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Author SHA1 Message Date
Clément Lassieur
269c827c69
gnu: emacs-transient: Refer to the updated installation directory. 
* gnu/packages/emacs-xyz.scm (emacs-transient)[arguments]: Refer to the
updated installation directory.
 2019-12-04 12:13:16 +01:00
Efraim Flashner
8f523eb99d
gnuL librsvg-next: Unvendor some rust crates. 
* gnu/packages/gnome.scm (computed-origin-method, librsvg-next-source):
New variables.
(librsvg-next)[source]: Use computed librsvg-next-source.
[arguments]: Import %cargo-build-modules. Enable 'patch-source-shebangs,
'patch-generated-source-shebangs, 'patch-user-bin-file phases. Change
custom phase to patch cargo checksums and Cargo.lock.
 2019-12-04 12:32:40 +02:00
Maxim Cournoyer
4c503ed503
gnu: emacs-emacsql: Fix build. 
* gnu/packages/emacs-xyz.scm (emacs-emacsql): Refer to the updated
installation directory.

Signed-off-by: Clément Lassieur <clement@lassieur.org>
 2019-12-04 11:06:49 +01:00
Maxim Cournoyer
7185a8dac4
gnu: emacs-ert-runner: Fix build. 
* gnu/packages/emacs-xyz.scm (emacs-ert-runner): Refer to the updated
installation directory.

Signed-off-by: Clément Lassieur <clement@lassieur.org>
 2019-12-04 11:06:49 +01:00
Maxim Cournoyer
903765f0d9
gnu: emacs: Use load-path instead of EMACSLOADPATH. 
This enables the use of the subdirs.el feature of Emacs, where specifying a
directory in EMACSLOADPATH translates into a `load-path' variable containing
the directory and all its sub-directories.

* gnu/packages/aux-files/emacs/guix-emacs.el (guix-emacs-autoload-packages):
Use `load-path' directly instead of parsing EMACSLOADPATH.

Reported-by: Leo Prikler <leo.prikler@student.tugraz.at>
Signed-off-by: Clément Lassieur <clement@lassieur.org>
 2019-12-04 11:06:49 +01:00
Maxim Cournoyer
c320acd633
gnu: emacs: Fix guix-emacs.el indentation. 
* gnu/packages/aux-files/emacs/guix-emacs.el: Fix indentation.

Signed-off-by: Clément Lassieur <clement@lassieur.org>
 2019-12-04 11:06:49 +01:00
Maxim Cournoyer
9aca5ceac8
gnu: emacs: Simplify the EMACSLOADPATH search path specification. 
The EMACSLOADPATH can be greatly simplified by relying on a subdirs.el file
that causes Emacs to search recursively a directory found in EMACSLOADPATH.

* gnu/packages/emacs.scm (emacs)[native-search-paths]: Remove the match-all
file pattern regexp.  Remove the versioned site-lisp directory from searched
files, as it appears unused by Emacs.

Reported-by: Leo Prikler <leo.prikler@student.tugraz.at>
Signed-off-by: Clément Lassieur <clement@lassieur.org>
 2019-12-04 11:06:49 +01:00
Maxim Cournoyer
65a7dd2950
build: emacs-build-system: Unify the installation directory. 
This change aims to reduce the length of the EMACSLOADPATH environment
variable, which was found to cause issues such as
<https://bugs.gnu.org/38309>.

It should also enable discovery of newly installed packages without refreshing
the session's EMACSLOADPATH of the user profile (e.g., when launching Emacs
from the desktop manager application launcher), as discussed in
<https://bugs.gnu.org/38309>.

* guix/build/emacs-build-system.scm (%legacy-install-suffix): Rename to...
(%install-dir): ...this.
(%install-suffix): Remove variable.
(build): Adjust installation target directory.
(patch-el-files): Likewise.
(install): Likewise.
(move-doc): Likewise.
(make-autoloads): Likewise.

Signed-off-by: Clément Lassieur <clement@lassieur.org>
 2019-12-04 11:06:49 +01:00
Tobias Geerinckx-Rice
fabd4900d8
build-system/linux-module: Accept a #:make-flags keyword. 
Fixes bug#37882.

