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Author SHA1 Message Date
Ricardo Wurmus af26c7ae70
gnu: Add r-fgsea. 
* gnu/packages/bioconductor.scm (r-fgsea): New variable.
 2019-03-27 16:17:19 +01:00
Ricardo Wurmus 0d50d0df08
gnu: Add r-msigdbr. 
* gnu/packages/cran.scm (r-msigdbr): New variable.
 2019-03-27 16:17:19 +01:00
Ricardo Wurmus 2d70460892
gnu: Add r-xkcd. 
* gnu/packages/cran.scm (r-xkcd): New variable.
 2019-03-27 16:17:19 +01:00
Ricardo Wurmus 2331bf2a64
gnu: Add r-extrafont. 
* gnu/packages/cran.scm (r-extrafont): New variable.
 2019-03-27 16:17:18 +01:00
Ricardo Wurmus b6933ea634
gnu: Add r-extrafontdb. 
* gnu/packages/cran.scm (r-extrafontdb): New variable.
 2019-03-27 16:17:18 +01:00
Ricardo Wurmus 81df4e1e98
gnu: Add r-rttf2pt1. 
* gnu/packages/cran.scm (r-rttf2pt1): New variable.
 2019-03-27 16:17:18 +01:00
Ludovic Courtès 06013a45aa
gnu: emacs-debbugs: Update to 0.17. 
* gnu/packages/emacs-xyz.scm (emacs-debbugs): Update to 0.17.
 2019-03-27 14:59:42 +01:00
Ricardo Wurmus 18c51cf3d3
gnu: Add r-xyz. 
* gnu/packages/cran.scm (r-xyz): New variable.
 2019-03-27 14:43:26 +01:00
Ludovic Courtès 45c0d1d790
vm: Ask QEMU for more RAM in the VM that makes ISO9660 images. 
* gnu/system/vm.scm (iso9660-image): Pass #:memory-size to
'expression->derivation-in-linux-vm'.
 2019-03-27 11:54:06 +01:00
Ludovic Courtès 391e0d65d7
services: Deprecate 'xfce-desktop-service'. 
* gnu/services/desktop.scm (xfce-desktop-service-type)[default-value]
[description]: New fields.
(xfce-desktop-service): Deprecate.
* gnu/system/examples/desktop.tmpl: Use the (service …) form.
* gnu/installer/services.scm (%desktop-environments): Add TODO comment.
* doc/guix.texi (Desktop Services): Adjust accordingly, and fix spelling
of "Xfce" throughout.
 2019-03-27 11:54:06 +01:00
Ludovic Courtès ee05cc7fe3
services: Deprecate 'gnome-desktop-service'. 
* gnu/services/desktop.scm (gnome-desktop-service-type)[default-value]:
New field.
(gnome-desktop-service): Deprecate.
* gnu/installer/services.scm (%desktop-environments): Use the (service …)
form for GNOME.
* gnu/system/examples/desktop.tmpl: Likewise.
* doc/guix.texi (Desktop Services): Adjust accordingly.
 2019-03-27 11:54:06 +01:00
Ludovic Courtès 1c155ec76b
installer: Use the (service …) form for MATE. 
* gnu/installer/services.scm (%desktop-environments): Use
'mate-desktop-service-type' for MATE.
 2019-03-27 11:54:05 +01:00
Ludovic Courtès c73e554c3f
installer: Ask for confirmation before formatting partitions. 
* gnu/installer/newt/page.scm (run-confirmation-page): New procedure.
* gnu/installer/newt/partition.scm (draw-formatting-page): Call it.
 2019-03-27 11:54:05 +01:00
Ludovic Courtès 50247be5f4
installer: Produce an 'initrd-modules' field if needed. 
* gnu/installer/parted.scm (root-user-partition?): New procedure.
(bootloader-configuration): Use it.
(user-partition-missing-modules, initrd-configuration): New procedures.
(user-partitions->configuration): Call 'initrd-configuration'.o
* gnu/installer.scm (not-config?): Rename to...
(module-to-import?): ... this.  Add cases to exclude non-installer and
non-build (gnu …) modules.
(installer-program)[installer-builder]: Add GUIX to the extension list.
 2019-03-27 11:54:05 +01:00
Ludovic Courtès 54043bf23f
installer: Emit 'bootloader' field before 'swap-devices'. 
* gnu/installer/parted.scm (user-partitions->configuration): Move
'bootloader' section above 'swap-devices'.
 2019-03-27 11:54:05 +01:00
Pierre Neidhardt 37099f5844
gnu: Add emacs-webfeeder. 
* gnu/packages/emacs-xyz.scm (emacs-webfeeder): New variable.
 2019-03-27 11:33:09 +01:00
Ricardo Wurmus 58d8225ddb
gnu: trim-galore: Add pigz. 
