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Author SHA1 Message Date
Timothy Sample dde15fea25
gnu: ghc: Use GHC 8.4.3 as the default GHC. 
* gnu/packages/haskell.scm (ghc): Switch to ghc-8.
 2018-10-01 12:12:04 +02:00
Tobias Geerinckx-Rice 0e2d3ce20e
gnu: sshuttle: Rely on $PATH to find a POSIX sh. 
This fixes a regression introduced in commit
c32863e094, where the sshuttle client
will try to invoke its own /gnu/store/.../bin/sh on the server.

Rely on $PATH instead of regressing to upstream's hard-coded /bin/sh.

* gnu/packages/vpn.scm (sshuttle)[arguments]: SUBSTITUTE* "sh" for
"/bin/sh".
 2018-09-30 21:15:23 +02:00
pimi f2bc53af70
gnu: Add porechop. 
* gnu/packages/bioinformatics.scm (porechop): New variable.
 2018-09-30 14:09:48 -04:00
Efraim Flashner cebec8bd1c
gnu: font-culmus: Update to 0.133. 
* gnu/packages/fonts.scm (font-culmus): Update to 0.133.
 2018-09-30 15:46:46 +03:00
Efraim Flashner 3b362c8a83
gnu: mtools: Update to 4.0.19. 
* gnu/packages/mtools.scm (mtools): Update to 4.0.19.
 2018-09-30 13:37:38 +03:00
Mark H Weaver e72ca4111f
gnu: linux-libre: Update to 4.18.11. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.11.
(%linux-libre-hash): Update hash.
 2018-09-29 15:58:27 -04:00
Mark H Weaver 92011cbf7e
gnu: linux-libre@4.14: Update to 4.14.73. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.73.
(%linux-libre-4.14-hash): Update hash.
 2018-09-29 15:56:49 -04:00
Mark H Weaver 63e98a4c41
gnu: linux-libre@4.9: Update to 4.9.130. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.130.
 2018-09-29 15:56:16 -04:00
Mark H Weaver 44fa365e77
gnu: linux-libre@4.4: Update to 4.4.159. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.159.
 2018-09-29 15:55:23 -04:00
Leo Famulari 2a1267d3d7
gnu: isc-dhcp: Update bundled BIND to 9.11.4-P2. 
* gnu/packages/admin.scm (isc-dhcp)[inputs]: Update bundled BIND to 9.11.4-P2.
 2018-09-29 12:22:40 -04:00
Leo Famulari 81e69ba85d
gnu: BIND: Update to 9.12.2-P2. 
* gnu/packages/dns.scm (isc-bind): Update to 9.12.2-P2.
 2018-09-29 12:22:39 -04:00
fis trivial bfb22078fd
gnu: pocl: Update to 1.2. 
* gnu/packages/opencl.scm (pocl): Update to 1.2.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2018-09-29 11:15:35 -04:00
Julien Lepiller 6f91223fd4
gnu: Add tippecanoe. 
* gnu/packages/geo.scm (tippecanoe): New variable.
 2018-09-29 12:39:48 +02:00
Julien Lepiller b0e2299ad8
gnu: Add osm2pgsql. 
* gnu/packages/geo.scm (osm2pgsql): New variable.
 2018-09-29 12:39:42 +02:00
Julien Lepiller 889e94e343
gnu: Add libosmium. 
* gnu/packages/geo.scm (libosmium): New variable.
 2018-09-29 12:39:39 +02:00
Julien Lepiller 8fa3451c6f
gnu: Add protozero. 
* gnu/packages/geo.scm (protozero): New variable.
 2018-09-29 12:39:37 +02:00
Julien Lepiller 3bd7611e4a
gnu: Add imposm3. 
* gnu/packages/geo.scm (imposm3): New variable.
 2018-09-29 12:39:34 +02:00
Julien Lepiller be7c64ba2d
gnu: Add tegola. 
* gnu/packages/geo.scm (tegola): New variable.
 2018-09-29 12:39:16 +02:00
Jack Hill ccccb467fb
gnu: mcabber: Update to 1.1.0 
* gnu/packages/messaging.scm (mcabber): Update to 1.1.0

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-28 23:28:03 +02:00
Christopher Baines 595af457ae
gnu: Modify the gitolite package to support the Guix service. 
Previously the gitolite package worked, but there were problems using it for
the service where you might have a minimal PATH. This commit patches the
source and scripts where possible to use store paths, and also wraps the
gitolite script to handle the harder dependencies.

* gnu/packages/version-control.scm (gitolite)[arguments]: Add more patching to
the patch-scripts phase, and add two new phases (patch-source and
wrap-scripts).
[inputs]: Add coreutils, findutils and inetutils.
 2018-09-28 21:00:18 +01:00
Marius Bakke 02817df07e
gnu: libreoffice: Update to 6.1.2.1. 
* gnu/packages/libreoffice.scm (libreoffice): Update to 6.1.2.1.
 2018-09-28 18:23:01 +02:00
Marius Bakke 31f0fc612f
gnu: rng-tools: Update to 6.5. 
* gnu/packages/linux.scm (rng-tools): Update to 6.5.
