gnu: Add ruby-ptools.

* gnu/packages/ruby.scm (ruby-ptools): New public variable.

gnu: hdf4: Provide an absolute reference to libjpeg.

* gnu/packages/maths.scm (hdf4)[arguments]: Add phase
'provide-absolute-libjpeg-reference'.

Revert some Go package updates.

This reverts commit 5f833e0495f00a72f8d34a63e8afbc531afdd22d through
681ac9a66c26d2c739e41f03228f8c63fc0df482.

It's not idiomatic to update Go packages independently of their users.
This reversion was approved by Efraim on #guix:

http://logs.guix.gnu.org/guix/2020-05-26.log

* gnu/packages/golang.scm,
gnu/packages/syncthing.scm,
gnu/packages/tls.scm: Revert.

gnu: emacs-forge: Update to commit 09bf8ad.

* gnu/packages/emacs-xyz.scm (emacs-forge): Update to 09bf8ad.
[native-inputs]: Remove emacs-minimal, which is implicitly provided by the
emacs-build-system.

gnu: emacs-transient: Update to commit a6e4cced.

This is necessary to build a recent version of emacs-forge.

* gnu/packages/emacs-xyz.scm (emacs-transient): Update to commit a6e4cced.
[build-system]: Switch to the emacs-build-system.
[arguments]: Remove the #:modules, #:imported-modules and #:make-flags
arguments.
[phases]{configure}: Do not delete.
{install}: Do not replace.
{build-info-manual}: New phase.
{enter-lisp-directory}: New phase.
[native-inputs]: Remove emacs-minimal, which is implicitly provided by the
emacs-build-system.

gnu: emacs-evil-magit: Update to commit 253c644.

This resolves tests failures that appeared with the update to emacs-magit.

* gnu/packages/emacs-xyz.scm (emacs-evil-magit): Update to commit 253c644.

gnu: emacs-magit: Update to commit d05545e.

* gnu/packages/emacs-xyz.scm (emacs-magit): Update to commit
68b5a13fa1b6b122d4a2547b8c415aadff83d8ca.
[origin]: Remove obsoleted patches and snippets.
[build-system]: Switch to the emacs-build-system.
[arguments]: Remove the #:modules and #:imported-modules arguments.  Enable
tests. Remove the #:make-flags and #:test-target argument.  Specify the
\#:test-command argument.
[phases]{patch}: Remove phase.
{build-info-manual, set-magit-version, configure-git}
{disable-tramp-test}: New phases.
{configure}: Do not delete phase.
{patch-exec-paths}: Adapt file names.
* gnu/packages/patches/emacs-magit-log-format-author-margin.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Unregister it.

gnu: Add emacs-libgit.

* gnu/packages/emacs-xyz.scm (emacs-libgit): New variable.
* gnu/packages/patches/emacs-libgit-use-system-libgit2.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register patch.

gnu: Add guile-rdf.

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

gnu: knot: Update to 2.9.5.

* gnu/packages/dns.scm (knot): Update to 2.9.5.

gnu: fossil: Update to 2.11.

* gnu/packages/version-control.scm (fossil): Update to 2.11.

gnu: wimlib: Update to 1.13.2.

* gnu/packages/backup.scm (wimlib): Update to 1.13.2.

gnu: nginx-documentation: Update to 1.19.0-2549-c13a55aae487.

* gnu/packages/web.scm (nginx-documentation): Update to 1.19.0-2549-c13a55aae487.

gnu: nginx: Update to 1.19.0.

* gnu/packages/web.scm (nginx): Update to 1.19.0.

gnu: nnn: Update to 3.2.

* gnu/packages/admin.scm (nnn): Update to 3.2.

gnu: yoshimi: Update to 1.7.0.1-0.bfcadc6 to fix build.

* gnu/packages/music.scm (yoshimi): Update to 1.7.0.1-0.bfcadc6.
[source]: Use GIT-FETCH for now.

gnu: nauty: Update to 2.7r1.

* gnu/packages/maths.scm (nauty): Update to 2.7r1.
[arguments]: Prevent using "-march-native".  Install new executable.

gnu: aegis: Update home page.

* gnu/packages/version-control.scm (aegis)[home-page]: Update and use
HTTPS.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>

gnu: aegis: Fix build failure.

* gnu/packages/version-control.scm (aegis)[arguments]: Add
‘CXXFLAGS=-std=c++03’ to #:configure-flags.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>

gnu: Add lsp-plugins.

* gnu/packages/music.scm (lsp-plugins): New variable.

Signed-off-by: Efraim Flashner <efraim@flashner.co.il>