Merge remote-tracking branch 'upstream/main'

* upstream/main: (54 commits)
  Split relativizeSymlinks parameterized tests in separate tests (#13782)
  Update the search syntax highlight for web search (#13801)
  Chore(deps): Bump ai.djl:bom from 0.33.0 to 0.34.0 in /versions (#13833)
  Fix typos in CHANGELOG.md (#13826)
  Chore(deps): Bump com.konghq:unirest-modules-gson in /versions (#13831)
  Chore(deps): Bump org.gradlex:extra-java-module-info in /build-logic (#13830)
  Chore(deps): Bump org.apache.logging.log4j:log4j-to-slf4j in /versions (#13832)
  Chore(deps): Bump io.zonky.test.postgres:embedded-postgres-binaries-bom (#13834)
  Chore(deps): Bump jablib/src/main/resources/csl-locales (#13829)
  Chore(deps): Bump jablib/src/main/resources/csl-styles (#13827)
  Chore(deps): Bump jablib/src/main/abbrv.jabref.org (#13828)
  add: CAYW endpoint formats (#13785)
  New Crowdin updates (#13823)
  chore(deps): update dependency org.kohsuke:github-api to v2.0-rc.5 (#13822)
  Add support for automatic ICORE conference ranking lookup [#13476] (#13699)
  New Crowdin updates (#13820)
  Initialize search bar auto-completion with real database context (no tab switch needed) (#13816)
  Fixes #13274: Allow cygwin-paths on Windows (#13297)
  Refine "REDACTED" replacement of API key value in web fetcher search URL (#13814)
  changed ISSNCleanup into NormalizeIssn, refactored respective tests #13748 (#13767)
  ...

Author: Siedlerchr

.github/workflows/tests-code.yml

@@ -483,6 +483,8 @@ jobs:
         with:
           files: |
             jablib/src/main/java/**/*.java
+          files_ignore: |
+            jablib/src/main/java/**/*-*.java
 
       - name: Build ${{ matrix.launcher }} launcher including changed classes
         shell: bash

.jbang/CheckoutPR.java

@@ -20,7 +20,7 @@
 //JAVA 21+
 //RUNTIME_OPTIONS --enable-native-access=ALL-UNNAMED
 
-//DEPS org.kohsuke:github-api:2.0-rc.4
+//DEPS org.kohsuke:github-api:2.0-rc.5
 //DEPS org.eclipse.jgit:org.eclipse.jgit.pgm:7.3.0.202506031305-r
 
 public class CheckoutPR {

.jbang/JabKitLauncher.java

@@ -5,6 +5,7 @@
 //JAVA 24
 //RUNTIME_OPTIONS --enable-native-access=ALL-UNNAMED
 
+//SOURCES ../jabkit/src/main/java/org/jabref/cli/converter/CygWinPathConverter.java
 //SOURCES ../jabkit/src/main/java/org/jabref/cli/ArgumentProcessor.java
 //SOURCES ../jabkit/src/main/java/org/jabref/cli/CheckConsistency.java
 //SOURCES ../jabkit/src/main/java/org/jabref/cli/CheckIntegrity.java

.jbang/JabSrvLauncher.java

@@ -19,6 +19,10 @@
 //SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/CAYWQueryParams.java
 //SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/CAYWResource.java
 //SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/BibLatexFormatter.java
+//SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/NatbibFormatter.java
+//SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/MMDFormatter.java
+//SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/PandocFormatter.java
+//SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/TypstFormatter.java
 //SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/CAYWFormatter.java
 //SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/FormatterService.java
 //SOURCES ../jabsrv/src/main/java/org/jabref/http/server/cayw/format/SimpleJsonFormatter.java
@@ -65,7 +69,7 @@
 //DEPS info.picocli:picocli:4.7.7
 //DEPS org.postgresql:postgresql:42.7.7
 //DEPS org.bouncycastle:bcprov-jdk18on:1.81
-//DEPS com.konghq:unirest-modules-gson:4.5.0
+//DEPS com.konghq:unirest-modules-gson:4.5.1
 //DEPS jakarta.ws.rs:jakarta.ws.rs-api:4.0.0
 //DEPS org.glassfish.jersey.core:jersey-server:3.1.11
 //DEPS org.glassfish.jersey.inject:jersey-hk2:3.1.11
@@ -77,7 +81,7 @@
 //DEPS org.glassfish.grizzly:grizzly-framework:4.0.2
 //DEPS jakarta.validation:jakarta.validation-api:3.1.1
 //DEPS org.hibernate.validator:hibernate-validator:9.0.1.Final
-//DEPS com.konghq:unirest-modules-gson:4.5.0
+//DEPS com.konghq:unirest-modules-gson:4.5.1
 //DEPS com.google.guava:guava:33.4.8-jre
 //DEPS org.jabref:afterburner.fx:2.0.0
 //DEPS net.harawata:appdirs:1.4.0