 2018-09-28 18:23:01 +02:00
Marius Bakke f289820c31
gnu: rng-tools: Don't use unstable tarball. 
* gnu/packages/linux.scm (rng-tools)[source]: Use GIT-FETCH.
 2018-09-28 18:23:01 +02:00
Marius Bakke c6b772a059
gnu: rng-tools: Update home page. 
* gnu/packages/linux.scm (rng-tools)[home-page]: Set to URL mentioned in
legacy wiki.
 2018-09-28 18:23:00 +02:00
Marius Bakke 87c3961871
gnu: newsboat: Update to 2.13. 
* gnu/packages/syndication.scm (newsboat): Update to 2.13.
 2018-09-28 18:23:00 +02:00
Leo Famulari 29bdfe1367
gnu: Krita: Update to 4.1.3. 
* gnu/packages/kde.scm (krita): Update to 4.1.3.
 2018-09-28 11:08:12 -04:00
Tobias Geerinckx-Rice 7edfcd61a1
gnu: httpd: Update to 2.4.35. 
* gnu/packages/web.scm (httpd): Update to 2.4.35.
 2018-09-28 14:22:52 +02:00
Ludovic Courtès 5abcb1b0e6
gnu: guix: Update to 7fed935. 
* gnu/packages/package-management.scm (guix): Update to 7fed935.
 2018-09-28 00:30:38 +02:00
Tobias Geerinckx-Rice a4764ff00a
gnu: python-fakeredis: Edit description. 
* gnu/packages/databases.scm (python-fakeredis)[description]:
Fix (upstream) typo. Get carried away.
 2018-09-28 00:01:43 +02:00
Tobias Geerinckx-Rice 5478ab1ece
gnu: mbpfan: Don't use unstable tarball. 
* gnu/packages/linux.scm (mbpfan)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
 2018-09-28 00:01:43 +02:00
Tobias Geerinckx-Rice 697c584665
gnu: mbpfan: Update to 2.1.0. 
* gnu/packages/linux.scm (mbpfan): Update to 2.1.0.
 2018-09-28 00:01:43 +02:00
Tobias Geerinckx-Rice c32863e094
gnu: sshuttle: Patch FHS assumptions. 
Reported-By: Nam Nguyen <namn@berkeley.edu>

* gnu/packages/vpn.scm (sshuttle)[arguments]: Set correct paths to 'env'
and 'sh'.
 2018-09-28 00:01:43 +02:00
Ricardo Wurmus 363d7d6608
gnu: yoshimi: Update to 1.5.9. 
* gnu/packages/music.scm (yoshimi): Update to 1.5.9.
 2018-09-27 21:52:07 +02:00
Ricardo Wurmus ea1a360199
gnu: emacs-ert-runner: Do not use package name in directory. 
* gnu/packages/emacs.scm (emacs-ert-runner)[arguments]: Use the upstream name
instead of the Guix package name in the "install-executable" phase.

This is a follow-up to commit 5c8031ff73.
 2018-09-27 20:02:55 +02:00
Ricardo Wurmus de1158d53f
gnu: eolie: Update to 0.9.38. 
* gnu/packages/gnome.scm (eolie): Update to 0.9.38.
 2018-09-27 19:56:31 +02:00
Mark H Weaver 1d1e4f8f9c
gnu: linux-libre: Update to 4.18.10. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.10.
(%linux-libre-hash): Update hash.
 2018-09-27 05:53:46 -04:00
Mark H Weaver e0b6085a7f
gnu: linux-libre@4.14: Update to 4.14.72. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.72.
(%linux-libre-4.14-hash): Update hash.
 2018-09-27 05:52:52 -04:00
Mark H Weaver 202190ec39
gnu: linux-libre@4.9: Update to 4.9.129. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.129.
 2018-09-27 05:52:00 -04:00
Mark H Weaver e07cb04d40
gnu: linux-libre@4.4: Update to 4.4.158. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.158.
 2018-09-27 05:51:20 -04:00
Rutger Helling c4a3ea3885
gnu: mame: Update to 0.202. 
* gnu/packages/emulators.scm (mame): Update to 0.202.
 2018-09-27 09:51:00 +02:00
Tobias Geerinckx-Rice 428d2ca2ec
gnu: youtube-dl: Update to 2018.09.18. 
* gnu/packages/video.scm (youtube-dl): Update to 2018.09.18.
 2018-09-27 03:51:07 +02:00
Tobias Geerinckx-Rice b733dbc0fb
gnu: python-setproctitle: Use INVOKE. 
* gnu/packages/python.scm (python-setproctitle)[arguments]: Substitute
INVOKE for SYSTEM*.
 2018-09-27 03:51:07 +02:00
Tobias Geerinckx-Rice 3d190d6a21
gnu: dico: Update to 2.7. 
* gnu/packages/dico.scm (dico): Update to 2.7.
[arguments]: Work around dodgy test in 'check' phase.
 2018-09-27 03:51:06 +02:00
Tobias Geerinckx-Rice af44f05af7
gnu: perl-net-dns: Update to 1.18. 
* gnu/packages/networking.scm (perl-net-dns): Update to 1.18.