* gnu/packages/bioinformatics.scm (trim-galore)[inputs]: Add pigz.
[arguments]: Embed reference to pigz.
 2019-03-27 11:32:08 +01:00
Ricardo Wurmus 5f1e31094d
gnu: trim-galore: Fix test for Python. 
* gnu/packages/bioinformatics.scm (trim-galore)[arguments]: Replace
"configure" phase to skip ill-advised test for Python.
 2019-03-27 11:28:38 +01:00
Ricardo Wurmus 2a509880d4
gnu: hdf-java: Adjust indentation. 
* gnu/packages/maths.scm (hdf-java): Adjust indentation.
 2019-03-27 10:47:34 +01:00
Ricardo Wurmus 64dc8b0bfd
gnu: hdf-java: Fix build. 
* gnu/packages/maths.scm (hdf-java)[arguments]: Fix copying from automake;
substitute embedded hdf5 version number.
 2019-03-27 10:13:46 +01:00
Ricardo Wurmus 9286c0f7e8
gnu: hdf-java: Use INVOKE. 
* gnu/packages/maths.scm (hdf-java)[arguments]: Unconditionally return #T from
build phases.
 2019-03-27 10:12:57 +01:00
Ricardo Wurmus dfe420ee46
gnu: r-rhdf5lib: Update to 1.4.3. 
* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.4.3.
 2019-03-27 09:33:50 +01:00
Ricardo Wurmus 3b6c77445b
gnu: r-genomicfeatures: Update to 1.34.7. 
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.34.7.
 2019-03-27 09:33:50 +01:00
Ricardo Wurmus a12c527d3c
gnu: r-hdf5r: Update to 1.1.1. 
* gnu/packages/cran.scm (r-hdf5r): Update to 1.1.1.
 2019-03-27 09:33:50 +01:00
Ricardo Wurmus a7332d1a2f
gnu: r-caret: Update to 6.0-82. 
* gnu/packages/statistics.scm (r-caret): Update to 6.0-82.
 2019-03-27 09:33:50 +01:00
Ricardo Wurmus 733b3c59da
gnu: r-gtable: Update to 0.3.0. 
* gnu/packages/statistics.scm (r-gtable): Update to 0.3.0.
 2019-03-27 09:33:50 +01:00
Ricardo Wurmus fc64504f2d
gnu: grantlee: Delete broken tests. 
* gnu/packages/qt.scm (grantlee)[arguments]: Add phase "delete-broken-tests".
 2019-03-27 09:33:50 +01:00
Kei Kebreau 4fee5ec049
gnu: Add adanaxis-mush and adanaxisgpl. 
* gnu/packages/games.scm (adanaxis-mush, adanaxisgpl): New variables.
 2019-03-26 20:59:15 -04:00
Pierre Langlois 4dcf221c85
gnu: qjackctl: Re-enable xunique. 
Version 0.5.6 of qjackctl appears to have fixed the xunique
bug that was causing X hanging when using tiling window managers.

See d54a1da43f/ChangeLog (L9)

* gnu/packages/audio.scm (qjackctl)[arguments]: Remove "--disable-xunique"
from configure-flags.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-03-27 00:09:38 +01:00
Ricardo Wurmus dd2f0cdba1
gnu: python-django-overextends: Use INVOKE. 
* gnu/packages/django.scm (python-django-overextends)[arguments]: Use INVOKE.
 2019-03-27 00:04:07 +01:00
Ricardo Wurmus de6be02379
gnu: python-django-contact-form: Use INVOKE. 
* gnu/packages/django.scm (python-django-contact-form)[arguments]: Use INVOKE.
 2019-03-27 00:03:31 +01:00
Ricardo Wurmus 7cdc7e579b
gnu: fritzing: Update to 0.9.3b. 
* gnu/packages/engineering.scm (fritzing): Update to 0.9.3b.
[source]: Fetch from git.
[arguments]: Use INVOKE and adjust configure phase.
[inputs]: Add libgit2; fetch fritzing-parts-db via git.
 2019-03-26 23:58:33 +01:00
Ricardo Wurmus 68631e037b
gnu: ldc: Use INVOKE. 
* gnu/packages/dlang.scm (ldc)[arguments]: Use INVOKE.
 2019-03-26 23:13:54 +01:00
Ricardo Wurmus 4b81d5c4bc
gnu: ldc-bootstrap: Use INVOKE. 
* gnu/packages/dlang.scm (ldc-bootstrap)[arguments]: Use INVOKE and
unconditionally return #T from build phase.
 2019-03-26 23:13:54 +01:00
Ricardo Wurmus 27cd31e6a5
gnu: open-adventure: Use INVOKE. 
* gnu/packages/games.scm (open-adventure)[arguments]: Use INVOKE.
