Merge branch 'main' of https://github.com/LIM0000/jabref into fix-for-issue-8189

Author: LIM0000

.gitpod.Dockerfile

@@ -0,0 +1,8 @@
+# See https://www.gitpod.io/docs/java-in-gitpod/ for a full documentation of Java in GitPod
+
+FROM gitpod/workspace-full
+
+# All available versions can be listed using sdk ls java
+# More information about SDKMAN available at https://github.com/sdkman/sdkman-cli#sdkman-cli
+RUN bash -c ". /home/gitpod/.sdkman/bin/sdkman-init.sh \
+             && sdk install java 18.0.1.1-open"

.gitpod.yml

@@ -0,0 +1,16 @@
+image:
+  file: .gitpod.Dockerfile
+tasks:
+  - init: ./gradlew assemble
+jetbrains:
+  intellij:
+    plugins:
+      - CheckStyle-IDEA
+      - zielu.gittoolbox
+vscode:
+  extensions:
+    - redhat.java
+    - richardwillis.vscode-gradle
+    - vscjava.vscode-java-debug
+    - kiteco.kite
+    - DavidAnson.vscode-markdownlint

CHANGELOG.md

@@ -30,6 +30,7 @@ Note that this project **does not** adhere to [Semantic Versioning](http://semve
 - The Medline/Pubmed search now also supports the [default fields and operators for searching](https://docs.jabref.org/collect/import-using-online-bibliographic-database#search-syntax). [forum#3554](https://discourse.jabref.org/t/native-pubmed-search/3354)
 - We improved group expansion arrow that prevent it from activating group when expanding or collapsing. [#7982](https://github.com/JabRef/jabref/issues/7982), [#3176](https://github.com/JabRef/jabref/issues/3176)
 - When configured SSL certificates changed, JabRef warns the user to restart to apply the configuration.
+- We improved the appearances and logic of the "Manage field names & content" dialog, and renamed it to "Automatic field editor". [#6536](https://github.com/JabRef/jabref/issues/6536)
 - We fixed an issue that caused JabRef to sometimes open multiple instances when "Remote Operation" is enabled. [#8653](https://github.com/JabRef/jabref/issues/8653)
 
 ### Fixed

README.md

@@ -71,7 +71,7 @@ An explanation of donation possibilities and usage of donations is available at
 [![OpenHub](https://www.openhub.net/p/jabref/widgets/project_thin_badge.gif)](https://www.openhub.net/p/jabref)
 [![Deployment Status](https://github.com/JabRef/jabref/workflows/Deployment/badge.svg)](https://github.com/JabRef/jabref/actions?query=workflow%3ADeployment)
 [![Test Status](https://github.com/JabRef/jabref/workflows/Tests/badge.svg)](https://github.com/JabRef/jabref/actions?query=workflow%3ATests)
-[![codecov.io](https://codecov.io/github/JabRef/jabref/coverage.svg?branch=master)](https://codecov.io/github/JabRef/jabref?branch=master)
+[![codecov.io](https://codecov.io/github/JabRef/jabref/coverage.svg?branch=master)](https://codecov.io/github/JabRef/jabref?branch=main)
 
 Want to be part of a free and open-source project that tens of thousands of scientists use every day?
 Check out the ways you can contribute, below:

build.gradle

@@ -120,18 +120,18 @@ dependencies {
 
     implementation group: 'org.apache.commons', name: 'commons-csv', version: '1.9.0'
     implementation group: 'org.apache.commons', name: 'commons-lang3', version: '3.12.0'
-    implementation 'com.h2database:h2-mvstore:2.1.212'
+    implementation 'com.h2database:h2-mvstore:2.1.214'
 
-    implementation group: 'org.apache.tika', name: 'tika-core', version: '2.4.0'
+    implementation group: 'org.apache.tika', name: 'tika-core', version: '2.4.1'
     implementation 'com.ibm.icu:icu4j-charset:71.1'
 
     // required for reading write-protected PDFs - see https://github.com/JabRef/jabref/pull/942#issuecomment-209252635
     implementation 'org.bouncycastle:bcprov-jdk18on:1.71'
 
     implementation 'commons-cli:commons-cli:1.5.0'
 
-    implementation 'org.libreoffice:libreoffice:7.3.3'
-    implementation 'org.libreoffice:unoloader:7.3.3'
+    implementation 'org.libreoffice:libreoffice:7.3.4'
+    implementation 'org.libreoffice:unoloader:7.3.4'
 
     implementation 'io.github.java-diff-utils:java-diff-utils:4.11'
     implementation 'info.debatty:java-string-similarity:2.0.0'
@@ -142,7 +142,7 @@ dependencies {
     antlr4 'org.antlr:antlr4:4.9.3'
     implementation 'org.antlr:antlr4-runtime:4.9.3'
 