CHANGELOG.md

@@ -11,6 +11,8 @@ Note that this project **does not** adhere to [Semantic Versioning](https://semv
 
 ### Added
 
+- We added support for Cygwin-file paths on a Windows Operating System. [#13274](https://github.com/JabRef/jabref/issues/13274)
+- We fixed an issue where "Print preview" would throw a `NullPointerException` if no printers were available. [#13708](https://github.com/JabRef/jabref/issues/13708)
 - We added the option to enable the language server in the preferences. [#13697](https://github.com/JabRef/jabref/pull/13697)
 - We introduced an option in Preferences under (under Linked files -> Linked file name conventions) to automatically rename linked files when an entry data changes. [#11316](https://github.com/JabRef/jabref/issues/11316)
 - We added tooltips (on hover) for 'Library-specific file directory', 'User-specific file directory' and 'LaTeX file directory' fields of the library properties window. [#12269](https://github.com/JabRef/jabref/issues/12269)
@@ -27,15 +29,19 @@ Note that this project **does not** adhere to [Semantic Versioning](https://semv
 - We added a new ID based fetcher for [EuropePMC](https://europepmc.org/). [#13389](https://github.com/JabRef/jabref/pull/13389)
 - We added quick settings for welcome tab. [#12664](https://github.com/JabRef/jabref/issues/12664)
 - We added an initial [cite as you write](https://retorque.re/zotero-better-bibtex/citing/cayw/) endpoint. [#13187](https://github.com/JabRef/jabref/issues/13187)
+- We added pagination support for the web search entries dialog, improving navigation for large search results. [#5507](https://github.com/JabRef/jabref/issues/5507)
 - We added "copy preview as markdown" feature. [#12552](https://github.com/JabRef/jabref/issues/12552)
 - In case no citation relation information can be fetched, we show the data providers reason. [#13549](https://github.com/JabRef/jabref/pull/13549)
 - When relativizing file names, symlinks are now taken into account. [#12995](https://github.com/JabRef/jabref/issues/12995)
 - We added a new button for shortening the DOI near the DOI field in the general tab when viewing an entry. [#13639](https://github.com/JabRef/jabref/issues/13639)
 - We added support for finding CSL-Styles based on their short title (e.g. apa instead of "american psychological association"). [#13728](https://github.com/JabRef/jabref/pull/13728)
+- We added a field for the latest ICORE conference ranking lookup on the General Tab. [#13476](https://github.com/JabRef/jabref/issues/13476)
 - We added BibLaTeX datamodel validation support in order to improve error message quality in entries' fields validation. [#13318](https://github.com/JabRef/jabref/issues/13318)
+- We added more supported formats of CAYW endpoint of HTTP server. [#13578](https://github.com/JabRef/jabref/issues/13578)
 
 ### Changed
 
+- We changed `ISSNCleanup` into `NormalizeIssn` a `ISSN` formatter. [#13748](https://github.com/JabRef/jabref/issues/13748)
 - We changed Citation Relations tab and gave tab panes more descriptive titles and tooltips. [#13619](https://github.com/JabRef/jabref/issues/13619)
 - We changed the name from Open AI Provider to Open AI (or API compatible). [#13585](https://github.com/JabRef/jabref/issues/13585)
 - We improved the citations relations caching by implementing an offline storage. [#11189](https://github.com/JabRef/jabref/issues/11189)
@@ -81,7 +87,10 @@ Note that this project **does not** adhere to [Semantic Versioning](https://semv
 - We introduced walkthrough functionality [#12664](https://github.com/JabRef/jabref/issues/12664)
 - The Welcome tab now has a responsive layout. [#12664](https://github.com/JabRef/jabref/issues/12664)
 - We introduced a donation prompt in the Welcome tab. [#12664](https://github.com/JabRef/jabref/issues/12664)
-- We changed to syntax for the websearch to the one of the main search bar. [#13607](https://github.com/JabRef/jabref/issues/13607)
+- We changed the syntax for the web search to the one of the main search bar. [#13607](https://github.com/JabRef/jabref/issues/13607)
+- We improved nested scrolling for the web search tab in the preferences dialog [#13791](https://github.com/JabRef/jabref/pull/13791)
+- We improved the event viewer for debugging [#13783](https://github.com/JabRef/jabref/pull/13783).
+- We improved "REDACTED" replacement of API key value in web fetcher search URL [#13796](https://github.com/JabRef/jabref/issues/13796)
 