 2019-03-26 23:13:54 +01:00
Ricardo Wurmus 7b67bb1fab
gnu: 0ad: Use INVOKE. 
* gnu/packages/games.scm (0ad)[arguments]: Use INVOKE.
 2019-03-26 23:13:51 +01:00
Pierre Neidhardt c771b799bd
gnu: Add jami-client-gnome. 
* gnu/packages/telephony.scm (jami-client-gnome): New variable.
 2019-03-26 19:17:01 +01:00
Pierre Neidhardt b630967247
gnu: Add libringclient. 
* gnu/packages/telephony.scm (libringclient): New variable.
 2019-03-26 19:17:01 +01:00
Pierre Neidhardt 1bfcb19bc3
gnu: Add libring. 
* gnu/packages/telephony.scm (libring): New variable.
 2019-03-26 19:17:01 +01:00
Pierre Neidhardt 915829e662
gnu: Add pjproject-jami. 
* gnu/packages/telephony.scm (pjproject-jami): New variable.
 2019-03-26 19:17:01 +01:00
Pierre Neidhardt bd4b6f4164
gnu: Add pjproject. 
* gnu/packages/telephony.scm (pjproject): New variable.
 2019-03-26 19:17:01 +01:00
Ludovic Courtès 863519f660
gnu: current-guix: Delay effectful bits. 
* gnu/packages/package-management.scm (current-guix): Delay 'repository-root'.
 2019-03-26 18:11:52 +01:00
Ricardo Wurmus 28d32817d8
gnu: python-scanpy: Update to 1.4. 
* gnu/packages/bioinformatics.scm (python-scanpy): Update to 1.4.
[source]: Fetch from git.
[arguments]: Disable broken tests.
[native-inputs]: Add python-pytest.
[home-page]: Use HTTPS.
 2019-03-26 18:06:35 +01:00
Ricardo Wurmus 8c9372c124
gnu: python-anndata: Update to 0.6.18. 
* gnu/packages/python-xyz.scm (python-anndata): Update to 0.6.18.
 2019-03-26 17:13:13 +01:00
Ricardo Wurmus fdc316f374
gnu: trim-galore: Update to 0.6.1. 
* gnu/packages/bioinformatics.scm (trim-galore): Update to 0.6.1.
[arguments]: Adjust patching.
 2019-03-26 16:40:42 +01:00
Ricardo Wurmus 9ac17c6242
gnu: cutadapt: Update to 2.1. 
* gnu/packages/bioinformatics.scm (cutadapt): Update to 2.1.
[source]: Fetch from pypi.
[native-inputs]: Add python-setuptools-scm.
 2019-03-26 16:40:42 +01:00
Ricardo Wurmus 24d6498972
gnu: python-xopen: Update to 0.5.0. 
* gnu/packages/python-xyz.scm (python-xopen): Update to 0.5.0.
 2019-03-26 16:40:42 +01:00
Pierre Neidhardt f95e33a7ad
gnu: edgar: Rename package to the-legend-of-edgar. 
* gnu/packages/games.scm (edgar): Define in terms of
'deprecated-package'.
(the-legend-of-edgar): New variable, formerly known as "edgar".
 2019-03-26 13:44:01 +01:00
Pierre Neidhardt b1aee9fce2
gnu: btanks: Rename package to battle-tanks. 
* gnu/packages/games.scm (btanks): Define in terms of
'deprecated-package'.
(battle-tanks): New variable, formerly known as "btanks".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt f6a21d61de
gnu: tome4: Rename package to tales-of-maj-eyal. 
* gnu/packages/games.scm (tome4): Define in terms of
'deprecated-package'.
(tales-of-maj-eyal): New variable, formerly known as "tome4".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt 24a67aef2a
gnu: crawl-tiles: Rename package to dungeon-crawl-stone-soup-tiles. 
* gnu/packages/games.scm (crawl-tiles): Define in terms of
'deprecated-package'.
(dungeon-crawl-stone-soup-tiles): New variable, formerly known as "crawl-tiles".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt 36a0b5b48c
gnu: crawl: Rename package to dungeon-crawl-stone-soup. 
* gnu/packages/games.scm (crawl): Define in terms of
'deprecated-package'.
(dungeon-crawl-stone-soup): New variable, formerly known as "crawl".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt 8b6e2bc15f
gnu: fillets-ng: Rename package to fish-fillets-ng. 
* gnu/packages/games.scm (fillets-ng): Define in terms of
'deprecated-package'.
(fish-fillets-ng): New variable, formerly known as "fillets-ng".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt 6639295f2f
gnu: kiki: Rename package to kiki-the-nano-bot. 
* gnu/packages/games.scm (kiki): Define in terms of
'deprecated-package'.
