINE);
Original file line number	Diff line number	Diff line change
Expand Up		@@ -35,5 +35,5 @@ All packages and classes which are currently not part of these packages \(we are

		## Most Important Classes and their Relation

		Both GUI and CLI are started via the `JabRefMain` which will in turn call `JabRef` which then decides whether the GUI \(`JabRefFrame`\) or the CLI \(`JabRefCLI` and a lot of code in `JabRef`\) will be started. The `JabRefFrame` represents the Window which contains a `SidePane` on the left used for the fetchers/groups Each tab is a `BasePanel` which has a `SearchBar` at the top, a `MainTable` at the center and a `PreviewPanel` or an `EntryEditor` at the bottom. Any right click on the `MainTable` is handled by the `RightClickMenu`. Each `BasePanel` holds a `BibDatabaseContext` consisting of a `BibDatabase` and the `MetaData`, which are the only relevant data of the currently shown database. A `BibDatabase` has a list of `BibEntries`. Each `BibEntry` has a key, a bibtex key and a key/value store for the fields with their values. Interpreted data \(such as the type or the file field\) is stored in the `TypedBibentry` type. The user can change the `JabRefPreferences` through the `PreferencesDialog`.
		Both GUI and CLI are started via the `JabRefMain` which will in turn call `JabRef` which then decides whether the GUI \(`JabRefFrame`\) or the CLI \(`JabRefCLI` and a lot of code in `JabRef`\) will be started. The `JabRefFrame` represents the Window which contains a `SidePane` on the left used for the fetchers/groups Each tab is a `BasePanel` which has a `SearchBar` at the top, a `MainTable` at the center and a `PreviewPanel` or an `EntryEditor` at the bottom. Any right click on the `MainTable` is handled by the `RightClickMenu`. Each `BasePanel` holds a `BibDatabaseContext` consisting of a `BibDatabase` and the `MetaData`, which are the only relevant data of the currently shown database. A `BibDatabase` has a list of `BibEntries`. Each `BibEntry` has an ID, a citation key and a key/value store for the fields with their values. Interpreted data \(such as the type or the file field\) is stored in the `TypedBibentry` type. The user can change the `JabRefPreferences` through the `PreferencesDialog`.