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Author SHA1 Message Date
Brett Gilio
3490212a41
gnu: emacs-dash: Update to 2.15.0. 
* gnu/packages/emacs-xyz.scm (emacs-dash): Update to 2.15.0.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-03-14 11:37:35 +01:00
Vagrant Cascadian
8cd10b22f9
gnu: Update dtc to 1.5.0. 
* gnu/packages/bootloaders (dtc): Update to 1.5.0.
[native-inputs]: Add libyaml and pkg-config.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-03-14 11:02:40 +01:00
Meiyo Peng
bb2f114de9
gnu: fish: Update to 3.0.2. 
* gnu/packages/shells.scm (fish): Update to 3.0.2.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-03-14 11:01:11 +01:00
Nicolò Balzarotti
100f56024e
gnu: Add r-rematch2. 
* gnu/packages/cran.scm (r-rematch2): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-03-14 10:54:49 +01:00
Leo Famulari
8a55c38915
gnu: w3m: Update to 0.5.3+git20190105. 
* gnu/packages/w3m.scm (w3m): Update to 0.5.3+git20190105.
 2019-03-13 20:06:15 -04:00
Ludovic Courtès
b94c80ff5d
linux-container: 'containerized-operating-system' removes "useless" services. 
Fixes <https://bugs.gnu.org/34211>.
Reported by Efraim Flashner <efraim@flashner.co.il>.

* gnu/system/linux-container.scm (containerized-operating-system)
[useless-services]: New variable.
Add 'services' field.
 2019-03-13 23:12:44 +01:00
Ludovic Courtès
e1c15e8b8e
doc: Document the graphical installer some more. 
* doc/guix.texi (Preparing for Installation): Rewrite to specify the two
installation modes.
(Guided Graphical Installation): New node.
(Manual Installation): New node, with the former sections.
(After System Installation): New node.
* doc/images/installer-network.png, doc/images/installer-partitions.png,
doc/images/installer-resume.png: New files.
* doc/local.mk (dist_infoimage_DATA): Add them.
 2019-03-13 23:12:43 +01:00
Ludovic Courtès
82f29e5b4f
installer: network: Adjust wording. 
* gnu/installer/newt/network.scm (wait-service-online): Adjust wording
of the messages.
 2019-03-13 23:12:43 +01:00
Ludovic Courtès
4cd386afae
linux-modules: Factorize 'missing-modules'. 
* gnu/build/linux-modules.scm (missing-modules): New procedure.
* gnu/system/mapped-devices.scm (check-device-initrd-modules): Use it.
 2019-03-13 23:12:43 +01:00
Ludovic Courtès
59e8044588
Remove traces of "GuixSD". 
* gnu/bootloader/extlinux.scm (extlinux-configuration-file): Remove
mentions of "GuixSD".
* gnu/bootloader/grub.scm (install-grub-efi): Likewise.
* gnu/build/vm.scm (make-iso9660-image): Change default #:volume-id to
"Guix_image".
(initialize-hard-disk): Search for the "Guix_image" label.
* gnu/ci.scm (system-test-jobs, tarball-jobs): Remove "GuixSD".
* gnu/installer/newt/welcome.scm (run-welcome-page): Likewise.
* gnu/packages/audio.scm (supercollider)[description]: Likewise.
* gnu/packages/curl.scm (curl): Likewise.
* gnu/packages/emacs.scm (emacs): Likewise.
* gnu/packages/gnome.scm (network-manager): Likewise.
* gnu/packages/julia.scm (julia): Likewise.
* gnu/packages/linux.scm (alsa-plugins): Likewise.
(powertop, wireless-regdb): Likewise.
* gnu/packages/package-management.scm (guix): Likewise.
* gnu/packages/polkit.scm (polkit): Likewise.
* gnu/packages/tex.scm (texlive-bin): Likewise.
* gnu/services/base.scm (file-systems->fstab): Likewise.
* gnu/services/cups.scm (%cups-activation): Likewise.
* gnu/services/mail.scm (%dovecot-activation): Likewise.
* gnu/services/messaging.scm (prosody-configuration)[log]: Likewise.
* gnu/system/examples/vm-image.tmpl (vm-image-motd): Likewise.
* gnu/system/install.scm (installation-os)[file-systems]: Change root
file system label to "Guix_image".
* gnu/system/mapped-devices.scm (check-device-initrd-modules):
Remove "GuixSD".
* gnu/system/vm.scm (system-docker-image): Likewise.
(system-disk-image)[root-label]: Change to "Guix_image".