 2018-09-27 03:51:06 +02:00
Tobias Geerinckx-Rice 6f52db2455
gnu: perl-catalyst-runtime: Update to 5.90119. 
* gnu/packages/web.scm (perl-catalyst-runtime): Update to 5.90119.
 2018-09-27 03:51:06 +02:00
Tobias Geerinckx-Rice a9994b2735
gnu: perl-crypt-openssl-rsa: Update to 0.31. 
* gnu/packages/tls.scm (perl-crypt-openssl-rsa): Update to 0.31.
 2018-09-27 03:51:06 +02:00
Timo Eisenmann e15ede6e28
gnu: enlightenment: Fix initial locale and keyboard selection. 
* gnu/packages/enlightenment.scm (enlightenment)[arguments]: In
'set-system-actions', set absolute file name to 'locale' and 'xorg.lst'.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-26 23:40:37 +02:00
Ludovic Courtès 2a5f2b1f75
gnu: Remove incorrect Emacs package deprecations. 
This is a followup to 5c8031ff73.  An
upgrade would wrongfully report things like:

  guix package: package 'emacs-typo' has been superseded by 'emacs-typo'
  guix package: package 'emacs-org-tree-slide' has been superseded by 'emacs-org-tree-slide'
  guix package: package 'emacs-emms' has been superseded by 'emacs-emms'

* gnu/packages/emacs.scm (flycheck, emms, typo, org-tree-slide)
(butler): Remove.
(emacs-emms-mode-line-cycle)[propagated-inputs]: Use EMACS-EMMS instead
of EMMS.
 2018-09-26 23:40:36 +02:00
Ludovic Courtès 9bd85a785f
gnu: shepherd: Update to 0.5.0. 
* gnu/packages/admin.scm (shepherd): Update to 0.5.0.
 2018-09-26 23:40:36 +02:00
Pierre Neidhardt 0661912827
Fix URL in emacs-magit and emacs-groovy-modes. 
* gnu/packages/emacs.scm (emacs-magit)[source]: Fix URL.
* gnu/packages/emacs.scm (emacs-groovy-modes)[source]: Fix URL.
 2018-09-26 10:37:51 +02:00
Mark H Weaver fe73352e80
gnu: linux-libre: Enable SHPC PCI Hotplug driver, now built-in only. 
Fixes <https://bugs.gnu.org/32840>.

* gnu/packages/aux-files/linux-libre/4.18-x86_64.conf,
gnu/packages/aux-files/linux-libre/4.18-i686.conf: Add
CONFIG_HOTPLUG_PCI_SHPC=y, plus updates made by 'make oldconfig'.
 2018-09-25 23:17:20 -04:00
Mark H Weaver 6d32887937
gnu: icecat: Rebundle NSPR and NSS [security fix]. 
Works around <https://bugs.gnu.org/32833>.

* gnu/packages/gnuzilla.scm (icecat)[source]: In snippet, don't remove NSS.
[inputs]: Remove 'nspr' and 'nss'.
[arguments]: Remove --with-system-{nspr,nss} from configure flags.
 2018-09-25 19:59:08 -04:00
Mark H Weaver 94e96f7f68
gnu: icecat: Unbundle libevent, libogg, and libvorbis. 
* gnu/packages/patches/icecat-use-system-media-libs.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/patches/icecat-avoid-bundled-libraries.patch: Add
another hunk to enable removal of libevent.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add patch.  In the snippet, add
libevent, libogg, libvorbis, and libtremor to the list of bundled libraries to
remove.  Add a comment regarding theora.  Remove comments regarding unbundling
cairo, which is no longer supported.
[inputs]: Add libevent, libogg, and libvorbis.
[arguments]: Add --with-system-{libevent,ogg,vorbis} to configure flags.
Add custom bootstrap phase.  Add comments.
 2018-09-25 19:59:06 -04:00
Mark H Weaver 257e324791
gnu: icecat: Unbundle graphite2 and harfbuzz. 
* gnu/packages/patches/icecat-use-system-graphite2+harfbuzz.patch: New file.
* gnu/packages/patches/icecat-use-system-graphite2.patch,
gnu/packages/patches/icecat-use-system-harfbuzz.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Update accordingly.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add new patch.  Delete
bundled graphite2 and harfbuzz in snippet.
[inputs]: Add graphite2 and harfbuzz.
[arguments]: Add --with-system-{graphite2,harfbuzz} to configure flags.
 2018-09-25 19:58:58 -04:00
Marius Bakke 5f33e9063b
gnu: varnish: Use absolute file name of "rm". 
* gnu/packages/web.scm (varnish)[arguments]: Rename 'patch-bin-sh-phase to
'use-absolute-file-names and add substitution.
 2018-09-26 00:33:01 +02:00
Marius Bakke e789b85841
gnu: Add Node LTS. 
* gnu/packages/node.scm (node)[arguments]: Adjust 'patch-files' phase to
ignore missing files.
(node-lts): New public variable.
 2018-09-26 00:33:01 +02:00
Marius Bakke 020c4ef18e
gnu: node: Delete expired tests. 
* gnu/packages/node.scm (node)[arguments]: Delete tests for which the TLS
certificates have expired.
