Fixes <http://bugs.gnu.org/15756>.

* guix/profiles.scm (<manifest-pattern>): New record type.
  (remove-manifest-entry): Remove.
  (entry-predicate, manifest-matching-entries): New procedures.
  (manifest-remove): Accept a list of <manifest-pattern>.
  (manifest-installed?): Replace 'name' parameter by 'pattern', a
  <manifest-pattern>.
* guix/scripts/package.scm (options->removable): Return a list of
  <manifest-pattern>.
  (guix-package)[process-action]: Use 'manifest-matching-entries' to
  compute the list of packages to remove.
* tests/profiles.scm: New file.
* Makefile.am (SCM_TESTS): Add it.

* guix/scripts/package.scm (show-what-to-remove/install): New procedure,
  moved from...
  (guix-package): ... here.
  (<manifest>, make-manifest, <manifest-entry>,
  profile-manifest, manifest->sexp, sexp->manifest, read-manifest,
  write-manifest, remove-manifest-entry, manifest-remove,
  manifest-installed?, manifest=?, profile-regexp, generation-numbers,
  previous-generation-number, profile-derivation, generation-number,
  generation-file-name, generation-time, lower-input): Move to...
* guix/profiles.scm: ... here.  New file.
* Makefile.am (MODULES): Add it.

* Makefile.am (clean-go): New phony target.

* build-aux/sync-synopses.scm: Rename to...
* build-aux/sync-descriptions.scm: ... this.  Compare the value of
  'gnu-package-doc-description' and 'package-description' and report any
  mismatch.
* Makefile.am (EXTRA_DIST): Adjust accordingly.
  (sync-synopses): Rename to...
  (sync-descriptions): ... this.

* guix/monads.scm: New file.
* tests/monads.scm: New file.
* Makefile.am (MODULES): Add guix/monads.scm.
  (SCM_TESTS): Add tests/monads.scm.
* doc/guix.texi (The Store Monad): New node.
  (The Store): Reference it.

* nix/guix-register/guix-register.cc, tests/guix-register.sh: New
  files.
* Makefile.am (SH_TESTS)[BUILD_DAEMON]: Add tests/guix-register.sh.
* daemon.am (sbin_PROGRAMS, guix_register_SOURCES,
  guix_register_CPPFLAGS, guix_register_LDADD): New variables.
* test-env.in: Export 'storedir', 'prefix', 'datarootdir', 'datadir',
  and 'localstatedir'.

This undoes commit 575ed8d5 ("doc: Create own Makefile.am in subdirectory."),
and fixes a bug whereby "make pdf" or "make ps" wouldn't do anything.

* doc/Makefile.am: Remove.
* doc.am: New file.  Use `-local' rules to build the image.
* Makefile.am: Include it.
* configure.ac: Use `-Woverride' to avoid undesired overridding of
  Automake rules.

* gnu/packages/linux-initrd.scm (qemu-initrd): Add #:modules argument.
  Factorize and move some of the code to...
* guix/build/linux-initrd.scm: ... here.  New file.
* Makefile.am (MODULES): Add it.

* doc/Makefile.am: New file.
* Makefile.am: Reference subdirectory doc.

* build-aux/hydra/guix.scm: New file.
* Makefile.am (EXTRA_DIST): Add it.

* guix/build/gnu-dist.scm: New file.
* Makefile.am (MODULES): Add it.
* guix/build-system/gnu.scm (%default-modules): New variable.
  (gnu-build): Use it.
  (dist-package): New procedure.

* srfi/srfi-37.scm.in: New file, taken from Guile 2.0.9.
* m4/guix.m4: New macro.
* configure.ac: Use it.  Define Automake conditional `INSTALL_SRFI_37'.
* Makefile.am (nobase_nodist_guilemodule_DATA)[INSTALL_SRFI_37]: Add
  srfi/srfi-37.scm.
  (GOBJECTS)[INSTALL_SRFI_37]: Add srfi/srfi-37.go.
  (srfi/srfi-37.scm)[INSTALL_SRFI_37]: New target.
  (EXTRA_DIST): Add srfi/srfi-37.scm.in.

* build-aux/check-available-binaries.scm: New file.
* Makefile.am (EXTRA_DIST): Add it.
  (distcheck-hook, assert-binaries-available): New target.

* guix/web.scm: Rename to...
* guix/http-client.scm: ... this.
* guix/gnu-maintenance.scm, guix/scripts/substitute-binary.scm,
  Makefile.am, po/POTFILES.in: Update accordingly.

* build-aux/list-packages.scm: New file.
* Makefile.am (EXTRA_DIST): Add it.

* doc/guix.texi (Package Modules): New node, with material formerly
  under "GNU Distribution".
  (Bootstrapping): New node.
* Makefile.am (EXTRA_DIST): Add doc/images/bootstrap-graph.dot and
  doc/images/bootstrap-graph.eps.
  (infoimagedir, dist_infoimage_DATA, DOT_OPTIONS): New variable.
  (.dot.png, .dot.eps, doc/guix.pdf, doc/guix.info, doc/guix.ps): New
  targets.
* doc/images/bootstrap-graph.dot: New file.

* guix/hash.scm (GCRY_MD_SHA256): New macro.
  (sha256): Use it.
  (open-sha256-md, md-write, md-read, md-close, open-sha256-port,
  port-sha256): New procedures.
* tests/hash.scm: New file.
* Makefile.am (SCM_TESTS): Add it.

* guix/utils.scm (sha256): Move to...
* guix/hash.scm: ... here.  New file.
* Makefile.am (MODULES): Add it.
* guix/derivations.scm, guix/scripts/download.scm,
  guix/scripts/hash.scm, guix/scripts/refresh.scm, tests/base32.scm,
  tests/derivations.scm, tests/store.scm: Use (guix hash).