* gnu/tests/install.scm (run-install): Remove "GuixSD".
* guix/modules.scm (guix-module-name?): Likewise.
* nix/libstore/optimise-store.cc: Likewise.
 2019-03-13 23:12:43 +01:00
Ludovic Courtès
13f62aef2d
maint: Change Guix System file names from guixsd-*. 
* Makefile.am (GUIXSD_SUPPORTED_SYSTEMS): Rename to...
(GUIX_SYSTEM_SUPPORTED_SYSTEMS): ... this.
(GUIXSD_VM_SYSTEMS): Rename to...
(GUIX_SYSTEM_VM_SYSTEMS): ... this.
(GUIXSD_IMAGE_BASE): Rename to...
(GUIX_SYSTEM_IMAGE_BASE): ... this.  Change "guixsd-" to "guix-system-".
(GUIXSD_VM_IMAGE_BASE): Rename to...
(GUIX_SYSTEM_VM_IMAGE_BASE): ... this.  Change "guixsd-" to
"guix-system-".
(release): Adjust accordingly.
* doc/guix.texi (USB Stick and DVD Installation)
(Installing Guix in a VM, Invoking guix system)
(Running Guix in a VM): Adjust file names accordingly.
 2019-03-13 23:12:43 +01:00
Ricardo Wurmus
fd4c7a098a
gnu: Add python-velocyto. 
* gnu/packages/bioinformatics.scm (python-velocyto): New variable.
 2019-03-13 22:48:53 +01:00
Ricardo Wurmus
55a0a3c853
gnu: python-loompy: Update to 2.0.17. 
* gnu/packages/bioinformatics.scm (python-loompy): Update to 2.0.17.
[source]: Fetch via git.
[arguments]: Enable tests, replace "check" phase.
[propagated-inputs]: Add python-pandas.
[native-inputs]: Add python-pytest.
 2019-03-13 22:48:52 +01:00
Oleg Pykhalov
1f058eced3
gnu: Add emacs-dockerfile-mode. 
* gnu/packages/emacs-xyz.scm (emacs-dockerfile-mode): New variable.
 2019-03-13 23:23:49 +03:00
Oleg Pykhalov
18964a6029
gnu: Add emacs-docker. 
* gnu/packages/emacs-xyz.scm (emacs-docker): New variable.
 2019-03-13 23:23:49 +03:00
Oleg Pykhalov
3899ae891c
gnu: Add emacs-docker-tramp. 
* gnu/packages/emacs-xyz.scm (emacs-docker-tramp): New variable.
 2019-03-13 23:23:49 +03:00
Ricardo Wurmus
7757e6d8b9
gnu: python-numba: Update to 0.42.0. 
* gnu/packages/python-xyz.scm (python-numba): Update to 0.42.0.
 2019-03-13 20:44:25 +01:00
Ricardo Wurmus
f932540773
gnu: python-llvmlite: Update to 0.27.1. 
* gnu/packages/llvm.scm (python-llvmlite): Update to 0.27.1.
[inputs]: Update patch for custom LLVM variant.
 2019-03-13 20:43:55 +01:00
Ricardo Wurmus
6d37301bd5
gnu: Add python-on-guile. 
* gnu/packages/guile-xyz.scm (python-on-guile): New variable.
 2019-03-13 20:43:35 +01:00
Ricardo Wurmus
8f05252862
gnu: guile-persist: Install go files to canonical directory. 
* gnu/packages/guile-xyz.scm (guile-persist)[arguments]: Patch target
directory for go files in build phase "patch-prefix".
 2019-03-13 20:42:23 +01:00
Ricardo Wurmus
8318b3ed8c
gnu: guile-stis-parser: Install go files to canonical directory. 
* gnu/packages/guile-xyz.scm (guile-stis-parser)[arguments]: Add build phase
"use-canonical-directory-for-go-files".
 2019-03-13 20:41:41 +01:00
Ricardo Wurmus
b9445d0b76
gnu: Add kaldi. 
* gnu/packages/machine-learning.scm (kaldi): New variable.
 2019-03-13 19:30:19 +01:00
Ricardo Wurmus
a97796cd53
gnu: Add r-valr. 
* gnu/packages/cran.scm (r-valr): New variable.
 2019-03-13 17:19:58 +01:00
Ricardo Wurmus
4291f36a22
gnu: Add r-linnorm. 
* gnu/packages/bioconductor.scm (r-linnorm): New variable.
 2019-03-13 17:13:21 +01:00
Ricardo Wurmus
70daf82f28
gnu: Add python2-argparse. 