 2018-09-26 00:33:01 +02:00
Marius Bakke a0c9ba1d64
gnu: webkitgtk: Remove obsolete phase. 
* gnu/packages/webkit.scm (webkitgtk)[arguments]: Remove #:phases.
(webkitgtk-2.22)[arguments]: Don't reference removed phase.
 2018-09-26 00:33:01 +02:00
Marius Bakke 9b1bb75781
gnu: gspell: Update to 1.8.1. 
* gnu/packages/gnome.scm (gspell): Update to 1.8.1.
[propagated-inputs]: Change ENCHANT-1.6 to ENCHANT.
 2018-09-26 00:33:01 +02:00
Marius Bakke c1d59b3c2a
gnu: enchant: Update to 2.2.3. 
* gnu/packages/enchant.scm (enchant): Update to 2.2.3.
[arguments]: Add "--enable-relocatable" to #:configure-flags.
[native-inputs]: Add UNITTEST-CPP.
(enchant-1.6): New public variable.
* gnu/packages/fcitx.scm (fcitx)[inputs]: Change ENCHANT to ENCHANT-1.6.
* gnu/packages/gnome.scm (gspell): Likewise.
* gnu/packages/mate.scm (pluma): Likewise.
* gnu/packages/gtk.scm (gtkspell3)[propagated-inputs]: Likewise.
[inputs]: Remove duplicate ENCHANT.
 2018-09-26 00:33:01 +02:00
Marius Bakke 9a59b29411
gnu: enchant: Propagate Glib. 
* gnu/packages/enchant.scm (enchant)[inputs]: Move GLIB ...
[propagated-inputs]: ... here.  New field.
 2018-09-26 00:33:01 +02:00
Marius Bakke 18ef85b64a
gnu: enchant: Don't build libenchant.a. 
* gnu/packages/enchant.scm (enchant)[arguments]: Add #:configure-flags.
 2018-09-26 00:33:01 +02:00
Marius Bakke 52b87855ea
gnu: enchant: Update home page. 
* gnu/packages/enchant.scm (enchant)[home-page]: Set to URL mentioned on the
legacy home page.
 2018-09-26 00:33:00 +02:00
Ludovic Courtès a7a887718a
gnu: diffoscope: Update to 102. 
* gnu/packages/package-management.scm (diffoscope): Update to 102.
 2018-09-25 18:45:50 +02:00
Ludovic Courtès 35f903778a
gnu: Add guile-next. 
* gnu/packages/guile.scm (guile-next): Rewrite to refer to Guile 3.0.
 2018-09-25 18:45:50 +02:00
Tobias Geerinckx-Rice 38e1095d82
gnu: python-wsgiproxy2: Update to 0.4.5. 
* gnu/packages/python-web.scm (python-wsgiproxy2): Update to 0.4.5.
 2018-09-25 11:46:54 +02:00
Tobias Geerinckx-Rice 06e6b17bd7
gnu: python-pexpect: Use INVOKE. 
* gnu/packages/python.scm (python-pexpect)[arguments]: Substitute INVOKE
for SYSTEM*.
 2018-09-25 11:46:54 +02:00
Tobias Geerinckx-Rice 6d7ca74ba6
gnu: 389-ds-base: Fix build. 
* gnu/packages/openldap.scm (389-ds-base)[inputs]: Add openssl.
 2018-09-25 11:46:54 +02:00
Tobias Geerinckx-Rice 238d950b79
gnu: python-nose-timer: Update to 0.7.3. 
* gnu/packages/check.scm (python-nose-timer): Update to 0.7.3.
 2018-09-25 11:46:08 +02:00
Tobias Geerinckx-Rice d6ab1d0ac3
gnu: python-flask-login: Update to 0.4.1. 
* gnu/packages/python-web.scm (python-flask-login): Update to 0.4.1.
[arguments]: Run the test suite.
[propagated-inputs]: Add python-flask.
[native-inputs]: Add test dependencies.
 2018-09-25 11:46:08 +02:00
Tobias Geerinckx-Rice bbc69023d8
gnu: Add python-semantic-version. 
* gnu/packages/python.scm (python-semantic-version)
(python2-semantic-version): New public variables.
 2018-09-25 11:46:08 +02:00
Tobias Geerinckx-Rice 79374801d0
gnu: python-flask-login: Don't use unstable tarball. 
* gnu/packages/python-web.scm (python-flask-login)[source]:
Use GIT-FETCH and GIT-FILE-NAME.
 2018-09-25 11:46:08 +02:00
Ricardo Wurmus 932839ff12
gnu: ibus: Update to 1.5.19. 
* gnu/packages/ibus.scm (ibus): Update to 1.5.19.
[arguments]: Add configure flags to disable Python 2 support while building
Python 3 bindings; adjust make flags; add phase prepare-ucd-dir.
[inputs]: Replace python2-pygobject with python-pygobject; replace python-2
with python.
[native-inputs]: Add unicode files.
 2018-09-25 11:20:32 +02:00
Ricardo Wurmus f1ea0759f4
gnu: qjackctl: Update to 0.5.4. 
* gnu/packages/audio.scm (qjackctl): Update to 0.5.4.
