This includes a fix in MINA to a CVE.

To support the new PBKDF2 password hashing, the Bouncy Castle provider
needs to be updated to a version that supports PBKDF2 with HMAC SHA265.
The current version doesn't have PBKDF2WithHmacSHA265, and neither does
Java 7, so that under Java 7 it can not be used. This update enables
the new password hashing under Java 7, too.

Currently the tests cannot run as no Redis is available. Needs to be
fixed at some time.

They will need to be called with the classpath and main class now,
instead of simply using the Jar.

Added javax.activation dependency

When GitBlit server did not start properly, is running but couldn't
start the `PluginManager`, then stopping the server via the `--stop`
argument on the command line resulted in a NullpointerException.
Which left the server running. Now this is prevented and the server
will actually shut down.

The (moxie and other) Launcher do not work with Java 9 and later anymore.
It used to dynamically extend the classpath, misusing an internal
interface of the `URLClassLoader`. This is no longer possible since Java 9,
which closed that path and does not offer any way to dynamically extend
the classpath during runtime.

So the choice is between providing one large Jar with everything in it,
providing a Jar that has the Jars in `ext` listed explicitly in its
manifest, and specifying the classpath on the command line where
the `ext` directory can be added and all contained jar files will
be put on the classpath.

The motivation for the Launcher class was to be able to simply drop
new jar files into a directory and they will be picked up at the
application start, without having to specify a classpath. We opt
for solution three here. This way jar files can still be dropped
into the ext directory, albeit the directory needs to be added to
the classpath on the command line. Unfortunately using a wildcard
is not possible in the manifest file. We change the calls in the
script files accordingly. This seems like a good compromise,
since no one will run the application manually typing the whole
commandline anyway.

This also does away with the splash screen, by the way. Again,
doesn't seem like a big loss, as I don't think it was ever shown
for the Authority.

Personally, I am not convinced that it is the best way, because
I don't really think that the use case of dropping whatever jar
files into the `ext` directory is a valid one that happened a lot.

This does not yet fix the client programs, which still use a
Launcher. Maybe for them a all-in-one Jar is a better solution.

Fixes #1262
Fixes #1294

With three versions about to be supported right now
it is getting more important to know which Java version is
used when building and testing Gitblit, and which Java
version is used to run Gitblit.

So have the Moxie build report the javac version, and the
JVM version that Moxie is running on. These might be
different.
The `GitBlitServer` will print the Java version and vendor,
so that it gets visible if a user would paste a log output
for analysis.

Update the dependency to the recommended JAF stand-alone
com.sun.activation:javax.activation:1.2.0

This uses the Trusty (14.04) image since that in the only one
where all three JDKs are available.

Integrate the `PasswordHash` class and subclass in the user
and password editing and authentication. Replaces the old code and
the previous `SecurePasswordHashingUtils` class.

Integrate the work of pingunaut to add support for PBKDF2 password
hashing. A new class `PasswordHashPbkdf2` is added, which builds
on his `SecurePasswordHashUtils` class, but makes it a subclass
of `PasswordHash`. This will replace the original class when
integrating the new PasswordHash way into GitBlit.

Instead of having to deal with the implementation details of hashing
and verifying passwords in multiple places, have a central unit
be responsible for it. Otherwise we need to edit three different places
when adding a new hashing scheme.
With this class adding a new hashing scheme just requires creating a
new subclass of `PasswordHash` and registering its type in the enum
`PasswordHash.Type`.
The rest of the code will use a common interface for all hashing
schemes and doesn't need to be changed when a new one is added.

Move the new property `web.collapsibleRepositoryGroups` into the
`web` section, close to the list type property. Set the default
to be `expanded`, so that the new feature is visible but the list
is still the full list like before.

Add new value `tree` to the description of the property
`web.repositoryListType`.

Remove guard rails at the left to get a cleaner look.
To make it easier to determine which repositories belong to which
folder, display the repositories first, then the subfolder.

Decreased indentation a little.

Fix for #725.
Also covers #527.

This is a squashed commit of the following commits,
merging and closing pull request #1267:

commit 55fee41769
Author: Martin Spielmann <mail@martinspielmann.de>
Date:   Mon Nov 6 17:19:53 2017 +0100

    declared local variable final to fix travis build

commit 131e4d14a4
Author: Martin Spielmann <mail@martinspielmann.de>
Date:   Mon Nov 6 14:11:55 2017 +0100

    fix formatting (use tab for identation)

commit 8da5f6d596
Author: Martin Spielmann <mail@martinspielmann.de>
Date:   Mon Nov 6 13:45:39 2017 +0100

    Add repositoryListType tree. Addresses #725, 527 and includes #1224

commit 6c061651fb
Merge: f365daa3 40ee9653
Author: Martin Spielmann <mail@martinspielmann.de>
Date:   Sat Nov 4 13:19:08 2017 +0100

    Merge remote-tracking branch 'collapsible/ticket/527' into 725_nested_repos

commit f365daa3b1
Author: Martin Spielmann <mail@martinspielmann.de>
Date:   Sat Nov 4 13:10:24 2017 +0100

    first working version of tree model

Updating JaCoCo in commit 23072ffb broke the build of the
HTML documentation. As found out by @chirontt, adding parboiled
as a build dependency fixes it.