* gnu/packages/python-xyz.scm (python2-argparse): New variable.
 2019-03-13 17:11:09 +01:00
Ricardo Wurmus
3942bf5e4c
gnu: Add r-apcluster. 
* gnu/packages/cran.scm (r-apcluster): New variable.
 2019-03-13 17:10:53 +01:00
Ricardo Wurmus
51df43408b
gnu: Add r-gmodels. 
* gnu/packages/cran.scm (r-gmodels): New variable.
 2019-03-13 17:10:41 +01:00
Ricardo Wurmus
0b5d12ccdf
gnu: Add tetoolkit. 
* gnu/packages/bioinformatics.scm (tetoolkit): New variable.
 2019-03-13 15:14:10 +01:00
Ricardo Wurmus
984a8aa644
gnu: Add r-irkernel. 
* gnu/packages/cran.scm (r-irkernel): New variable.
 2019-03-13 14:26:45 +01:00
Ricardo Wurmus
664dedd524
gnu: Add r-irdisplay. 
* gnu/packages/cran.scm (r-irdisplay): New variable.
 2019-03-13 14:26:34 +01:00
Ricardo Wurmus
d17186d626
gnu: Add r-repr. 
* gnu/packages/cran.scm (r-repr): New variable.
 2019-03-13 14:26:25 +01:00
Ricardo Wurmus
f313baf0c8
gnu: Add r-pbdzmq. 
* gnu/packages/cran.scm (r-pbdzmq): New variable.
 2019-03-13 14:26:08 +01:00
Ricardo Wurmus
9475a248fc
gnu: Add r-illuminahumanmethylationepicmanifest. 
* gnu/packages/bioconductor.scm (r-illuminahumanmethylationepicmanifest):
New variable.
 2019-03-13 13:49:20 +01:00
Ricardo Wurmus
09605cb2d1
gnu: Add r-lumi. 
* gnu/packages/bioconductor.scm (r-lumi): New variable.
 2019-03-13 13:35:40 +01:00
Ricardo Wurmus
5ec5ba0272
gnu: Add r-methylumi. 
* gnu/packages/bioconductor.scm (r-methylumi): New variable.
 2019-03-13 13:35:33 +01:00
Ricardo Wurmus
0f5c9cec50
gnu: Add r-fdb-infiniummethylation-hg19. 
* gnu/packages/bioconductor.scm (r-fdb-infiniummethylation-hg19): New variable.
 2019-03-13 13:35:18 +01:00
Ricardo Wurmus
86fded86c2
gnu: portaudio: Build position independent code and install more headers. 
* gnu/packages/audio.scm (portaudio)[arguments]: Pass "--with-pic" and
initialize libtool in new build phase "build-only-position-independent-code";
install extra header in new build phase "install-missing-headers".
 2019-03-13 13:19:06 +01:00
Ricardo Wurmus
0fbaf1956b
gnu: Add r-minfi. 
* gnu/packages/bioconductor.scm (r-minfi): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
34a24f95ec
gnu: Add r-bumphunter. 
* gnu/packages/bioconductor.scm (r-bumphunter): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
f4eac09653
gnu: Add r-siggenes. 
* gnu/packages/bioconductor.scm (r-siggenes): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
eed6ff0358
gnu: Add r-illuminaio. 
* gnu/packages/bioconductor.scm (r-illuminaio): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
f9201d6704
gnu: Add r-geoquery. 
* gnu/packages/bioconductor.scm (r-geoquery): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
f088775799
gnu: Add r-scone. 
* gnu/packages/bioconductor.scm (r-scone): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
b409c3570f
gnu: Add r-scdd. 
* gnu/packages/bioconductor.scm (r-scdd): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
6213e44185
gnu: Add r-noiseq. 
* gnu/packages/bioconductor.scm (r-noiseq): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
2d7627cfff
gnu: Add r-monocle. 
* gnu/packages/bioconductor.scm (r-monocle): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
925fcdbb79
gnu: Add r-mast. 
* gnu/packages/bioconductor.scm (r-mast): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
251e08301a
gnu: Add r-icobra. 
* gnu/packages/bioconductor.scm (r-icobra): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
648dbd2702
gnu: Add r-beanplot. 
* gnu/packages/cran.scm (r-beanplot): New variable.
 2019-03-13 13:17:52 +01:00
Ricardo Wurmus
026dd77c63
gnu: Add r-nor1mix. 
* gnu/packages/cran.scm (r-nor1mix): New variable.
 2019-03-13 13:17:51 +01:00