* UploadPack: Clear advertised ref map after negotiation

* Fix unclosed resource warning in SmartOutputStream
* JschConfigSessionFactory: fix boxing warning
* SshSupport#runSshCommand: don't throw exception in finally block
* Don't override already managed maven-compiler-plugin version
* Remove unused import from CreateFileSnapshotBenchmark
* Remove duplicate ignore_optional_problems entry in .classpath

* Merge branch 'stable-5.1' into stable-5.2

* Upgrade maven-javadoc-plugin to 3.1.1
* Upgrade ecj to 3.18.0
* Upgrade wagon-ssh to 3.3.3

* Merge branch 'stable-5.3' into stable-5.4

* DescribeCommandTest: Trivially fix formatting by removing a blank line
* DescribeCommand: Add a missing dots at the end of docs

* Replace "Checkout" by "Check out" when used as a verb

* Merge branch 'stable-4.5' into stable-4.6

* Remove unnecessary modifiers from interfaces

* Fix typos

* Suppress warning for trying to delete non-empty directory
* Fix fetching with duplicate ref updates

* Handle SSL handshake failures in TransportHttp

* Add toString() methods to OpenSshConfig to help debugging

* Update Oxygen Orbit p2 repository to R20170516192513

* RefLeaseSpec: Fix Eclipse errors

* Fix keep pack filename

* LfsServerTest: Remove unnecessary suppression of 'restriction' warning
* WrappedRequest: Don't use deprecated ServletRequestWrapper#realPath
* Suppress deprecation warnings related to UploadPackLogger
* AppServer: Remove unnecessary 'unused' suppressions
* HttpClientConnection: Don't use deprecated HttpClient classes

* Add support for built-in smudge filters

* Add best-effort variant of File.getCanonicalFile()

* Do not retain commit body during bitmap generation

* Introduce PostUploadHook to replace UploadPackLogger

* Don't invalidate pack file on InterruptedIOException

* FS: Remove the gitprefix logic
* SystemReader: Use discoverGitSystemConfig() in openSystemConfig()
* FS: Add a method to discover the system-wide config file
* FS: Extend readPipe() to optionally take additional environment
* FS: Document readpipe()'s encoding parameter
* Split discoverGitPrefix() code out into discoverGitExe()
* Equalize discoverGitPrefix() implementations between POSIX and Win32
* Move resolveGrandparentFile() to the base class for wider use

* Buffer overflow output stream
* Fix overflow stream leak during merge conflicts
* Use local GIT_DIR for overflow during merge conflicts
* Use try-with-resources and BufferedOutputStream for local merge conflicts
* Optimize EolAwareOutputStream for bulk output

* Handle repo copyfile in bare repositories.
* Handle the revision attribute in repo manifest.
* Handle repo submodules for bare repositories.

* Fix a possible NPE

* Fixed parsing of URI with a IPv6-address

* Use assertEquals instead of == for literal primitives
* Use assertTrue/False instead of equals with boolean literals