 2018-09-25 08:18:51 +02:00
Kei Kebreau 116af86f14
gnu: octave: Add a search path for CURLOPT_CAPATH. 
* gnu/packages/maths.scm (octave)[native-search-paths]: New field.
 2018-09-24 21:42:12 -04:00
Tobias Geerinckx-Rice a68b451423
gnu: Add gandi.cli. 
* gnu/packages/networking.scm (gandi.cli): New public variable.
 2018-09-24 18:10:48 +02:00
Tobias Geerinckx-Rice e6dcf9ca5f
gnu: rename: Update to 1.00. 
* gnu/packages/admin.scm (rename): Update to 1.00.
[arguments]: Wrap executable to find its own library.
 2018-09-24 18:10:48 +02:00
Tobias Geerinckx-Rice 4cb4af797a
gnu: lxterminal: Update to 0.3.2. 
* gnu/packages/lxde.scm (lxterminal): Update to 0.3.2.
 2018-09-24 18:10:48 +02:00
Tobias Geerinckx-Rice 25ab91c85c
gnu: gloox: Update to 1.0.21. 
* gnu/packages/messaging.scm (gloox): Update to 1.0.21.
 2018-09-24 18:10:47 +02:00
Tobias Geerinckx-Rice b44a18c8f2
gnu: libmesode: Update to 0.9.2. 
* gnu/packages/messaging.scm (libmesode): Update to 0.9.2.
 2018-09-24 18:10:47 +02:00
Tobias Geerinckx-Rice c60d5a2528
gnu: libmesode: Don't use unstable tarball. 
* gnu/packages/messaging.scm (libmesode)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
 2018-09-24 18:10:47 +02:00
Tobias Geerinckx-Rice 8ae540a2c0
gnu: ocaml-ssl: Don't use unstable tarball. 
* gnu/packages/ocaml.scm (ocaml-ssl)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
 2018-09-24 18:10:46 +02:00
Ricardo Wurmus 000147811b
gnu: eolie: Update to 0.9.37. 
* gnu/packages/gnome.scm (eolie): Update to 0.9.37.
[source]: Fetch from gitlab.
[build-system]: Use meson-build-system.
[arguments]: Remove custom phases; set #:glib-or-gtk?.
[native-inputs]: Remove meson-for-build and ninja; add glib:bin.
[inputs]: Add python-pyfxa and python-pycrypto.
 2018-09-24 16:21:11 +02:00
Ricardo Wurmus f45bb3cc0f
gnu: Add python-pyfxa. 
* gnu/packages/python-web.scm (python-pyfxa): New variable.
 2018-09-24 16:20:51 +02:00
Ricardo Wurmus 084e14cc37
gnu: Add python-pybrowserid. 
* gnu/packages/python-web.scm (python-pybrowserid): New variable.
 2018-09-24 16:20:42 +02:00
Ricardo Wurmus 0750f344ec
gnu: Add python-hawkauthlib. 
* gnu/packages/python-web.scm (python-hawkauthlib): New variable.
 2018-09-24 16:20:32 +02:00
Ricardo Wurmus d08b325843
gnu: Add python-grequests. 
* gnu/packages/python-web.scm (python-grequests): New variable.
 2018-09-24 16:20:19 +02:00
Arun Isaac 53c64d7c93
gnu: m17n-lib: Update to 1.8.0. 
* gnu/packages/emacs.scm (m17n-lib): Update to 1.8.0.
 2018-09-24 17:46:47 +05:30
Arun Isaac 94282358fd
gnu: m17n-db: Update to 1.8.0. 
* gnu/packages/emacs.scm (m17n-db): Update to 1.8.0.
 2018-09-24 17:46:18 +05:30
Ricardo Wurmus e72702475d
gnu: Add r-bseqsc. 
* gnu/packages/bioinformatics.scm (r-bseqsc): New variable.
 2018-09-24 13:31:20 +02:00
Ricardo Wurmus 28829c040f
gnu: Add r-cssam. 
* gnu/packages/bioinformatics.scm (r-cssam): New variable.
 2018-09-24 13:31:20 +02:00
Ricardo Wurmus a434730f2e
gnu: Add r-xbioc. 
* gnu/packages/bioinformatics.scm (r-xbioc): New variable.
 2018-09-24 13:31:20 +02:00
Pierre Neidhardt 5c8031ff73
gnu: Prefix all Emacs packages with "emacs-". 
* gnu/packages/emacs.scm: Prefix all Emacs packages with "emacs-".
This is to enforce consistency and so that `emacs-packages?' can reliably
detect Emacs packages based on the "emacs-" prefix.
 2018-09-24 12:56:04 +02:00
Tobias Geerinckx-Rice cd8aa06093
gnu: python-networkx: Use HTTPS home page. 
* gnu/packages/python.scm (python-networkx)[home-page]: Use HTTPS.
 2018-09-24 00:34:03 +02:00
Tobias Geerinckx-Rice dd29bd4ebc
gnu: python-networkx: Update to 2.2. 
* gnu/packages/python.scm (python-networkx): Update to 2.2.
 2018-09-24 00:34:02 +02:00
Tobias Geerinckx-Rice 68cbec027e
gnu: python-decorator: Update to 4.3.0. 
