* Keep submodules in index that are missing in working directory

* Export all packages from org.eclipse.jgit.pgm

* EolCanonicalizingInputStream: binary detection should be optional

* Fix rebase > continue when nothing left to commit.

* Revert non-sense logic in IO.readFully

* Use readString() to trim trailing LF from first line

* Try to send HTTP error messages over sideband
* Extract the capability parsing logic in {Upload,Receive}Pack
* Make capability strings in BasePack{Fetch,Push}Connection public
* Fix a typo in "capabilities" in ReceivePack

* Remove ambiguous CheckoutConflictException

* Check connection's error stream before reading from it

* Ignore /target

* Reuse Git object created in setUp

* Set person and message on stash ref update

* Return command from StashCreateCommand setters

* Support insteadOf and pushInsteadOf URL replacement

* Quickfix for AutoCRLF handling

* RawText#getEOL() does the same thing as RawText#getLineDelimiter()

* Update example code for obtaining a locked DirCache

* Add ApplyCommand to JGit API

* Remove null access warning in DirCacheCheckout

* Include eclipse.inf

* Allow to get end-of-line characters for a RawText

* Load .gitmodules config before adding values to it

* Exclude org.eclipse.jgit from pack200 packing

* Reuse existing modes and ids

* Fix a typo referring to RevFilter as RefFilter
* Execute ReceiveCommands via a method rather than in ReceivePack
* Modify refs in UploadPack/ReceivePack using a hook interface
* Remove PreUploadHook.onPreAdvertiseRefs
* Add an AdvertiseRefsHookChain, similar to the other hook chains
* Allow creating ReceiveCommands with a specified type
* Expose an OutputStream from ReceivePack for sending client messages
* Minor javadoc wording fixes in ReceivePack
* Extract filterCommands as a static method on ReceiveCommand

* Add command support for applying a stashed commit

* Add support for creating a stashed commit

* Add all paths option to CheckoutCommand

* Let the date formatter pick the locale.

* Add support for autosetuprebase to the CloneCommand

* Add IGNORE_ERRORS to FileUtils.delete()

* Prepare 2.0.0-SNAPSHOT builds

* Merge branch 'stable-1.3'

* Prepare post 1.3.0.201202151440-r build

* JGit 1.3.0.201202151440-r

* Generate conflicts and index updates on file mode changes

* Merge branch 'stable-1.3'

* Prepare post 1.3.0.201202121842-rc4 builds

* JGit 1.3.0.201202121842-rc4

* Support gitdir references in working tree .git file

* Support committing submodule updates

* Add getters for old and new prefixes in DiffFormatter

* Update iplog tool's README

* Add developers section to root POM file

* Allow to list tags with org.eclipse.jgit.pgm.Tag

* Move writeTrashFile and deleteFile into JGitTestUtil

* Add scm section to root POM file

* Really close output stream when core.autocrlf is true

* Workaround incompatible refactoring in Jetty 7.6.0

* Add command support for listing stashed commits