* guix/build/gnu-build-system.scm (set-paths): Add `native-inputs' and
  `native-search-paths' keyword parameters.  Honor them.
  (configure): Add `target' and `native-inputs' keyword parameters.
  Look for Bash in NATIVE-INPUTS or INPUTS.  Pass `--host' when TARGET
  is true.
  (strip): Add `strip-command' keyword parameter.  Use it.
* guix/build/gnu-cross-build.scm: Remove.
* Makefile.am (MODULES): Adjust accordingly.
* gnu/packages/acl.scm, gnu/packages/attr.scm, gnu/packages/base.scm,
  gnu/packages/bash.scm, gnu/packages/gawk.scm,
  gnu/packages/gettext.scm, gnu/packages/guile.scm,
  gnu/packages/libffi.scm, gnu/packages/libsigsegv.scm,
  gnu/packages/linux.scm, gnu/packages/ncurses.scm,
  gnu/packages/readline.scm, guix/build-system/gnu.scm: Replace
  `%standard-cross-phases' by `%standard-phases'.  Remove references
  to (guix build gnu-cross-build).

* hydra.scm: Rename to...
* build-aux/hydra/gnu-system.scm: ... this.
* Makefile.am (EXTRA_DIST): Adjust accordingly.

* Makefile.am (MODULES): Move gnu/* to gnu-system.am.
  (patchdir, dist_patch_DATA, bootstrapdir,
  bootstrap_x86_64_linuxdir, bootstrap_i686_linuxdir,
  dist_bootstrap_x86_64_linux_DATA, dist_bootstrap_i686_linux_DATA,
  nodist_bootstrap_x86_64_linux_DATA, nodist_bootstrap_i686_linux_DATA,
  install-data-hook, DISTCLEANFILES, DOWNLOAD_FILE,
  gnu/packages/bootstrap/x86_64-linux/guile-2.0.7.tar.xz,
  gnu/packages/bootstrap/i686-linux/guile-2.0.7.tar.xz): Move to...
* gnu-system.am: ... here.  New file.

* gnu/packages/imagemagick.scm: New file.
* Makefile.am (MODULES): Add it.
* guix/download.scm (%mirrors): Add `imagemagick' entry.

* gnu/packages/subversion.scm: Remove file.
* gnu/packages/version-control.scm (subversion): New variable.
* Makefile.am (MODULES): remove subversion.scm.

* Makefile.am (MODULES): Remove git.scm.

* gnu/packages/graphviz.scm: New file.
* Makefile.am (MODULES): Add it.

* gnu/packages/gd.scm: New file.
* Makefile.am (MODULES): Add it.

* gnu/packages/gtk.scm (cairo): New variable.

* gnu/packages/gcal.scm: New file.
* Makefile.am (MODULES): Add it.

* gnu/packages/glib.scm (glib): Update to 2.37.1.  Add Bash and tzdata
  as inputs.  Remove `glib-tests-timezone.patch'.  Augment `pre-build'
  phase to set `TZDIR', `XDG_CACHE_HOME', and to modify makefiles to
  honor $(TESTS_ENVIRONMENT).
* gnu/packages/patches/glib-tests-desktop.patch,
  gnu/packages/patches/glib-tests-homedir.patch: Update.
* gnu/packages/patches/glib-tests-timezone.patch: Remove.
* Makefile.am (dist_patch_DATA): Update accordingly.

* gnu/packages/wordnet.scm: New file.
* Makefile.am (MODULES): Add it.

* gnu/packages/grue-hunter.scm: New file.
* Makefile.am (MODULES): Add it.

* gnu/packages/xlockmore.scm: New file.
* Makefile.am (MODULES): Add it.

* guix/build-system/gnu.scm (inputs-search-paths): New procedure.
  (standard-search-paths): Use it.
  (expand-inputs): New procedure.
  (standard-inputs): Use it.
  (standard-cross-packages, standard-cross-inputs,
  standard-cross-search-paths, gnu-cross-build): New procedures.
  (gnu-build-system): Set `cross-build' field to `gnu-cross-build'.
* gnu/packages/cross-base.scm: Export `cross-gcc', `cross-binutils', and
  `cross-libc'.
* guix/build/gnu-cross-build.scm: New file.
* Makefile.am (MODULES): Add it.

* gnu/packages/unrtf.scm: New file.
* Makefile.am (MODULES): Add it.

* gnu/packages/plotutils.scm: New file.
* Makefile.am (MODULES): Add it.

* Makefile.am (assert-no-store-file-names): New target.
  (dist-hook): Depend on it.

* Makefile.am (sync-synopses): New rule, formerly `dist-hook.
  (gen-ChangeLog): New rule.
  (dist-hook): Depend on these two targets.

* guix/utils.scm (define-record-type*): Move to...
* guix/records.scm: ... here.  New file.
* guix/build-system.scm, guix/packages.scm: Use it.
* guix/gnu-maintenance.scm: Likewise.
  (official-gnu-packages)[alist->record]: Remove.
* guix/scripts/substitute-binary.scm: Likewise.
  (alist->record, object->fields): Remove.
* tests/utils.scm ("define-record-type*", "define-record-type* with
  letrec* behavior", "define-record-type* & inherit",
  "define-record-type* & inherit & letrec* behavior",
  "define-record-type* & thunked", "define-record-type* & thunked &
  default", "define-record-type* & thunked & inherited"): Move to...
* tests/records.scm: ... here.  New file.

* gnu/packages/bazaar.scm: Rename to...
* gnu/packages/version-control.scm: ... this.
  (rcs): New variable.
* Makefile.am (MODULES): Adjust accordingly.

* Makefile.am (CLEANFILES): Really catch .log files from SRFI-64.