gnu: gcc-toolchain: Inherit GCC's search path specifications.

Reported by Federico Beffa <beffa@ieee.org>.

* gnu/packages/commencement.scm (gcc-toolchain): Add
  'native-search-paths' and 'search-paths' fields.

guix package: Fix search path lookup when an obsolete version is installed.

Before that, 'guix package --search-paths' would not work if, say,
'foo-0.2' is installed but the distro provides 'foo-0.3'.

* guix/scripts/package.scm (search-path-environment-variables)[manifest-entry->package]:
  Handle the case where 'find-best-packages-by-name' returns '().

daemon: Rename '--disable-store-optimization' to '--disable-deduplication'.

* nix/nix-daemon/guix-daemon.cc (GUIX_OPT_DISABLE_STORE_OPTIMIZATION):
  Rename to...
  (GUIX_OPT_DISABLE_DEDUPLICATION): ... this.  Adjust user accordingly.
  (options): Add "disable-deduplication".  Make
  "disable-store-optimization" a hidden alias.
* doc/guix.texi (Invoking guix-daemon): Adjust to new option name.  Add
  index entry.  Improve description.

daemon: Really enable automatic deduplication by default.

* nix/nix-daemon/guix-daemon.cc (main): Set 'autoStoreOptimise' to
  true.  Add 'printMsg' call.
* tests/derivations.scm ("identical files are deduplicated"): New test.

profiles: Compute transaction effects in a functional way.

* guix/profiles.scm (manifest-transaction-effects): New procedure.
  (manifest-show-transaction): Use it instead of locally computing it.
* tests/profiles.scm (glibc): New variable.
  ("manifest-transaction-effects"): New test.

offload: Ignore EEXIST when registering a .drv as a GC root.

Fixes <http://bugs.gnu.org/18115>.
Reported by Mark H Weaver <mhw@netris.org>.

* guix/scripts/offload.scm (register-gc-root)[script]: Wrap 'symlink'
  call in "catch 'system-error", and ignore EEXIST errors.

offload: Ignore unreachable machines.

Fixes <http://bugs.gnu.org/18070>.
Reported by Andreas Enge <andreas@enge.fr>.

* guix/scripts/offload.scm (remote-pipe): Augment docstring.
  (machine-load): Return +inf.0 instead of 1 if MACHINE does not respond
  or responds badly.

gnu: Add nss-mdns.

* gnu/packages/avahi.scm (nss-mdns): New variable.

doc: %final-inputs is now in (gnu packages commencement).

* doc/guix.texi (Bootstrapping): Adjust the text to reflect that
  '%final-inputs' is now in (gnu packages commencement).

hydra: Adjust to (gnu packages commencement) split from (gnu packages base).

* build-aux/hydra/gnu-system.scm: Import (gnu packages commencement).

gnu: Add perl-archive-zip.

* gnu/packages/perl.scm (perl-archive-zip): New variable.

gnu: Add bison-2.7

* gnu/packages/bison.scm (bison-2.7): New variable.
  Bison 3.x and 2.x are incompatible.  Some programs require 2.x

gnu: libwebsockets: Update to 1.3.

* gnu/packages/web.scm (libwebsockets): Update to 1.3.  Switch to
  CMAKE-BUILD-SYSTEM.  Remove #:phases parameter and add #:tests?.
  Remove AUTOCONF, AUTOMAKE, and LIBTOOL from 'native-inputs'.

gnu: Add Guile-Charting.

* gnu/packages/guile.scm (guile-charting): New variable.

gnu: guile-cairo: Propagate Cairo.

* gnu/packages/gtk.scm (guile-cairo): Move CAIRO to 'propagated-inputs'.

gnu: Split (gnu packages base), adding (gnu packages commencement).

* gnu/packages/base.scm (gnu-make-boot0, diffutils-boot0,
  findutils-boot0, %boot0-inputs, nix-system->gnu-triplet, boot-triplet,
  binutils-boot0, gcc-boot0, perl-boot0, linux-libre-headers-boot0,
  texinfo-boot0, %boot1-inputs, glibc-final-with-bootstrap-bash,
  cross-gcc-wrapper, static-bash-for-glibc, glibc-final,
  gcc-boot0-wrapped, %boot2-inputs, binutils-final, libstdc++,
  gcc-final, ld-wrapper-boot3, %boot3-inputs, bash-final, %boot4-inputs,
  guile-final, gnu-make-final, ld-wrapper, coreutils-final, grep-final,
  %boot5-inputs, %final-inputs, canonical-package, gcc-toolchain,
  gcc-toolchain-4.8, gcc-toolchain-4.9): Move to...
* gnu/packages/commencement.scm: ... here.  New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Add it.
* build-aux/check-final-inputs-self-contained.scm: Adjust accordingly.
* gnu/packages/cross-base.scm: Likewise.
* gnu/packages/make-bootstrap.scm: Likewise.
* guix/build-system/cmake.scm (cmake-build): Likewise.
* guix/build-system/gnu.scm (standard-packages, gnu-build,
  gnu-cross-build): Likewise.
* guix/build-system/perl.scm (perl-build): Likewise.
* guix/build-system/python.scm (python-build): Likewise.
* guix/build-system/trivial.scm (guile-for-build): Likewise.
* guix/download.scm (url-fetch): Likewise.
* guix/gexp.scm (default-guile): Likewise.
* guix/git-download.scm (git-fetch): Likewise.
* guix/monads.scm (run-with-store): Likewise.
* guix/packages.scm (default-guile): Likewise.
* guix/scripts/package.scm (guix-package): Likewise.
* guix/scripts/refresh.scm: Likewise.
* guix/svn-download.scm (svn-fetch): Likewise.
* tests/builders.scm (%bootstrap-inputs, %bootstrap-search-paths):
  Likewise.
* tests/packages.scm ("GNU Make, bootstrap"): Likewise.
* tests/guix-package.sh: Likewise.
* gnu/services/base.scm: Use 'canonical-package' instead of xxx-final.
* gnu/services/xorg.scm: Likewise.
* gnu/system/vm.scm: Likewise.
* guix/scripts/pull.scm (guix-pull): Likewise.

linux-initrd: Wait a bit longer for partitions to appear.

Reported by Sveltana on #guix.

* guix/build/linux-initrd.scm (canonicalize-device-spec): Increase
  MAX-TRIALS.  Add "waiting for partition" 'format' call.

profiles: Add gzip to $PATH before invoking 'install-info'.

* guix/profiles.scm (info-dir-file)[gzip]: New variable.
  [build]: Add 'setenv' call.

build-system/perl: Add handling of flags for parallel build and testing.

* guix/build-system/perl.scm (perl-build): Add support for variables
    parallel-build? and parallel-tests?.
* guix/build-system/gnu.scm (gnu-build): Add a line break for clarity.

gnu: Add unclutter.

* gnu/packages/unclutter.scm: New file.
* gnu-system.am (GNU_SYSTEM_MODULES): Add it.