(kiki-the-nano-bot): New variable, formerly known as "kiki".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt 184f5c8db1
gnu: starfighter: Rename package to project-starfighter. 
* gnu/packages/games.scm (starfighter): Define in terms of
'deprecated-package'.
(project-starfighter): New variable, formerly known as "starfighter".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt ecdb1348ad
gnu: wesnoth-server: Rename package to the-battle-for-wesnoth-server. 
* gnu/packages/games.scm (wesnoth-server): Define in terms of
'deprecated-package'.
(the-battle-for-wesnoth-server): New variable, formerly known as "wesnoth-server".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt 375cb94130
gnu: wesnoth: Rename package to the-battle-for-wesnoth. 
* gnu/packages/games.scm (wesnoth): Define in terms of
'deprecated-package'.
(the-battle-for-wesnoth): New variable, formerly known as "wesnoth".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt c91ed484d0
gnu: abbaye: Rename package to l-abbaye-des-morts. 
* gnu/packages/games.scm (abbaye): Define in terms of
'deprecated-package'.
(l-abbaye-des-morts): New variable, formerly known as "abbaye".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt c97e4d8bbe
gnu: gnubg: Rename package to gnubackgammon. 
* gnu/packages/games.scm (gnubg): Define in terms of
'deprecated-package'.
(gnubackgammon): New variable, formerly known as "gnubg".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt 973bd8a62c
gnu: cataclysm-dda: Rename package to cataclysm-dark-days-ahead. 
* gnu/packages/games.scm (cataclysm-dda): Define in terms of
'deprecated-package'.
(cataclysm-dark-days-ahead): New variable, formerly known as "cataclysm-dda".
 2019-03-26 13:44:00 +01:00
Pierre Neidhardt df42e0f9c9
gnu: armagetronad: Rename package to armagetron-advanced. 
* gnu/packages/games.scm (armagetronad): Define in terms of
'deprecated-package'.
(armagetron-advanced): New variable, formerly known as "armagetronad".
 2019-03-26 13:44:00 +01:00
Danny Milosavljevic ceab612374
gnu: docker: Use disjunct temp directories for probing. 
* gnu/packages/patches/docker-use-fewer-modprobes.patch: Use disjunct temp
directories for probing.
 2019-03-26 12:23:36 +01:00
Danny Milosavljevic 5e00dcc89e
gnu: docker: Add comment. 
* gnu/packages/patches/docker-use-fewer-modprobes.patch: Add comment.
 2019-03-26 12:23:36 +01:00
Ludovic Courtès e6301fb76d
packages: Adjust to new calling convention for "thunked" fields. 
Fixes <https://bugs.gnu.org/34995>.

This is a followup to abd4d6b33d.

* guix/packages.scm (package->bag): Adjust calls to INPUTS,
PROPAGATED-INPUTS, NATIVE-INPUTS, and ARGS, passing them SELF as an
argument.
* gnu/packages/gnucash.scm (gnucash)[arguments]: Use (package-inputs
this-record) intead of (inputs).
* gnu/packages/version-control.scm (git)[arguments]: Likewise.
 2019-03-26 10:26:02 +01:00
nee 6c177f6140
gnu: gzdoom: Update to 3.7.2. 
* gnu/packages/games.scm (gzdoom): Update to 3.7.2.
[source](uri): Update path.
[source](snippet): Bundled libjpeg directory has been renamed.

Signed-off-by: Kei Kebreau <kkebreau@posteo.net>
 2019-03-25 21:26:43 -04:00
Ludovic Courtès 69cae3d335
system: Add 'essential-services' field to <operating-system>. 
* gnu/system.scm (<operating-system>)[essential-services]: New field.
(operating-system-directory-base-entries): Remove #:container? keyword
and keep only the not-container branch.
(essential-services): Likewise.
(operating-system-services): Likewise, and call
'operating-system-essential-services' instead of 'essential-services'.
(operating-system-activation-script): Remove #:container?.
(operating-system-boot-script): Likewise.
(operating-system-derivation): Likewise.
* gnu/system/linux-container.scm (container-essential-services): New procedure.
(containerized-operating-system): Use it and set the
'essential-services' field.
(container-script): Remove call to 'operating-system-derivation'.
* gnu/system/vm.scm (system-docker-image): Likewise.
* doc/guix.texi (operating-system Reference): Document 'essential-services'.
 2019-03-25 23:37:06 +01:00
Ludovic Courtès cf848cc0a1
accounts: Add default value for the 'home-directory' field of <user-account>. 
* gnu/system/accounts.scm (<user-account>)[home-directory]: Mark as
thunked and add a default value.
(default-home-directory): New procedure.
* doc/guix.texi (User Accounts): Remove 'home-directory' from example.