Fixes #1220 and closes #1313

Create a regression test for issue #999.
Add directories with '[]' ans '()' in the name to the
hello-world repository, so that they can be used in unit
tests for repository paths with special characters.

When symbolic links under the base repository folder point to repositories
outside the base repository folder, the forming of relative repository
names failed and resulted in NullPointerExceptions.

Create the relative path by not following symbolic links, i.e. the link
name is taken as is and not resolved to the external path.

This also changes the whole `exactPath` method to work on Paths, instead
of Files.

Fixes #891 and fixes #837.

This hello-world.git repo is created using the native Git for Windows
software.

Various test classes in the GitBlitSuite test suite require the presence
of the hello-world.git repo in github.com/git/ which has been missing,
hence causing many test failures in the suite. This recreation of the
hello-world.git repo aims to conform to the many test cases'
requirements in the suite, and to be checked in as part of the gitblit
repo, thus eliminates the requirement of a remote hello-world.git repo
during the test run. The repo is now stored is a zip ball in the new
src/test/data folder.

The hello-world repo's various commit IDs were hard-coded in various
test classes. These commit IDs, which must now have new values in the
recreated repo, are now extracted out to the
src/test/data/hello-world.properties file. The gitblit's build.xml is
modified to generate the HelloworldKeys.java file containing the
hello-world.properties file's key strings, in similar fashion as the
existing generation of the com.gitblit.Keys.java file. And these key
strings in HelloworldKeys.java are now used in the various test classes,
thus eliminating the hard-coding of the hello-world repo's commit IDs in
the test code.

During the test run by GitBlitSuite test suite, some repos from GitHub
were cloned and became part of the test data. These repos are now zipped
to be part of gitblit repo itself, thus eliminating the network fetch at
the start of test run which can be slow, especially with the JGit repo
cloning which is huge and time consuming. The cloned JGit repo is now
zipped and checked in to gitblit, along with the other 4 repos
(hello-world, ambition, gitective and ticgit). They will be unzipped
during the test suite run and be available in the local file system,
thus avoiding the need for some network fetch.

Special note on the zipped JGit repo: this repo is big (and growing all
the time on GitHub), and takes up about 32MB of disk space after cloning
from GitHub. I've made it smaller by resetting HEAD back to a commit of
5 years ago (with git reset --hard <commitId> command), to put it back
to roughly where/when the tests were written for it (which is not quite,
because there are tons of commit history since which can't be removed.)
The local JGit repo is then garbage-collected (with git gc --prune
--aggressive) to reduce its size to about 19MB.

Zipped it is still 17MB. This is a lot of MBs for a few tests.
So the JGit repo is not included in this commit.

Fixes #1275

Most of failures were due to temporary test repos, users and/or teams
being left behind after the test run, and these left-over stuff in
$baseFolder/data/git caused assertion errors in many tests in subsequent
test runs. This fix tries to delete those left-over stuff at the end of
each test, mainly in their @Afterclass code blocks.

PushLogTest.java is deleted as it doesn't work, and has been superseded
with better tests in various protocol test suites (GitServletTest,
GitDaemonTest, SshDaemonTest, etc.)

The new Circle CI requires a completely different configuration.

thanks to this dependency, one can start gitblit with java 9 without using deprecated internal module --add-modules java.activation

Fixes the 30 seconds timeout when cloning over HTTP

server.httpTimeout

setting to allow cloning big repositories over HTTP. This change fixes the java.util.concurrent.TimeoutException issue described in https://groups.google.com/d/topic/gitblit/UvDC48NpmF4/discussion .

1226 sshkey form feedback

Add nullcheck  during favorite protocol determination

This reverts commit 51b9b7f901.

This reverts commit c3e317a288.
Was added by mistake here. Should go into own branch to be able to merge with upstream using separate PR

if key is empty of can not be parsed, form did provide any feedback to
user before

merge upstream master

Bump to Lucene 5.5.2

The new code will create Lucene indices in a new directory named after codec and index version.
This provides for easy and safe up- and downgrades. But it also means that the old indices will
stick around on disk. What this version is missing is a kind of "garbage collection" deleting old, unused
indices when they are no longer needed. That task needs to be done manually currently. We should
at leas at some point provide a script for it.

Check if tickets need to be reindexed when the server starts. This is the
case if no ticket index exists. In that case the ticket index is built.

This is done during the start of the `ITicketService`.

For this the interface of `ITicketService` needed to change. The `start`
method was defined abstract and the specific ticket services had to
implement it. None does any real starting stuff in it.
The `start` method is now final. It calls a new abstract method `onStart`
which the specific ticket services need to implement. In the existing
implementations I just changed `start` to `onStart`.

This reverts commit 662fb9012f.

Change from the index version of a repository index being stored in a config
file to also using index directories with the version in the name. For that,
`LuceneRepoIndexStore` is added, which adds the fixed `lucene` part to the path.
It also gives out the location of the `lucene.conf` file, which is now stored in
the index directory. This way it is automatically deleted when the directory is
deleted.

I believe that it should also provide means to store branch aliases and tips,
i.e. hide the config file completely. But this isn't implemented with this
commit, the `LuceneService` is still aware that a config file is used.