 ### Fixed
 
@@ -110,11 +119,16 @@ Note that this project **does not** adhere to [Semantic Versioning](https://semv
 - We fixed an issue showing an empty tooltip in maintable. [#11681](https://github.com/JabRef/jabref/issues/11681)
 - We fixed an issue displaying a warning if a file to open is not found. [#13430](https://github.com/JabRef/jabref/pull/13430)
 - We fixed an issue where Document Viewer showed technical exceptions when opening entries with non-PDF files. [#13198](https://github.com/JabRef/jabref/issues/13198)
+- We fixed an issue with double display of the library filename in the tab tooltip in the case of a changed library. [#13781](https://github.com/JabRef/jabref/pull/13781)
 - When creating a library, if you drag a PDF file containing only a single column, the dialog will now automatically close. [#13262](https://github.com/JabRef/jabref/issues/13262)
-- We fixed an issue where the tab showing the fulltext search results would appear blank after switching library. [#13241](https://github.com/JabRef/jabref/issues/13241)
+- We fixed an issue where the tab showing the fulltext search results would appear blank after switching libraries. [#13241](https://github.com/JabRef/jabref/issues/13241)
 - We fixed an issue where "Copy to" was enabled even if no other library was opened. [#13280](https://github.com/JabRef/jabref/pull/13280)
 - We fixed an issue where the groups were still displayed after closing all libraries. [#13382](https://github.com/JabRef/jabref/issues/13382)
 - Enhanced field selection logic in the Merge Entries dialog when fetching from DOI to prefer valid years and entry types. [#12549](https://github.com/JabRef/jabref/issues/12549)
+- We improved consistency in the Add Buttons. [#13791](https://github.com/JabRef/jabref/pull/13791)
+- We fixed an issue where theme or font size are not respected for all dialogs [#13558](https://github.com/JabRef/jabref/issues/13558)
+- We removed unnecessary spacing and margin in the AutomaticFieldEditor. [#13792](https://github.com/JabRef/jabref/pull/13792)
+- We fixed an issue where global search auto-completion only worked after switching tabs. [#11428](https://github.com/JabRef/jabref/issues/11428)
 
 ### Removed
 

build-logic/build.gradle.kts

@@ -10,9 +10,9 @@ repositories {
 
 dependencies {
     implementation("com.adarshr:gradle-test-logger-plugin:4.0.0")
-    implementation("com.autonomousapps:dependency-analysis-gradle-plugin:3.0.0")
+    implementation("com.autonomousapps:dependency-analysis-gradle-plugin:3.0.1")
     implementation("com.github.andygoossens:gradle-modernizer-plugin:1.11.0")
-    implementation("org.gradlex:extra-java-module-info:1.13")
+    implementation("org.gradlex:extra-java-module-info:1.13.1")
     implementation("org.gradlex:java-module-dependencies:1.9.2")
     implementation("org.gradlex:java-module-packaging:1.1") // required for platform-specific packaging of JavaFX dependencies
     implementation("org.gradlex:java-module-testing:1.7")

build.gradle.kts

@@ -1,15 +1,15 @@
 plugins {
     id("org.jabref.gradle.base.repositories")
     id("org.jabref.gradle.feature.compile") // for openrewrite
-    id("org.openrewrite.rewrite") version "7.14.1"
+    id("org.openrewrite.rewrite") version "7.15.0"
     id("org.itsallcode.openfasttrace") version "3.1.0"
 }
 
 // OpenRewrite should rewrite all sources
 // This is the behavior when applied in the root project (https://docs.openrewrite.org/reference/gradle-plugin-configuration#multi-module-gradle-projects)
 
 dependencies {
-    rewrite(platform("org.openrewrite.recipe:rewrite-recipe-bom:3.13.0"))
+    rewrite(platform("org.openrewrite.recipe:rewrite-recipe-bom:3.14.0"))
     rewrite("org.openrewrite.recipe:rewrite-static-analysis")
     rewrite("org.openrewrite.recipe:rewrite-logging-frameworks")
     rewrite("org.openrewrite.recipe:rewrite-testing-frameworks")