* gnu/system/examples/bare-bones.tmpl: Likewise.
* gnu/system/examples/beaglebone-black.tmpl: Likewise.
* gnu/system/examples/desktop.tmpl: Likewise.
* gnu/system/examples/docker-image.tmpl: Likewise.
* gnu/system/examples/lightweight-desktop.tmpl: Likewise.
* gnu/system/install.scm (installation-os): Likewise.
* gnu/tests.scm (%simple-os): Likewise.
* gnu/tests/install.scm (%minimal-os, %minimal-os-on-vda):
(%separate-home-os, %encrypted-root-os, %btrfs-root-os): Likewise.
* tests/accounts.scm ("allocate-passwd")
("allocate-passwd with previous state"): Likewise.
 2019-03-25 23:37:06 +01:00
Ludovic Courtès 3191b5f6ba
installer: Set the system's 'keyboard-layout' field. 
* gnu/installer/newt/keymap.scm (keyboard-layout->configuration): New
procedure.
* gnu/installer.scm (compute-keymap-step): Return RESULT.
(installer-steps) <'keymap>: Add 'configuration-formatter' field.
(installer-program): Use (gnu installer newt keymap).
* gnu/installer/parted.scm (bootloader-configuration): Set
'keyboard-layout'.
 2019-03-25 23:37:05 +01:00
Ludovic Courtès cde08a5120
gnu: guix: Update to f970946. 
* gnu/packages/package-management.scm (guix): Update to f970946.
 2019-03-25 23:37:05 +01:00
Danny Milosavljevic 516f6f55eb
gnu: docker: Use fewer modprobes. 
Fixes <https://bugs.gnu.org/34333>.
Reported by Allan Adair <allan@adair.io>.

* gnu/packages/patches/docker-use-fewer-modprobes.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/docker.scm (docker)[source]: Use it.
 2019-03-25 20:27:57 +01:00
Leo Famulari cdfb69b46a
gnu: nano: Update to 4.0. 
* gnu/packages/nano.scm (nano): Update to 4.0.
 2019-03-25 15:02:59 -04:00
Marius Bakke b283d5f630
services: SDDM: Specify absolute path to the X server. 
I'm not sure how this service ever worked, but SDDM started consistently
failing on one machine seemingly because of this setting.

* gnu/services/sddm.scm (sddm-configuration-file): Append /bin/X to the
ServerPath setting.
 2019-03-25 19:24:22 +01:00
Ricardo Wurmus b9b177b317
gnu: Add r-svmisc. 
* gnu/packages/cran.scm (r-svmisc): New variable.
 2019-03-25 17:20:14 +01:00
Ricardo Wurmus 3f6e6e9857
gnu: Add r-rjava. 
* gnu/packages/cran.scm (r-rjava): New variable.
 2019-03-25 17:19:47 +01:00
Ricardo Wurmus 4f8b1fb35f
gnu: Add r-r2html. 
* gnu/packages/cran.scm (r-r2html): New variable.
 2019-03-25 16:29:03 +01:00
Ricardo Wurmus 7166b77adc
gnu: Add r-sampling. 
* gnu/packages/cran.scm (r-sampling): New variable.
 2019-03-25 16:28:38 +01:00
Ricardo Wurmus 6bdce94f43
gnu: r-gsl: Update to 2.1-6. 
* gnu/packages/cran.scm (r-gsl): Update to 2.1-6.
 2019-03-25 16:28:20 +01:00
Ricardo Wurmus a6d867fed9
gnu: Add r-sigpathway. 
* gnu/packages/bioconductor.scm (r-sigpathway): New variable.
 2019-03-25 16:20:04 +01:00
Ricardo Wurmus 9d0f794229
gnu: Add r-anota. 
* gnu/packages/bioconductor.scm (r-anota): New variable.
 2019-03-25 16:20:00 +01:00
Ricardo Wurmus c04f230eb3
gnu: Add r-gosemsim. 
* gnu/packages/bioconductor.scm (r-gosemsim): New variable.
 2019-03-25 16:19:52 +01:00
Ricardo Wurmus 3e41919d51
gnu: Add r-heatplus. 
* gnu/packages/bioconductor.scm (r-heatplus): New variable.
 2019-03-25 16:19:40 +01:00
Ricardo Wurmus c538bcdd38
gnu: Add r-varianttools. 
* gnu/packages/bioconductor.scm (r-varianttools): New variable.
 2019-03-25 16:09:16 +01:00
Ricardo Wurmus 8a5460b4fb
gnu: Add r-triform. 
* gnu/packages/bioconductor.scm (r-triform): New variable.
 2019-03-25 16:09:07 +01:00
Ricardo Wurmus 3080b81af6
gnu: Add r-hapassoc. 
* gnu/packages/cran.scm (r-hapassoc): New variable.
