branch core-updates updated (da69977 -> be9b13f)

[Mark H. Weaver]

mhw pushed a change to branch core-updates
in repository guix.

      from  da69977   gnu: Add search path specifications for 'SSL_CERT_FILE' 
and 'GIT_SSL_CAINFO'.
      adds  5245251   gnu: gdb: Update to 7.9.
      adds  0a5c308   gnu: sharutils: Update to 4.15.
      adds  f6176e7   gnu: gnu-pw-mgr: Update to 1.3.
      adds  e013220   gnu: xfconf: Update to 4.12.0.
      adds  9515b74   Revert "services: xorg: Fix file descriptor leak from 
SLiM/xinitrc."
      adds  649b5e1   gnu: libotr: Update to 4.1.0.
      adds  8d12be1   gnu: Add pyyaml.
      adds  a2fb149   gnu: Add pybedtools.
      adds  d57e6d0   gnu: Add MACS.
      adds  b283679   gnu: xfconf: Re-enable tests.
      adds  240ca4a   gnu: Add Scikit-learn.
      adds  810cff8   gnu: Add CLIPper.
      adds  1385d37   gnu: gtk-xfce-engine: Update to 2.10.0.
      adds  191c710   gnu: Add crossmap.
      adds  1204c51   gnu: Add llvm-3.6.0 and clang-3.6.0.
      adds  16c33bf   services: xorg: Fix file descriptor leak from 
SLiM/xinitrc.
      adds  d6d9f1f   gnu: Remove 'guile-reader-for-guile_1.8'.
      adds  e979e6d   system: Add 'x509-certificates' field, and populate 
/etc/ssl/certs.
      adds  993300f   system: Create a single-file certificate bundle in 
/etc/ssl/certs.
      adds  927ff2c   gnu: Add mpdscribble.
      adds  7e7c6a1   build: ruby: Add gitify phase.
      adds  f3c96d4   build: ruby: Install executables in /bin.
      adds  bda0c13   gnu: Add ruby-hoe.
      adds  58acabc   gnu: mpd: Update to 0.19.9.
      adds  4ac696c   gnu: check: Update version to 0.9.14
      adds  136770c   gnu: Add girara.
      adds  2ecebec   gnu: skribilo: Adapt to recently renamed 'guile-reader' 
variable.
      adds  bbd0ea7   gnu: libuv: Update to 1.4.2.
      adds  92cb152   gnu: Add snakemake.
      adds  538fb23   gnu: Add efl.
      adds  146ee5c   gnu: Add elementary.
      adds  87a37fd   gnu: Add evas-generic-loaders
      adds  cfa0468   gnu: Add emotion-generic-players
      adds  df2b053   gnu: Add terminology.
      adds  32d9109   gnu: libvorbis: Update to 1.3.5
      adds  ad036bd   gnu: vlc: Update to 2.2.0
      adds  2303c82   gnu: enlightenment: Fix typo in adding the module.
      adds  00e6509   gnu: Add rdesktop.
      adds  bd4c47a   Revert "system: Create a single-file certificate bundle 
in /etc/ssl/certs."
      adds  e33eea8   Revert "system: Add 'x509-certificates' field, and 
populate /etc/ssl/certs."
      adds  536c3ee   profiles: Produce a single-file CA certificate bundle.
      adds  78ab074   system: Add /etc/ssl symlink; set needed variables in 
/etc/profile.
      adds  41ce460   gnu: nss-certs: Install only trusted CA certificates.
      adds  c28606b   http-client: Update backport of chunked encoding support 
to Guile 2.0.5.
      adds  776463b   http-client: Monkey-patch 'make-chunked-input-port' on 
Guile <= 2.0.11.
      adds  23c0e74   gnu: git: Install the Bash completion script.
      adds  928d62f   gnu: Add bash-completion.
      adds  221d457   gnu: gtk-xfce-engine: Update to 2.10.1.
      adds  d529b91   gnu: flac: Propagate libogg.
      adds  081cbed   gnu: flac: Update to 1.3.1.
      adds  5713809   gnu: xterm: Update to 315.
       new  be9b13f   Merge branch 'master' into core-updates

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 gnu-system.am                                      |    3 +
 gnu/build/activation.scm                           |   10 +
 gnu/packages/bash.scm                              |   22 ++-
 gnu/packages/bioinformatics.scm                    |  144 ++++++++++++
 gnu/packages/certs.scm                             |   52 +++--
 gnu/packages/check.scm                             |    8 +-
 gnu/packages/compression.scm                       |    6 +-
 gnu/packages/enlightenment.scm                     |  235 ++++++++++++++++++++
 gnu/packages/gdb.scm                               |    5 +-
 gnu/packages/gnu-pw-mgr.scm                        |    5 +-
 gnu/packages/gtk.scm                               |   39 ++++
 gnu/packages/guile.scm                             |   60 ++---
 gnu/packages/libevent.scm                          |    7 +-
 gnu/packages/llvm.scm                              |   31 ++-
 gnu/packages/messaging.scm                         |    8 +-
 gnu/packages/mpd.scm                               |   35 +++-
 .../patches/crossmap-allow-system-pysam.patch      |  121 ++++++++++
 gnu/packages/python.scm                            |  122 ++++++++++
 gnu/packages/rdesktop.scm                          |   59 +++++
 gnu/packages/ruby.scm                              |   29 +++
 gnu/packages/skribilo.scm                          |    2 +-
 gnu/packages/version-control.scm                   |  114 +++++-----
 gnu/packages/video.scm                             |    4 +-
 gnu/packages/xfce.scm                              |   28 ++-
 gnu/packages/xiph.scm                              |   10 +-
 gnu/packages/xorg.scm                              |    4 +-
 gnu/services/xorg.scm                              |    4 +-
 gnu/system.scm                                     |    5 +
 guix/build-system/ruby.scm                         |   32 ++--
 guix/build/ruby-build-system.scm                   |   20 ++-
 guix/http-client.scm                               |   81 ++++----
 guix/profiles.scm                                  |   91 +++++++-
 32 files changed, 1165 insertions(+), 231 deletions(-)
 create mode 100644 gnu/packages/enlightenment.scm
 create mode 100644 gnu/packages/patches/crossmap-allow-system-pysam.patch
 create mode 100644 gnu/packages/rdesktop.scm