* gnu/packages/python.scm (python-decorator): Update to 4.3.0.
[arguments]: Run the test suite.
 2018-09-24 00:34:02 +02:00
Tobias Geerinckx-Rice 3715e79ec8
gnu: python-marshmallow: Update to 3.0.0b14. 
* gnu/packages/python.scm (python-marshmallow): Update to 3.0.0b14.
 2018-09-24 00:34:01 +02:00
Tobias Geerinckx-Rice a42b68480b
gnu: libiptcdata: Update to 1.0.5. 
* gnu/packages/image.scm (libiptcdata): Update to 1.0.5.
[home-page]: Follow Debian's maintained upstream.
 2018-09-24 00:34:01 +02:00
Tobias Geerinckx-Rice c30fd002c8
gnu: virtualgl: Update to 2.6. 
* gnu/packages/gl.scm (virtualgl): Update to 2.6.
[inputs]: Add libxtst.
 2018-09-24 00:34:01 +02:00
Tobias Geerinckx-Rice 2c36baa56f
gnu: parallel: Update to 20180922. 
* gnu/packages/parallel.scm (parallel): Update to 20180922.
 2018-09-24 00:34:00 +02:00
Tobias Geerinckx-Rice 2f7ad2a788
gnu: workrave: Use Guix's built-in bootstrap phase. 
* gnu/packages/gnome.scm (workrave)[arguments]: Remove
'autoconf' phase.
 2018-09-24 00:34:00 +02:00
Tobias Geerinckx-Rice 899e1974a6
gnu: python-gitdb: Update to 2.0.4. 
* gnu/packages/version-control.scm (python-gitdb): Update to 2.0.4.
[arguments]: Replace AND with equivalent but more 'accurate' BEGIN.
 2018-09-24 00:34:00 +02:00
Tobias Geerinckx-Rice 0604d3cfce
gnu: nano: Update to 3.1. 
* gnu/packages/nano.scm (nano): Update to 3.1.
 2018-09-24 00:33:59 +02:00
Tobias Geerinckx-Rice 25706b8fc9
gnu: fping: Use HTTPS home page. 
* gnu/packages/networking.scm (fping)[home-page]: Use HTTPS.
 2018-09-24 00:33:59 +02:00
Tobias Geerinckx-Rice 8fa361ce63
gnu: fping: Update to 4.1. 
* gnu/packages/networking.scm (fping): Update to 4.1.
 2018-09-24 00:33:59 +02:00
Pierre Neidhardt e10bf49668
gnu: Add emacs-synosaurus. 
* gnu/packages/emacs.scm (emacs-synosaurus): New variable.
 2018-09-23 17:19:56 +02:00
Rutger Helling 94676ded5f
gnu: xpra: Update to 2.3.4. 
* gnu/packages/xorg.scm (xpra): Update to 2.3.4.
 2018-09-23 13:15:38 +02:00
Mark H Weaver 84b334362e
gnu: eolie: Use webkitgtk-2.22. 
* gnu/packages/gnome.scm (eolie)[native-inputs]: Add gcc-7:lib.
[inputs]: Replace webkitgtk with webkitgtk-2.22.
[arguments]: Add "gcc:lib" to the list of libraries to add to
LD_LIBRARY_PATH.  Use invoke.
 2018-09-23 04:55:54 -04:00
Mark H Weaver 480d39a600
gnu: epiphany: Use webkitgtk-2.22. 
* gnu/packages/gnome.scm (epiphany)[native-inputs]: Add gcc-7.
[inputs]: Replace webkitgtk with webkitgtk-2.22.
 2018-09-23 01:25:21 -04:00
Mark H Weaver 844cc6f876
gnu: webkitgtk: Add version 2.22.2. 
* gnu/packages/webkit.scm (webkitgtk-2.22): New variable.
 2018-09-23 01:25:09 -04:00
Katherine Cox-Buday 21280a8cd8
gnu: Add Go 1.11. 
* gnu/packages/golang.scm (go-1.11): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
 2018-09-22 14:30:13 -04:00
Mark H Weaver ae71cd8ac9
gnu: icecat: Add fixes from upstream mozilla-esr60 [security fixes]. 
Includes fixes for CVE-2018-12383 and CVE-2018-12385.

* gnu/packages/patches/icecat-CVE-2018-12383.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/patches/icecat-avoid-bundled-libraries.patch: Adapt to apply
cleanly to IceCat 60.
* gnu/packages/gnuzilla.scm (mozilla-patch): Update to fetch from
mozilla-esr60.
(icecat): Add selected changesets from upstream mozilla-esr60.
 2018-09-22 13:48:32 -04:00
Danny Milosavljevic 91294b5361
Revert 'gnu: rust: Remove unused "ar" setting.'. 
Some versions of Rust do need it and others complain about it.
For now, revert the removal entirely.

This reverts commit ec944a1de9.
 2018-09-22 10:09:47 +02:00
Ben Woodcroft 05fb1e0017
gnu: hmmer: Update to 3.2.1. 
* gnu/packages/bioinformatics.scm (hmmer): Update to 3.2.1.
