cmake: do not use -fPIC for MSYS2

The MSYS2 build system automatically compiles all code with position-independent
code. When we manually add the -fPIC flag to the compiler flags, MSYS2 will
loudly complain about PIC being the default and thus not required.

Fix the annoyance by stripping -fPIC in MSYS2 enviroments like it is already
done for MinGW.

Thread namespacing

The old pthread-file did re-implement the pthreads API with exact symbol
matching. As the thread-abstraction has now been split up between Unix- and
Windows-specific files within the `git_` namespace to avoid symbol-clashes
between libgit2 and pthreads, the rewritten wrappers have nothing to do with
pthreads anymore.

Rename the Windows-specific pthread-files to honor this change.

The function pthread_num_processors_np is currently unused and superseded by the
function `git_online_cpus`. Remove the function.

Fix truncation of SHA in error message for git_odb_read

HTTP authentication scheme name is case insensitive.

checkout: use empty baseline when no index file exists

documentation: improve docs for `checkout_head`

When no index file exists and a baseline is not explicitly provided, use
an empty baseline instead of trying to load `HEAD`.

`git_checkout_head` is sadly misunderstood as something that can
switch branches.  It cannot.  Update the documentation to reflect this.

fetch: Fixed spurious update callback for existing tags.

Memory leak fixes

Fix invalid memory references

The thread local storage is used to hold some global state that
is dynamically allocated and should be freed upon exit. On
Windows, we clean up the C run-time right after execution of
registered shutdown callbacks and before cleaning up the TLS.

When we clean up the CRT, we also cause it to analyze for memory
leaks. As we did not free the TLS yet this will lead to false
positives.

Fix the issue by first freeing the TLS and cleaning up the CRT
only afterwards.

When removing an entry from the index by its position, we first
retrieve the position from the index's entries and then try to
remove the retrieved value from the index map with
`DELETE_IN_MAP`. When `index_remove_entry` returns `NULL` we try
to feed it into the `DELETE_IN_MAP` macro, which will
unconditionally call `idxentry_hash` and then happily dereference
the `NULL` entry pointer.

Fix the issue by not passing a `NULL` entry into `DELETE_IN_MAP`.

When we receive a packet of exactly four bytes encoding its
length as those four bytes it can be treated as an empty line.
While it is not really specified how those empty lines should be
treated, we currently ignore them and do not return an error when
trying to parse it but simply advance the data pointer.

Callers invoking `git_pkt_parse_line` are currently not prepared
to handle this case as they do not explicitly check this case.
While they could always reset the passed out-pointer to `NULL`
before calling `git_pkt_parse_line` and determine if the pointer
has been set afterwards, it makes more sense to update
`git_pkt_parse_line` to set the out-pointer to `NULL` itself when
it encounters such an empty packet. Like this it is guaranteed
that there will be no invalid memory references to free'd
pointers.

As such, the issue has been fixed such that `git_pkt_parse_line`
always sets the packet out pointer to `NULL` when an empty packet
has been received and callers check for this condition, skipping
such packets.

`git_index_read_index` fixes

When adding a new entry to an existing index via `git_index_read_index`,
be sure to remove the tree cache entry for that new path.  This will
mark all parent trees as dirty.

Test a rebase (both a merge rebase and an inmemory rebase) with a new
commit that adds files underneath a new subfolder.

Read a tree into an index, write the index, then re-open the index and
ensure that we are treesame to the original.

Update the flags to reset the path_len (to emulate `index_insert`)

Treat index entries with different modes as different, which they
are, at least for the purposes of up-to-date calculations.

Clear any error state upon each iteration.  If one of the iterations
ends (with an error of `GIT_ITEROVER`) we need to reset that error to 0,
lest we stop the whole process prematurely.

Read a tree into an index using `git_index_read_index` (by reading
a tree into a new index, then reading that index into the current
index), then write the index back out, ensuring that our new index
is treesame to the tree that we read.

Preliminary Haiku port

cleanup: unused warning