* guix/build-system/linux-module.scm (linux-module-build): Accept a
MAKE-FLAGS argument.
<builder>: Pass it on.
 2019-12-04 11:25:33 +02:00
Ricardo Wurmus
6ea613ce63
gnu: r-catterplots: Update to 0-3.ae17cd5. 
* gnu/packages/statistics.scm (r-catterplots): Update to 0-3.ae17cd5.
 2019-12-04 10:07:50 +01:00
Efraim Flashner
9e21a1c803
gnu: hexchat: Fix up inputs. 
* gnu/packages/messaging.scm (hexchat)[inputs]: Move glib:bin ...
[native-inputs]: ... to here.
 2019-12-04 10:56:04 +02:00
Efraim Flashner
5045821e2a
gnu: ocaml-gen: Don't use unstable tarball. 
* gnu/packages/ocaml.scm (ocaml-gen)[source]: Download using git-fetch.
 2019-12-04 10:55:29 +02:00
Efraim Flashner
0f4f5715a4
gnu: p7zip: Move *asm inputs to native-inputs. 
* gnu/packages/compression.scm (p7zip)[inputs]: Move yasm, nasm ...
[native-inputs]: ... to here.
 2019-12-04 10:55:28 +02:00
Efraim Flashner
bcda07797a
gnu: lablgtk: Use a source file-name. 
* gnu/packages/ocaml.scm (lablgtk)[source]: Add 'file-name'.
 2019-12-04 10:55:28 +02:00
Ricardo Wurmus
e21b668e52
gnu: r-rversions: Update to 2.0.1. 
* gnu/packages/statistics.scm (r-rversions): Update to 2.0.1.
 2019-12-04 09:39:43 +01:00
Ricardo Wurmus
14ebd6f762
gnu: r-survival: Update to 3.1-8. 
* gnu/packages/statistics.scm (r-survival): Update to 3.1-8.
 2019-12-04 09:39:36 +01:00
Ricardo Wurmus
41728d234b
gnu: r-all: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-all)[source]: Use bioconductor-uri.
 2019-12-04 09:36:34 +01:00
Ricardo Wurmus
545e67ac03
gnu: r-hsmmsinglecell: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-hsmmsinglecell)[source]: Use
bioconductor-uri.
 2019-12-04 09:36:15 +01:00
Ricardo Wurmus
b86f77469b
gnu: r-arrmdata: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-arrmdata)[source]: Use bioconductor-uri.
 2019-12-04 09:35:59 +01:00
Ricardo Wurmus
ced61edf5d
gnu: r-abadata: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-abadata)[source]: Use bioconductor-uri.
 2019-12-04 09:35:44 +01:00
Ricardo Wurmus
eed2766a45
gnu: r-do-db: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-do-db)[source]: Use bioconductor-uri.
 2019-12-04 09:35:26 +01:00
Ricardo Wurmus
25f567a85a
gnu: r-illuminahumanmethylationepicmanifest: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-illuminahumanmethylationepicmanifest)[source]:
Use bioconductor-uri.
 2019-12-04 09:35:08 +01:00
Ricardo Wurmus
6aca4054e0
gnu: r-fdb-infiniummethylation-hg19: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-fdb-infiniummethylation-hg19)[source]: Use
bioconductor-uri.
 2019-12-04 09:34:47 +01:00
Ricardo Wurmus
c271d99025
gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-txdb-mmusculus-ucsc-mm10-knowngene)[source]:
Use bioconductor-uri.
[arguments]: Enable substitution.
 2019-12-04 09:34:13 +01:00
Ricardo Wurmus
1afdf41b49
gnu: r-txdb-mmusculus-ucsc-mm9-knowngene: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-txdb-mmusculus-ucsc-mm9-knowngene)[source]:
Use bioconductor-uri.
 2019-12-04 09:33:54 +01:00
Ricardo Wurmus
d78db08862
gnu: r-txdb-hsapiens-ucsc-hg38-knowngene: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-txdb-hsapiens-ucsc-hg38-knowngene)[source]:
Use bioconductor-uri.
 2019-12-04 09:33:35 +01:00
Ricardo Wurmus
f2580a1385
gnu: r-txdb-hsapiens-ucsc-hg19-knowngene: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-txdb-hsapiens-ucsc-hg19-knowngene)[source]:
Use bioconductor-uri.
[arguments]: Enable substitution.
 2019-12-04 09:33:09 +01:00
Ricardo Wurmus
717d7cda9d
gnu: r-genelendatabase: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-genelendatabase)[source]: Use
bioconductor-uri.
 2019-12-04 09:32:48 +01:00
Ricardo Wurmus
e7a8cf2e6e
gnu: r-bsgenome-hsapiens-ucsc-hg19: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-ucsc-hg19)[source]:
Use bioconductor-uri.
[arguments]: Enable substitution.
 2019-12-04 09:32:22 +01:00
Ricardo Wurmus
411be88bf3
gnu: r-org-mm-eg-db: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-org-mm-eg-db)[source]: Use
bioconductor-uri.
 2019-12-04 09:32:03 +01:00
Ricardo Wurmus
f53becc6d8
gnu: r-org-hs-eg-db: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-org-hs-eg-db)[source]: Use
bioconductor-uri.
 2019-12-04 09:31:46 +01:00
Ricardo Wurmus
7bb65a2227
gnu: r-org-dr-eg-db: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-org-dr-eg-db)[source]: Use
bioconductor-uri.
 2019-12-04 09:31:19 +01:00
Ricardo Wurmus
b0dfc79b0d