[origin]: Remove patch.
[license]: Change to BSD-3.
[supported-systems]: New field.
* gnu/packages/patches/hmmer-remove-cpu-specificity.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2018-09-22 09:16:47 +10:00
Nicolas Goaziou 78b7b9dbe9
gnu: snap: Update to 4.2.1.4. 
* gnu/packages/education.scm (snap): Update to 4.2.1.4.
 2018-09-21 22:22:09 +02:00
Nicolas Goaziou a255142af3
gnu: emacs-org: Update to 9.1.14. 
* gnu/packages/emacs.scm (emacs-org): Update to 9.1.14.
 2018-09-21 21:55:28 +02:00
Tobias Geerinckx-Rice 1302837f6b
gnu: workrave: Update to 1.10.21. 
* gnu/packages/gnome.scm (workrave): Update to 1.10.21.
[source]: Use GIT-FILE-NAME.
 2018-09-21 20:32:27 +02:00
Tobias Geerinckx-Rice 43726c522f
gnu: emacs-password-store: Update to 1.7.3. 
* gnu/packages/emacs.scm (emacs-password-store): Update to 1.7.3.
 2018-09-21 20:32:27 +02:00
Tobias Geerinckx-Rice 10fadd1e3d
gnu: filezilla: Update to 3.37.1. 
* gnu/packages/ftp.scm (filezilla): Update to 3.37.1.
 2018-09-21 19:52:27 +02:00
Tobias Geerinckx-Rice 9a32bdf8a9
gnu: wxwidgets: Update to 3.0.4. 
* gnu/packages/wxwidgets.scm (wxwidgets): Update to 3.0.4.
 2018-09-21 19:52:26 +02:00
Tobias Geerinckx-Rice 199d72e327
gnu: python-pyparsing: Update to 2.2.1. 
* gnu/packages/python.scm (python-pyparsing): Update to 2.2.1.
[source]: Use PYPI-URI.
 2018-09-21 19:52:26 +02:00
Danny Milosavljevic ec944a1de9
gnu: rust: Remove unused "ar" setting. 
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[configure]: Remove
unused "ar" setting.
 2018-09-21 17:59:09 +02:00
pimi 7e27393f82
gnu: Add r-pore. 
* gnu/packages/bioinformatics.scm (r-pore): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-21 17:04:37 +02:00
Paul Garlick 45201bf245
gnu: hdf5-parallel-openmpi: Really enable parallel build. 
This fix ensures that the H5_HAVE_PARALLEL identifier is correctly set
in the file H5pubconf.h.

* gnu/packages/maths.scm (hdf5-parallel-openmpi)[arguments]: Add
the "--enable-parallel" flag to the list of configure flags.  Remove
the incompatible "--enable-cxx" flag.  Add 'mpi-setup' phase.

Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
 2018-09-21 17:04:37 +02:00
Paul Garlick b0d1e60fff
gnu: hdf5: Allow for absence of utility script. 
* gnu/packages/maths.scm (hdf5)[arguments]: Add condition to 'split'
phase to check for existence of h5fc script.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-09-21 17:04:37 +02:00
Danny Milosavljevic 10e066f410
gnu: rust: Remove unused "localstatedir" setting. 
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[configure]: Remove
unused "localstatedir" setting.
 2018-09-21 15:21:24 +02:00
Tobias Geerinckx-Rice 118a084531
gnu: libfilezilla: Update to 0.13.2. 
* gnu/packages/ftp.scm (libfilezilla): Update to 0.13.2.
[source]: Use HTTPS.
 2018-09-21 15:04:29 +02:00
Tobias Geerinckx-Rice 41e551b2d3
gnu: python-pyparsing: Update home page. 
* gnu/packages/python.scm (python-pyparsing)[home-page]: Update.
 2018-09-21 15:03:49 +02:00
Tobias Geerinckx-Rice eacb5dc487
gnu: emacs-mu4e-conversation: Fix typo in description. 
* gnu/packages/emacs.scm (emacs-mu4e-conversation)[description]:
Fix 'correspondant' typo.
 2018-09-21 15:03:49 +02:00
Tobias Geerinckx-Rice 93ab9a5d76
gnu: kodi: Use INVOKE. 
* gnu/packages/kodi.scm (kodi)[arguments]: Substitute INVOKE for SYSTEM*.
 2018-09-21 15:03:48 +02:00
Tobias Geerinckx-Rice 2aa137e261
gnu: crossguid: Use INVOKE. 
* gnu/packages/kodi.scm (crossguid)[arguments]: Substitute INVOKE for SYSTEM*.
 2018-09-21 15:03:48 +02:00
Mark H Weaver e67ad5532f
gnu: icecat: Update to 60.2.0-gnu1 (pre-release). 
* gnu/packages/gnuzilla.scm (icecat): Update to 60.2.0-gnu1.
[source]: Download pre-release from alpha.gnu.org.  Remove obsolete patches.
Comment out the code to delete the bundled copies of libevent, cairo,
harfbuzz, and graphite2.
[inputs]: Use the latest ffmpeg.  Comment out libevent, cairo, harfbuzz, and
graphite2.
[native-inputs]: Add rust and cargo.
