Eclipse JGit: Java implementation of Git 6.10.0

New Features

• Allow applying a patch with conflicts
• DfsPackFile: get commitGraph.readChangePaths from repo config
• [ssh] Implement the "Ciphers" SSH config

Other Improvements

• PackIndex: Make it an interface
• PackIndex: Make iterator static (pass object count in ctor)
• PackIndex: move checksum to the subclasses
• PackIndex: Make #getOffset protected to allow out-of-package subclasses
• PackBitmapIndexBuilder.StoredEntry: add getter for objectId
• PackBitmapIndexBuilder: make StoredEntry constructor public
• PackBitmapIndexBuilder: allow repeated call of getCompressedBitmaps()
• DfsPackFile: Make the loader classes used to construct bitmaps public.
• DfsPackFile: make public the constructor with bitmap loader
• PackWriter: writeBitmapIndex takes bitmap index writer
• PackBitmapIndex: convert from class to interface
• PackBitmapIndex: hide packChecksum behind getter
• PathFilterGroup: implement getPathsBestEffort()
• CommitGraphLoader: receive readChangedPaths as parameter
• DfsBlockCache: move cache table specific implementations to a new class

Performance improvements

• Cache refreshed loose ref dirs in SnapshottingRefDirectory

Bug fixes

• [gpg] Fix finding public keys from pubring.gpg
• Check executable bit of file by reading it from the file system instead of checking if Java can execute it.
• egit-16 FS_POSIX.runInShell(): on MacOS use a login shell
• jgit-14 ResolveMerger: Fix issue with binary modify-modify conflicts
• jgit-27 [gpg] Fix reading ed25519 GPG keys
• jgit-34 [diffmergetool] Fix running command on Cygwin
• jgit-36 CleanupService: preload JGitText if not running in OSGi
• jgit-36 ShutdownHook: run on bundle deactivation if in OSGi
• jgit-38 MergeAlgorithm: Fix diff3 conflict hunk computation
• jgit-53 sshd: fix IdentiesOnly if SSH agent is enabled and has keys
• TreeRevFilter: correct changedPathFilter usage for multi-paths inclusion

Build and Release Engineering

Update build dependencies

• build-helper-maven-plugin to 3.6.0
• cyclonedx-maven-plugin to 2.8.0
• git-commit-id-maven-plugin to 8.0.2
• groovy to 4.0.21
• jacoco-maven-plugin to 0.8.12
• japicmp-maven-plugin to 0.21.2
• maven-artifact-plugin to 3.5.1
• maven-compiler-plugin to 3.13.0
• maven-deploy-plugin to 3.1.2
• maven-install-plugin to 3.1.2
• maven-jar-plugin to 3.4.1
• maven-pmd-plugin to 3.22.0
• maven-shade-plugin to 3.5.3
• maven-site-plugin to 4.0.0-M14
• maven-source-plugin to 3.3.1
• org.eclipse.jdt:ecj to 3.37.0
• spotbugs-maven-plugin to 4.8.5.0
• spring-boot-maven-plugin to 2.7.18
• tycho to 4.0.7 and set minimum maven version to 3.9.0

Update dependencies

• add commons-lang3 as a transitive dependency of commons-compress
• Apache commons-codec to 1.17.0
• Apache commons-io to 2.16.1
• Apache commons-logging to 1.3.2
• args4j to 2.37
• Bouncy Castle to 1.78.1
• com.google.code.gson:gson to 2.11.0
• jetty to 10.0.21
• mina-sshd to 2.12.1
• org.apache.commons:commons-compress to 1.26.2

Update test dependencies

• bytebuddy to 1.14.16
• mockito to 5.12.0
• objenesis to 3.4
• org.assertj:assertj-core to 3.26.0

Update target platforms

• add 4.32 target platform
• add orbit-4.32

Bazel build

•  add support for JDK 21
     To build with JDK 21 and run the tests locally:
       $> bazel test --config=java21 //...
     To build with JDK 21 and run the tests on RBE:
       $> bazel test --config=remote21 --remote_instance_name=$PROJECT //...
• replace deprecated --experimental_strict_action_env option
• update RBE docker image to Ubuntu 22.04 and JDK 17
• update Bazel version to 7.1.1

Fix warnings

• UploadPackHandleDeletedPackFileTest: Fix warning about using raw type
• [errorprone] Fix pattern ModifiedButNotUsed
• [errorprone] Fix pattern CatchAndPrintStackTrace
• [errorprone] Fix pattern FutureReturnValueIgnored
• [errorprone] Fix pattern BadImport
• [errorprone] Fix pattern UseCorrectAssertInTests
• [errorprone] Fix pattern ProtectedMembersInFinalClass
• [errorprone] Fix pattern CatchFail
• [errorprone] Fix pattern see UnusedVariable
• [errorprone] Fix pattern LongLiteralLowerCaseSuffix
• [errorprone] Fix error pattern JdkObsolete
• [errorprone] Fix UnnecessaryParentheses errors

Tests

• Add more tests on rewriting parents in a RevWalk
• DfsGarbageCollectorTest: add test for bitmap index creation

Documentation

• Add pull request template discouraging usage of pull requests
• Update CONTRIBUTING.md to point to GitHub issues