gnu: r-org-dm-eg-db: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-org-dm-eg-db)[source]: Use
bioconductor-uri.
 2019-12-04 09:30:58 +01:00
Ricardo Wurmus
1c05e637a4
gnu: r-org-ce-eg-db: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-org-ce-eg-db)[source]: Use
bioconductor-uri.
 2019-12-04 09:30:35 +01:00
Ricardo Wurmus
f83404bc5b
gnu: r-bsgenome-mmusculus-ucsc-mm10: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-mmusculus-ucsc-mm10)[source]:
Use bioconductor-uri.
[arguments]: Enable substitution.
 2019-12-04 09:29:56 +01:00
Ricardo Wurmus
51dc4a2d70
gnu: r-bsgenome-mmusculus-ucsc-mm9-masked: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-mmusculus-ucsc-mm9-masked)[source]:
Use bioconductor-uri.
 2019-12-04 09:29:26 +01:00
Ricardo Wurmus
21f6dae73d
gnu: r-bsgenome-mmusculus-ucsc-mm9: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-mmusculus-ucsc-mm9)[source]:
Use bioconductor-uri.
[arguments]: Enable substitution.
 2019-12-04 09:28:54 +01:00
Ricardo Wurmus
a47646bd05
gnu: r-bsgenome-hsapiens-ucsc-hg19-masked: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-ucsc-hg19-masked)[source]:
Use bioconductor-uri.
 2019-12-04 09:28:34 +01:00
Ricardo Wurmus
88e7c7db59
gnu: r-bsgenome-hsapiens-1000genomes-hs37d5: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-1000genomes-hs37d5)[source]:
Use bioconductor-uri.
[arguments]: Enable substitution.
 2019-12-04 09:28:04 +01:00
Ricardo Wurmus
bf05ece1a2
gnu: r-bsgenome-dmelanogaster-ucsc-dm3-masked: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm3-masked)[source]:
Use bioconductor-uri.
 2019-12-04 09:27:15 +01:00
Ricardo Wurmus
87073b7ecb
gnu: r-bsgenome-dmelanogaster-ucsc-dm3: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm3)[source]:
Use bioconductor-uri.
[arguments]: Enable substitution.
 2019-12-04 09:26:22 +01:00
Ricardo Wurmus
149f351f38
gnu: r-bsgenome-dmelanogaster-ucsc-dm6: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm6)[source]:
Use bioconductor-uri.
[arguments]: Permit substitution.
 2019-12-04 09:25:10 +01:00
Ricardo Wurmus
6998ecba74
gnu: r-bsgenome-celegans-ucsc-ce10: Use bioconductor-uri. 
* gnu/packages/bioconductor.scm (r-bsgenome-celegans-ucsc-ce10)[source]: Use
bioconductor-uri.
[arguments]: Permit substitution.
 2019-12-04 09:24:09 +01:00
Brett Gilio
19e67f8216
gnu: emacs-olivetti: Update to 1.8.1. 
* gnu/packages/emacs-xyz.scm (emacs-olivetti): Update to 1.8.1.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-12-04 09:00:38 +01:00
Brett Gilio
d6445fa690
gnu: emacs-irony-mode: Update to 1.4.0. 
* gnu/packages/emacs-xyz.scm (emacs-irony-mode): Update to 1.4.0.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-12-04 09:00:31 +01:00
Brett Gilio
362e5f9408
gnu: emacs-elisp-demos: Update to 2019.12.01. 
* gnu/packages/emacs-xyz.scm (emacs-elisp-demos): Update to 2019.12.01.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-12-04 09:00:22 +01:00
Brett Gilio
17f88b9c01
gnu: emacs-doom-modeline: Update to 2.8.0. 
* gnu/packages/emacs-xyz.scm (emacs-doom-modeline): Update to 2.8.0.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-12-04 08:59:43 +01:00
Ricardo Wurmus
312ec128af
gnu: python-pandas: Move to (gnu packages python-science). 
* gnu/packages/python-xyz.scm (python-pandas, python2-pandas): Move from
here...
* gnu/packages/python-science.scm (python-pandas, python2-pandas): ...to here.
* gnu/packages/benchmark.scm, gnu/packages/databases.scm,
gnu/packages/graph.scm, gnu/packages/parallel.scm,
gnu/packages/serialization.scm: Import (gnu packages python-science).
 2019-12-04 08:56:36 +01:00
Eric Bavier
dc3e62a494
gnu: handbrake: Upgrade to 1.3.0. 
* gnu/packages/patches/handbrake-opt-in-nvenc.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/video.scm (handbrake)[source]: Upgrade to 1.3.0.  Remove
patch.
[native-inputs]: Remove cmake and curl.
[inputs]: Add dav1d and numactl.
[arguments]: Add "--disable-nvenc" to configure flags in place of patch.
Adjust "bootstrap" phase in response to upstream changes.
Add "patch-SHELL" and "relax-reqs" phases.
 2019-12-03 22:20:22 -06:00
Tobias Geerinckx-Rice
32c06affca
guix-install.sh: Use a deterministic umask. 
Users with strict umasks (e.g. 0077) would end up with an unreadable
/gnu (mode 0700) and no way to run guix.

Reported by A. <@aaap:matrix.org> on #guix.

* etc/guix-install.sh (main): Set umask before installing anything.
 2019-12-04 03:59:04 +01:00