syscalls: Adjust 'clone' to Guile 2.2.

Before that, something like:

  (call-with-container
    (lambda ()
      (match (primitive-fork)
        …)))

would hang in 'primitive-fork' as the child process (the one started in
the container) would try to pthread_join the finalization thread in
'stop_finalization_thread' in libguile, not knowing that this thread is
nonexistent.

* guix/build/syscalls.scm (%set-automatic-finalization-enabled?!): New
procedure.
(without-automatic-finalization): New macro.
(clone): Wrap PROC call in 'without-automatic-finalization'.

zlib: Don't rely on EBADF being ignored by 'fport_close'.

In 2.2, 'fport_close' no longer swallows EBADF and instead raises a
'system-error' for this.  This commit adjusts for 2.2.

* guix/zlib.scm (close-procedure): Remove.
(make-gzip-input-port): Use 'port->fdes' instead of 'fileno'.
Use 'gzclose' instead of 'close-procedure'.
(make-gzip-output-port): Likewise.
* tests/zlib.scm ("compression/decompression pipe"): Don't check whether
PARENT is closed using 'port-closed?'.  Instead, use 'seek' on the
underlying FD and check for EBADF.

maint: Mention guix-patches@gnu.org in 'HACKING'.

Fixes <http://bugs.gnu.org/25899>.

* HACKING: Mention guix-patches@gnu.org.

gnu: mariadb: Update to 10.1.22 [fixes CVE-2017-3302 and CVE-2017-3313].

* gnu/packages/databases.scm (mariadb): Update to 10.1.22.

gnu: python-waf: Update to 1.9.8.

* gnu/packages/python.scm (python-waf, python2-waf): Update to 1.9.8.
[home-page]: Use https.

gnu: direnv: Update to 2.11.3.

* gnu/packages/shellutils.scm (direnv): Update to 2.11.3.

gnu: conky: Update to 1.10.6.

* gnu/packages/conky.scm (conky): Update to 1.10.6.

gnu: obs: Update to 18.0.1.

* gnu/packages/video.scm (obs): Update to 18.0.1.

gnu: youtube-dl: Update to 2017.03.15.

* gnu/packages/video.scm (youtube-dl): Update to 2017.03.15.

gnu: stress-make: Fix description.

* gnu/packages/debug.scm (stress-make)[description]: Fix typo.
Avoid ambiguous use of ‘in order’.

gnu: znc: Update to 1.6.5.

* gnu/packages/messaging.scm (znc): Update to 1.6.5.

gnu: grue-hunter: Correctly install documentation.

* gnu/packages/games.scm (grue-hunter)[arguments]: Install and populate
‘/share/doc/grue-hunter’ as a directory, not a plain file.

gnu: samtools: End installation phases with truth.

* gnu/packages/bioinformatics.scm (samtools, samtools-0.1)[arguments]:
Return #T instead of the undefined results of COPY-FILE or INSTALL-FILE.

gnu: w3m: Update to 0.5.3+git20170102 [security fixes].

See 'NEWS' and 'ChangeLog' in the source distribution for more
information about the security-related bug fixes.

* gnu/packages/w3m.scm (w3m): Update to 0.5.3+git20170102.

Revert "gnu: gitolite: Fix shebangs in hooks."

This change embedded store references in the shebangs of scripts that
were meant to be copied out of the store. Those scripts would break when
the interpreters expected by the shebangs were garbage collected.

<https://debbugs.gnu.org/cgi/bugreport.cgi?bug=25966#28>

This reverts commit d0c16adb190c7244ee3ef1329cba78a015ae5d10.

pack: Add unit test.

* guix/scripts/pack.scm (self-contained-tarball): Add #:tar option.
[build](tar-supports-sort?): New variable.  Use it.
* tests/pack.scm: New file.
* Makefile.am (SCM_TESTS): Add it.

pack: Use maximum compression; use '-n' for gzip.

* guix/scripts/pack.scm (<compressor>)[tar-option]: Remove.
[command]: New field.
(%compressors): Provide complete commands.  Use '-9' or equivalent for
each compressor; use '-n' for gzip.
(self-contained-tarball)[build]: Adjust accordingly.

Revert "gnu: nss: Use 'modify-phases' syntax."

This reverts commit 87f1c7efc18f8996b0b2817a5f7b84eebe2ddf5a.

Revert "gnu: nss, nss-certs: Update to 3.29.3."

Hydra failed to build this version. See discussion at
https://lists.gnu.org/archive/html/guix-devel/2017-03/msg00408.html.

This reverts commit 4f3dcdd99ba13ab3bdbf1e014afcd076cd95fac7.

gnu: Add ocaml-ppx-typerep-conv.

* gnu/packages/ocaml.scm (ocaml-ppx-typerep-conv): New variable.