 2019-03-25 16:02:15 +01:00
Ricardo Wurmus a0583c0d13
gnu: Add r-hierfstat. 
* gnu/packages/cran.scm (r-hierfstat): New variable.
 2019-03-25 15:58:38 +01:00
Vagrant Cascadian ab7f1eb97a
gnu: Add brightnessctl. 
* gnu/packages/linux.scm (brightnessctl): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-03-25 15:21:15 +01:00
Ricardo Wurmus 80eb01c776
gnu: r-gkmsvm: Move to (gnu packages bioconductor). 
* gnu/packages/bioinformatics.scm (r-gkmsvm): Move from here...
* gnu/packages/bioconductor.scm (r-gkmsvm): ...to here.
 2019-03-25 14:34:41 +01:00
Ricardo Wurmus bac0ca322c
gnu: r-kernlab: Move to (gnu packages cran). 
* gnu/packages/machine-learning.scm (r-kernlab): Move from here...
* gnu/packages/cran.scm (r-kernlab): ...to here.
 2019-03-25 14:33:02 +01:00
Ricardo Wurmus c5a2b518ad
gnu: r-wgcna: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-wgcna): Move from here...
* gnu/packages/cran.scm (r-wgcna): ...to here.
 2019-03-25 14:05:09 +01:00
Ricardo Wurmus 72a216a9d0
gnu: r-optparse: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-optparse): Move from here...
* gnu/packages/cran.scm (r-optparse): ...to here.
 2019-03-25 14:04:19 +01:00
Ricardo Wurmus 0ef062b338
gnu: r-bookdown: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-bookdown): Move from here...
* gnu/packages/cran.scm (r-bookdown): ...to here.
 2019-03-25 14:03:21 +01:00
Ricardo Wurmus 469fb43891
gnu: r-sparql: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-sparql): Move from here...
* gnu/packages/cran.scm (r-sparql): ...to here.
 2019-03-25 14:01:56 +01:00
Ricardo Wurmus 7cd4ff2f0c
gnu: Add r-tdthap. 
* gnu/packages/cran.scm (r-tdthap): New variable.
 2019-03-25 14:00:32 +01:00
Ricardo Wurmus b8fea3c859
gnu: Add r-hwde. 
* gnu/packages/cran.scm (r-hwde): New variable.
 2019-03-25 14:00:32 +01:00
Ricardo Wurmus 1cdd9f0e8a
gnu: Add r-ldheatmap. 
* gnu/packages/cran.scm (r-ldheatmap): New variable.
 2019-03-25 14:00:32 +01:00
Ricardo Wurmus d4a255a484
gnu: Add r-dlmap. 
* gnu/packages/cran.scm (r-dlmap): New variable.
 2019-03-25 14:00:32 +01:00
Ricardo Wurmus 73fcd22244
gnu: Add r-ibdreg. 
* gnu/packages/cran.scm (r-ibdreg): New variable.
 2019-03-25 14:00:31 +01:00
Ricardo Wurmus bffb58269f
gnu: Add r-bqtl. 
* gnu/packages/cran.scm (r-bqtl): New variable.
 2019-03-25 14:00:31 +01:00
Tobias Geerinckx-Rice c3b5c803f0
gnu: perl-svg: Update source URL. 
* gnu/packages/perl.scm (perl-svg)[source]: Update URL.
 2019-03-25 14:11:03 +01:00
Tobias Geerinckx-Rice 034eae9c12
gnu: perl-class-date: Update source URL. 
* gnu/packages/perl.scm (perl-class-date)[source]: Update URL.
 2019-03-25 14:11:03 +01:00
Tobias Geerinckx-Rice 587f764e2a
gnu: perl-mouse: Update source URL. 
* gnu/packages/perl.scm (perl-mouse)[source]: Update URL.
 2019-03-25 14:11:02 +01:00
Tobias Geerinckx-Rice 2db3b2d303
gnu: perl-carp: Update source URL. 
* gnu/packages/perl.scm (perl-carp)[source]: Update URL.
 2019-03-25 14:11:02 +01:00
Tobias Geerinckx-Rice a4876fbe17
gnu: perl-class-accessor-grouped: Update source URL. 
* gnu/packages/perl.scm (perl-class-accessor-grouped)[source]:
Update URL.
 2019-03-25 14:10:45 +01:00
Tobias Geerinckx-Rice a7da90936f
gnu: perl-base: Update source URL. 
* gnu/packages/perl.scm (perl-base)[source]: Update URL.
 2019-03-25 13:34:59 +01:00
Tobias Geerinckx-Rice 83617aec58
gnu: perl-datetime-calendar-julian: Update source URL. 
* gnu/packages/perl.scm (perl-datetime-calendar-julian)[source]: Update URL.