[arguments]: Remove --enable-gio and --disable-gnomeui.  Add --disable-stylo.
Comment out --with-system-{libevent,harfbuzz,graphite2}, --enable-system-cairo.
Import %cargo-build-system-modules.  Add 'patch-cargo-checksums' phase.
* gnu/packages/patches/icecat-CVE-2018-5157-and-CVE-2018-5158.patch,
gnu/packages/patches/icecat-bug-1413868-pt1.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Remove them.
 2018-09-21 07:16:02 -04:00
Mark H Weaver c5327efb97
gnu: libvpx: Add upstream security fix. 
* gnu/packages/patches/libvpx-use-after-free-in-postproc.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/video.scm (libvpx)[source]: Add patch.
 2018-09-21 07:15:59 -04:00
Tobias Geerinckx-Rice 6569549dfa
gnu: python-paramiko: Update to 2.4.2 [security fixes]. 
* gnu/packages/python-crypto.scm (python-paramiko): Update to 2.4.2.
 2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice 101ad242be
gnu: python-paramiko: Use HTTPS home page. 
* gnu/packages/python-crypto.scm (python-paramiko)[home-page]: Use HTTPS.
 2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice a1d6610e84
gnu: python-rencode: Update to 1.0.5. 
* gnu/packages/python.scm (python-rencode): Update to 1.0.5.
[arguments]: Add a 'delete-bogus-test' phase.
 2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice e36058634d
gnu: python-hdf4: Use INVOKE. 
* gnu/packages/python.scm (python-hdf4)[arguments]: Substitute INVOKE
for SYSTEM*.
 2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice 6f05556ba7
gnu: s6: Update to 2.7.2.1. 
* gnu/packages/skarnet.scm (s6): Update to 2.7.2.1.
 2018-09-21 13:18:41 +02:00
Tobias Geerinckx-Rice 174988fa05
gnu: perl-xml-compile: Update to 1.60. 
* gnu/packages/xml.scm (perl-xml-compile): Update to 1.60.
[propagated-inputs]: Add perl-carp, perl-scalar-list-utils, and
perl-types-serialiser.
 2018-09-21 13:18:41 +02:00
Nicolas Goaziou 1df40d3dbf
gnu: emacs-orgalist: Update to 1.9. 
* gnu/packages/emacs.scm (emacs-orgalist): Update to 1.9.
 2018-09-21 11:52:12 +02:00
Tobias Geerinckx-Rice 3752b683dc
gnu: openscenegraph: Update to 3.6.3. 
* gnu/packages/graphics.scm (openscenegraph): Update to 3.6.3.
[source]: Use GIT-FILE-NAME.
[inputs]: Remove unused pth and qtbase.
 2018-09-21 10:25:33 +02:00
Tobias Geerinckx-Rice 29ddbc5607
gnu: python-pydot: Update to 1.2.4. 
* gnu/packages/graphviz.scm (python-pydot): Update to 1.2.4.
[arguments]: Run the test suite.
[native-inputs]: Add python-chardet.
 2018-09-21 10:25:32 +02:00
Tobias Geerinckx-Rice 1779aaa09a
Add 'GNU Guix' comment to all (gnu packages) headers. 
* gnu/packages/debian.scm, gnu/packages/syndication.scm: Add comments.
 2018-09-21 10:25:32 +02:00
Tobias Geerinckx-Rice 4aa64e3a81
gnu: ubuntu-keyring: Update to 2018.09.18.1. 
* gnu/packages/debian.scm (ubuntu-keyring): Update to 2018.09.18.1.
 2018-09-21 10:25:32 +02:00
Tobias Geerinckx-Rice eeecbe09cc
gnu: perl-dbd-mysql: Update to 4.048. 
* gnu/packages/databases.scm (perl-dbd-mysql): Update to 4.048.
 2018-09-21 10:25:31 +02:00
Danny Milosavljevic e0b07ccc1a
gnu: rust: Work around mtime bug in rust build helpers. 
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[fix-mtime-bug]:
Delete.
[reset-timestamps-after-changes]: Modify.
(rust-1.24): Don't delete "fix-mtime-bug" since now it doesn't ever
get created.
 2018-09-21 01:35:00 +02:00
Danny Milosavljevic 1bfaae25fa
gnu: rust@1.20.0: Fix tests. 
* gnu/packages/rust.scm (rust-1.23)[arguments]<#:phases>
[patch-cargo-tests, ignore-glibc-2.27-incompatible-test,fix-mtime-bug]: Move
to...
(rust-1.20): ... here.
 2018-09-21 01:31:10 +02:00
Mark H Weaver 83e8b1d794
gnu: linux-libre: Update to 4.18.9. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.9.
(%linux-libre-hash): Update hash.
 2018-09-20 18:04:56 -04:00
Mark H Weaver c57a2a12b1
gnu: linux-libre@4.14: Update to 4.14.71. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.71.
(%linux-libre-4.14-hash): Update hash.
 2018-09-20 18:04:48 -04:00
Mark H Weaver 41d6afb266
gnu: linux-libre@4.9: Update to 4.9.128. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.128.
 2018-09-20 18:04:42 -04:00