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
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
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
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
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
6994e67436
etc: Add "rename" snippet.
...
* etc/snippets/text-mode/guix-commit-message-rename-package: New file.
2019-03-26 14:18:12 +01:00
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
5e00dcc89e
gnu: docker: Add comment.
...
* gnu/packages/patches/docker-use-fewer-modprobes.patch: Add comment.
2019-03-26 12:23:36 +01:00
e6301fb76d
packages: Adjust to new calling convention for "thunked" fields.
...
Fixes <https://bugs.gnu.org/34995 >.
This is a followup to abd4d6b33d
2019-03-26 10:26:02 +01:00
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
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
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
abd4d6b33d
records: Allow thunked fields to refer to 'this-record'.
...
* guix/records.scm (this-record): New syntax parameter.
(make-syntactic-constructor)[wrap-field-value]: When F is thunked,
return a one-argument lambda instead of a thunk, and parameterize
THIS-RECORD.
(define-record-type*)[thunked-field-accessor-definition]: Pass X
to (real-get X).
* tests/records.scm ("define-record-type* & thunked & this-record")
("define-record-type* & thunked & default & this-record")
("define-record-type* & thunked & inherit & this-record"): New tests.
2019-03-25 23:37:06 +01:00
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
cde08a5120
gnu: guix: Update to f970946.
...
* gnu/packages/package-management.scm (guix): Update to f970946
2019-03-25 23:37:05 +01:00
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
cdfb69b46a
gnu: nano: Update to 4.0.
...
* gnu/packages/nano.scm (nano): Update to 4.0.
2019-03-25 15:02:59 -04:00
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
b9b177b317
gnu: Add r-svmisc.
...
* gnu/packages/cran.scm (r-svmisc): New variable.
2019-03-25 17:20:14 +01:00
3f6e6e9857
gnu: Add r-rjava.
...
* gnu/packages/cran.scm (r-rjava): New variable.
2019-03-25 17:19:47 +01:00
4f8b1fb35f
gnu: Add r-r2html.
...
* gnu/packages/cran.scm (r-r2html): New variable.
2019-03-25 16:29:03 +01:00
7166b77adc
gnu: Add r-sampling.
...
* gnu/packages/cran.scm (r-sampling): New variable.
2019-03-25 16:28:38 +01:00
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
a6d867fed9
gnu: Add r-sigpathway.
...
* gnu/packages/bioconductor.scm (r-sigpathway): New variable.
2019-03-25 16:20:04 +01:00
9d0f794229
gnu: Add r-anota.
...
* gnu/packages/bioconductor.scm (r-anota): New variable.
2019-03-25 16:20:00 +01:00
c04f230eb3
gnu: Add r-gosemsim.
...
* gnu/packages/bioconductor.scm (r-gosemsim): New variable.
2019-03-25 16:19:52 +01:00
3e41919d51
gnu: Add r-heatplus.
...
* gnu/packages/bioconductor.scm (r-heatplus): New variable.
2019-03-25 16:19:40 +01:00
c538bcdd38
gnu: Add r-varianttools.
...
* gnu/packages/bioconductor.scm (r-varianttools): New variable.
2019-03-25 16:09:16 +01:00
8a5460b4fb
gnu: Add r-triform.
...
* gnu/packages/bioconductor.scm (r-triform): New variable.
2019-03-25 16:09:07 +01:00
3080b81af6
gnu: Add r-hapassoc.
...
* gnu/packages/cran.scm (r-hapassoc): New variable.
2019-03-25 16:02:15 +01:00
a0583c0d13
gnu: Add r-hierfstat.
...
* gnu/packages/cran.scm (r-hierfstat): New variable.
2019-03-25 15:58:38 +01:00
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
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
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
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
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