-    implementation group: 'org.eclipse.jgit', name: 'org.eclipse.jgit', version: '6.1.0.202203080745-r'
+    implementation group: 'org.eclipse.jgit', name: 'org.eclipse.jgit', version: '6.2.0.202206071550-r'
 
     implementation group: 'com.fasterxml.jackson.dataformat', name: 'jackson-dataformat-yaml', version: '2.13.3'
     implementation group: 'com.fasterxml.jackson.datatype', name: 'jackson-datatype-jsr310', version: '2.13.3'

buildSrc/build.gradle

@@ -6,7 +6,7 @@ repositories {
 }
 
 dependencies {
-    implementation 'com.h2database:h2-mvstore:2.1.212'
+    implementation 'com.h2database:h2-mvstore:2.1.214'
     implementation 'org.apache.commons:commons-csv:1.9.0'
     implementation 'org.slf4j:slf4j-api:2.0.0-alpha7'
 }

buildres/linux/jabrefHost.py

@@ -74,7 +74,7 @@ def send_message(message):
 
 def add_jabref_entry(data):
     """Send string via cli as literal to preserve special characters"""
-    cmd = str(JABREF_PATH).split() + ["--importBibtex", r"{}".format(data)]
+    cmd = str(JABREF_PATH).split() + ["--importBibtex", r"'{}'".format(data)]
     logging.info("Try to execute command {}".format(cmd))
     response = subprocess.check_output(cmd, stderr=subprocess.STDOUT)
     logging.info("Called JabRef and got: {}".format(response))

src/main/java/org/jabref/gui/JabRefFrame.java

@@ -67,9 +67,9 @@
 import org.jabref.gui.edit.CopyMoreAction;
 import org.jabref.gui.edit.EditAction;
 import org.jabref.gui.edit.ManageKeywordsAction;
-import org.jabref.gui.edit.MassSetFieldsAction;
 import org.jabref.gui.edit.OpenBrowserAction;
 import org.jabref.gui.edit.ReplaceStringAction;
+import org.jabref.gui.edit.automaticfiededitor.AutomaticFieldEditorAction;
 import org.jabref.gui.entryeditor.OpenEntryEditorAction;
 import org.jabref.gui.entryeditor.PreviewSwitchAction;
 import org.jabref.gui.exporter.ExportCommand;
@@ -750,8 +750,7 @@ private MenuBar createMenu() {
                 new SeparatorMenuItem(),
 
                 factory.createMenuItem(StandardActions.MANAGE_KEYWORDS, new ManageKeywordsAction(stateManager)),
-                factory.createMenuItem(StandardActions.MASS_SET_FIELDS, new MassSetFieldsAction(stateManager, dialogService, undoManager)));
-
+                factory.createMenuItem(StandardActions.AUTOMATIC_FIELD_EDITOR, new AutomaticFieldEditorAction(stateManager, dialogService)));
         SeparatorMenuItem specialFieldsSeparator = new SeparatorMenuItem();
         specialFieldsSeparator.visibleProperty().bind(prefs.getSpecialFieldsPreferences().specialFieldsEnabledProperty());
 

src/main/java/org/jabref/gui/actions/StandardActions.java

@@ -78,6 +78,8 @@ public enum StandardActions implements Action {
     REPLACE_ALL(Localization.lang("Find and replace"), KeyBinding.REPLACE_STRING),
     MANAGE_KEYWORDS(Localization.lang("Manage keywords")),
     MASS_SET_FIELDS(Localization.lang("Manage field names & content")),
+
+    AUTOMATIC_FIELD_EDITOR(Localization.lang("Automatic field editor")),
     TOGGLE_GROUPS(Localization.lang("Groups"), IconTheme.JabRefIcons.TOGGLE_GROUPS, KeyBinding.TOGGLE_GROUPS_INTERFACE),
     TOOGLE_OO(Localization.lang("OpenOffice/LibreOffice"), IconTheme.JabRefIcons.FILE_OPENOFFICE, KeyBinding.OPEN_OPEN_OFFICE_LIBRE_OFFICE_CONNECTION),
     TOGGLE_WEB_SEARCH(Localization.lang("Web search"), Localization.lang("Toggle web search interface"), IconTheme.JabRefIcons.WWW, KeyBinding.WEB_SEARCH),