This fixes problems with missing function prototypes and 64-bit
data issues on Windows.

Keep data about source of similarity

Diff code reorg plus function context in diff headers

This makes the git_diff_patch definition private to diff_patch.c
and fixes a number of other header file naming inconsistencies to
use `git_` prefixes on functions and structures that are shared
between files.

This changes the size data to uint32_t, fixes the array growth
logic to use a simple 1.5x multiplier, and uses a generic inline
function for growing the array to make the git_array_alloc API
feel more natural (i.e. it returns a pointer to the new item).

This adds two new public APIs: git_diff_patch_from_blobs and
git_diff_patch_from_blob_and_buffer, plus it refactors the code
for git_diff_blobs and git_diff_blob_to_buffer so that they code
is almost entirely shared between these APIs, and adds tests for
the new APIs.

This adds real tests for user-configured diff drivers and in the
process found a bunch of bugs.

Add high(est) config level for application specific config files

Some tools use an extra level to maintain an application specific config files on top of the normal ones. Revision 16adc9fa broke this.

Signed-off-by: Sven Strickroth <email@cs-ware.de>

This implements the loading of regular expression pattern lists
for diff drivers that search for function context in that way.
This also changes the way that diff drivers update options and
interface with xdiff APIs to make them a little more flexible.

signature: extend trimming to more whitespace

There are all sorts of misconfiguration in the wild. We already rely
on the signature constructor to trim SP. Extend the logic to use
`isspace` to decide whether a character should be trimmed.

This is a significant reorganization of the diff code to break it
into a set of more clearly distinct files and to document the new
organization.  Hopefully this will make the diff code easier to
understand and to extend.

This adds a new `git_diff_driver` object that looks of diff driver
information from the attributes and the config so that things like
function content in diff headers can be provided.  The full driver
spec is not implemented in the commit - this is focused on the
reorganization of the code and putting the driver hooks in place.

This also removes a few #includes from src/repository.h that were
overbroad, but as a result required extra #includes in a variety
of places since including src/repository.h no longer results in
pulling in the whole world.

Simplify git_futils_mkdir

There are two places where git_futils_mkdir should exit early or
at least do less.  The first is when using GIT_MKDIR_SKIP_LAST
and having that flag leave no directory left to create; it was
being handled previously, but the behavior was subtle.  Now I put
in a clear explicit check that exits early in that case.

The second is when there is no directory to create, but there is
a valid path that should be verified.  I shifted the logic a bit
so we'll be better about not entering the loop than that happens.

This implements a basic callback to extract function context for
a diff.  It always uses the same search heuristic right now with
no regular expressions or language-specific variants.  Those will
come next, I think.

This routine was (is) pretty complicated, but given the recent
changes, it seemed like it could be simplified a bit.

Ensure git_futils_mkdir won't mkdir root

This makes sure that git_futils_mkdir always skips over the root
directory at a minimum, even on platforms where the root is not
simply '/'.  Also, this removes the GIT_WIN32 ifdef in favor of
making EACCES as a potentially recoverable error on all platforms.

Allow creation of directories under the volume root in Win32

We ran into an issue where cloning a repository to a folder
directly underneath the root of a volume (e.g. 'd:\libgit2')
would fail with an access denied error. This was traced down
to a call to make a directory that is the root (e.g. 'd:') could
return an error indicated access denied instead of an error
indicating the path already exists. This change now handles
the access denied error on Win32 and checks for the existence
of the folder.

Breaking RefDB changes

Don't bail on parsing commits with an invalid timezone

git doesn't do that, and it's not something that's usually
actionable to fix. if you have a git repository with one bad
timezone in the history, it's too late to change it most likely.

Make git_index_read_tree preserve stat cache where possible

Instead of just blowing away the stat cache data when loading a
new tree into the index, this checks if each loaded item has a
corresponding existing item with the same OID and if so, copies
the stat data from the old item to the new one so it will not be
blown away.

Make iterators use GIT_ITEROVER & smart advance

1. internal iterators now return GIT_ITEROVER when you go past the
   last item in the iteration.
2. git_iterator_advance will "advance" to the first item in the
   iteration if it is called immediately after creating the
   iterator, which allows a simpler idiom for basic iteration.
3. if git_iterator_advance encounters an error reading data (e.g.
   a missing tree or an unreadable file), it returns the error
   but also attempts to advance past the invalid data to prevent
   an infinite loop.

Updated all tests and internal usage of iterators to account for
these new behaviors.

improve test for index extension truncation

Added support for setting transport flags (No check SSL cert) to git_clo...