 2019-03-25 13:31:29 +01:00
Tobias Geerinckx-Rice ae61388fb5
gnu: perl-carp-clan: Update source URL. 
* gnu/packages/perl.scm (perl-carp-clan)[source]: Update URL.
 2019-03-25 13:27:48 +01:00
Tobias Geerinckx-Rice e68f20502c
gnu: perl-class-c3-componentised: Update source URL. 
* gnu/packages/perl.scm (perl-class-c3-componentised)[source]:
Update URL.
 2019-03-25 13:18:35 +01:00
Tobias Geerinckx-Rice 5ca9cb1e17
gnu: perl-plack-test-externalserver: Update source URL. 
* gnu/packages/web.scm (perl-plack-test-externalserver)[source]:
Update URL.
 2019-03-25 13:11:25 +01:00
Tobias Geerinckx-Rice fd9fe868f8
gnu: perl-moosex-emulate-class-accessor-fast: Update source URL. 
* gnu/packages/perl.scm (perl-moosex-emulate-class-accessor-fast)
[source]: Update URL.
 2019-03-25 12:59:39 +01:00
Tobias Geerinckx-Rice 357b69499a
gnu: perl-log-any: Update source URL. 
* gnu/packages/perl.scm (perl-log-any)[source]: Update URL.
 2019-03-25 12:59:39 +01:00
Tobias Geerinckx-Rice 3ed36f3153
gnu: perl-file-temp: Update source URL. 
* gnu/packages/perl.scm (perl-file-temp)[source]: Update URL.
 2019-03-25 12:59:39 +01:00
Tobias Geerinckx-Rice 799f484251
gnu: perl-object-signature: Update source URL. 
* gnu/packages/perl.scm (perl-object-signature)[source]: Update URL.
 2019-03-25 12:59:39 +01:00
Meiyo Peng f970946c1d
gnu: fmt: Update to 5.3.0. 
* gnu/packages/pretty-print.scm (fmt): Update to 5.3.0.
  [arguments]: Remove #:configure-flags.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:27 +01:00
Brian Leung 8dc329656b
gnu: Add emacs-company-jedi. 
* gnu/packages/emacs-xyz.scm (emacs-company-jedi): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Brian Leung 1172d914ea
gnu: Add emacs-company-flow. 
* gnu/packages/emacs-xyz.scm (emacs-company-flow): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Brian Leung 06aff73855
gnu: Add emacs-jedi. 
* gnu/packages/emacs-xyz.scm (emacs-jedi): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Brian Leung 16f6a75db0
gnu: Add emacs-python-environment. 
* gnu/packages/emacs-xyz.scm (emacs-python-environment): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Brian Leung 13e99cfcd8
gnu: Add emacs-prescient. 
* gnu/packages/emacs-xyz.scm (emacs-prescient): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Brian Leung 5247cd2a5e
gnu: Add emacs-company-auctex. 
* gnu/packages/emacs-xyz.scm (emacs-company-auctex): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Brian Leung 6cd504ce75
gnu: Add emacs-company-cabal. 
* gnu/packages/emacs-xyz.scm (emacs-company-cabal): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Brian Leung bb034ab080
gnu: Add emacs-company-lsp. 
* gnu/packages/emacs-xyz.scm (emacs-company-lsp): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Pierre Langlois de5ea7d961
gnu: Add gPodder. 
* gnu/packages/podcast.scm (gpodder): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:26 +01:00
Pierre Langlois b58ab1598f
gnu: Add python-mygpoclient. 
* gnu/packages/gpodder.scm (python-mygpoclient): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-03-25 11:39:25 +01:00
Mark H Weaver 4518a9dfa8
gnu: icecat: Update to 60.6.1-guix1 [security fixes]. 
Includes fixes for CVE-2019-9810 and CVE-2019-9813.

* gnu/packages/gnuzilla.scm (%icecat-version): Update to 60.6.1-guix1.
(icecat-source)[upstream-firefox-source]: Update hash.
 2019-03-25 05:23:39 -04:00
Ricardo Wurmus cd47dcf6a2
gnu: Add r-haplo-stats. 
* gnu/packages/cran.scm (r-haplo-stats): New variable.
 2019-03-25 10:02:03 +01:00
Ricardo Wurmus a8c965cfec
gnu: Add r-rms. 
* gnu/packages/cran.scm (r-rms): New variable.
 2019-03-25 10:02:03 +01:00
Ricardo Wurmus 6a472af3f6
gnu: Add r-polspline. 
* gnu/packages/cran.scm (r-polspline): New variable.
 2019-03-25 10:02:03 +01:00
Ricardo Wurmus 5ef7d057ed
gnu: Add r-snp-plotter. 
* gnu/packages/cran.scm (r-snp-plotter): New variable.
 2019-03-25 10:02:02 +01:00
Ricardo Wurmus 601ddf02cc
gnu: Add r-genetics. 
* gnu/packages/cran.scm (r-genetics): New variable.
 2019-03-25 10:02:02 +01:00
Mark H Weaver 33b233ba63
gnu: linux-libre: Update to 5.0.4. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.4.
(%linux-libre-hash): Update hash.
 2019-03-25 01:23:04 -04:00
Mark H Weaver be6d2713d3
gnu: linux-libre@4.19: Update to 4.19.31. 
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.31.
(%linux-libre-4.19-hash): Update hash.
 2019-03-25 01:22:06 -04:00
Mark H Weaver 60b223ac51
gnu: linux-libre@4.14: Update to 4.14.108. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.108.
(%linux-libre-4.14-hash): Update hash.
 2019-03-25 01:21:12 -04:00
Mark H Weaver eb69d5ddde
gnu: linux-libre@4.9: Update to 4.9.165. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.165.
 2019-03-25 01:20:35 -04:00
Mark H Weaver e02b7694ec
gnu: linux-libre@4.4: Update to 4.4.177. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.177.
 2019-03-25 01:19:39 -04:00
Ludovic Courtès 70bb83b7b2
services: xorg: Fix cases where 'keyboard-layout' is #f. 
This is a followup to 598757e038.

* gnu/services/xorg.scm (xorg-configuration->file): Check whether
'xorg-configuration-keyboard-layout' returns #f before calling
'keyboard-layout-options'.
 2019-03-25 00:21:48 +01:00
Oleg Pykhalov b9a57fd1b2
gnu: perl-uri-escape: Update source tarball URL. 
* gnu/packages/perl-web.scm (perl-uri-escape)[source]: Update URL.
 2019-03-25 01:59:50 +03:00
Ricardo Wurmus 8559df6406
gnu: perl6-meta6: Remove unsupported syntax from description. 
* gnu/packages/perl6.scm (perl6-meta6)[description]: Remove @quot.
 2019-03-24 23:55:03 +01:00
Ricardo Wurmus b15d19a651
gnu: perl6-json-class: Remove unsupported syntax from description. 
* gnu/packages/perl6.scm (perl6-json-class)[description]: Remove @quot.
 2019-03-24 23:54:51 +01:00
Ricardo Wurmus cd977b35be
gnu: Add r-rmetasim. 
* gnu/packages/cran.scm (r-rmetasim): New variable.
 2019-03-24 23:44:13 +01:00
Ricardo Wurmus 3d2bc81751
gnu: Add r-pegas. 
* gnu/packages/cran.scm (r-pegas): New variable.
 2019-03-24 23:44:13 +01:00
Ricardo Wurmus 91c1fbdfdd
gnu: Add r-adegenet. 
* gnu/packages/cran.scm (r-adegenet): New variable.
 2019-03-24 23:44:13 +01:00
Ricardo Wurmus c4d521ba2c
gnu: r-seqinr: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-seqinr): Move from here...
* gnu/packages/cran.scm (r-seqinr): ...to here.
 2019-03-24 23:44:13 +01:00
Ricardo Wurmus 49a48c496f
gnu: r-acsnminer: Move to (gnu packages cran). 
* gnu/packages/bioinformatics.scm (r-acsnminer): Move from here...
* gnu/packages/cran.scm (r-acsnminer): ...to here.
 2019-03-24 23:44:13 +01:00
Ricardo Wurmus e371e534a7
gnu: Add r-spdep. 
* gnu/packages/cran.scm (r-spdep): New variable.
 2019-03-24 23:44:13 +01:00
Ricardo Wurmus d884e4072b
gnu: Add r-sf. 
* gnu/packages/cran.scm (r-sf): New variable.
 2019-03-24 23:44:12 +01:00
Ricardo Wurmus dcc502865c
gnu: Add r-deldir. 
* gnu/packages/cran.scm (r-deldir): New variable.
 2019-03-24 23:44:12 +01:00
Ricardo Wurmus e5228273de
gnu: Add r-learnbayes. 
* gnu/packages/cran.scm (r-learnbayes): New variable.
 2019-03-24 23:44:12 +01:00
Ricardo Wurmus 66c08ff4c3
gnu: Add r-spdata. 
* gnu/packages/cran.scm (r-spdata): New variable.
 2019-03-24 23:44:12 +01:00
Ricardo Wurmus 518c1dea10
gnu: Add r-classint. 
* gnu/packages/cran.scm (r-classint): New variable.
 2019-03-24 23:44:12 +01:00
Ricardo Wurmus 7002c44fb0
gnu: Add r-units. 
* gnu/packages/cran.scm (r-units): New variable.
 2019-03-24 23:44:12 +01:00