03c95f0414
gnu: Add r-abps.
...
* gnu/packages/cran.scm (r-abps): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-14 07:46:19 +02:00
016cabf7be
gnu: Add r-abodoutlier.
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* gnu/packages/cran.scm (r-abodoutlier): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-14 07:46:19 +02:00
317b139c5d
gnu: rust: Update to 1.27.2.
...
* gnu/packages/rust.scm (rust): Update to 1.27.2.
2018-09-13 22:37:55 +02:00
b6afe7b7f5
gnu: Add r-abnormality.
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* gnu/packages/cran.scm (r-abnormality): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 22:16:01 +02:00
f0314f65df
gnu: Add perl-devel-checklib.
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* gnu/packages/perl.scm (perl-devel-checklib): New public variable.
2018-09-13 19:53:08 +02:00
7ec4f648e5
gnu: sg3_utils: Mark up description.
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* gnu/packages/scsi.scm (sg3_utils)[description]: Use @dfn{}.
Wrap commands in @command{} rather than @code{}, and @itemize them.
2018-09-13 19:53:08 +02:00
581b6f5e96
gnu: sudo: Update to 1.8.25p1.
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* gnu/packages/admin.scm (sudo): Update to 1.8.25p1.
2018-09-13 19:53:07 +02:00
0b0b43ed7a
gnu: youtube-viewer: Update to 3.4.1.
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* gnu/packages/video.scm (youtube-viewer): Update to 3.4.1.
2018-09-13 19:53:07 +02:00
6be445785a
gnu: youtube-viewer: Don't use unstable tarball.
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* gnu/packages/video.scm (youtube-viewer)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-09-13 19:53:07 +02:00
7d1cc61293
Revert "gnu: libinput: Update to 1.12.0."
...
Libinput-minimal has a lot of dependent packages, and this isn't reported by
`guix refresh --list-dependent`. We'll save this commit for another time.
This reverts commit 38dc3d6f17
2018-09-13 13:28:10 -04:00
ebb3cdb1ea
gnu: Add r-abjutils.
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* gnu/packages/cran.scm (r-abjutils): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 19:18:47 +02:00
1efcd0f1ea
gnu: Add r-abhgenotyper.
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* gnu/packages/cran.scm (r-abhgenotyper): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 19:13:43 +02:00
ae72b8f55b
gnu: Add ClusterShell.
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* gnu/packages/ssh.scm (clustershell): New variable.
Co-authored-by: Ludovic Courtès <ludovic.courtes@inria.fr>
2018-09-13 19:12:25 +02:00
38dc3d6f17
gnu: libinput: Update to 1.12.0.
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* gnu/packages/freedesktop.scm (libinput): Update to 1.12.0.
2018-09-13 13:08:24 -04:00
ef26400b66
gnu: Add r-abf2.
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gnu/packages/cran.scm (r-abf2): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 19:05:35 +02:00
f21967a44b
gnu: retroarch: Fix building on armhf-linux.
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* gnu/packages/emulators.scm (retroarch)[arguments]: Add custom flags
when building for armhf-linux.
2018-09-13 18:40:32 +03:00
fade67ab75
gnu: retroarch: Use shared zlib.
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* gnu/packages/emulators.scm (retroarch)[arguments]: In custom
'configure phase, use our zlib instead of vendor's zlib.
2018-09-13 18:40:30 +03:00
060366f6b3
gnu: rust@1.23.0: Inherit outputs.
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* gnu/packages/rust.scm (rust-1.23)[outputs]: Inherit.
2018-09-13 17:19:04 +02:00
b78fe27b31
gnu: rust@1.25.0: Disable pedantic test.
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* gnu/packages/rust.scm (rust-1.25)[arguments]<#:phases>
[disable-nil-enum-test]: New phase.
2018-09-13 17:17:15 +02:00
6fe73b487b
gnu: rust: Accept more detailed gdb responses.
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* gnu/packages/patches/rust-1.25-accept-more-detailed-gdb-lines.patch: New
file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/rust.scm (rust-1.25): Use it.
(rust-1.26): Use it.
(rust): Use it.
2018-09-13 17:17:15 +02:00
3cadd3ce93
gnu: Add r-abe.
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gnu/packages/cran.scm (r-abe): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 15:21:40 +02:00
d1ca3d7297
gnu: Add r-svdialogs.
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gnu/packages/cran.scm (r-svdialogs): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 15:07:45 +02:00
26700caed9
gnu: racket: Fix incompatibility with libedit.
...
The former patching made racket detecting libedit as the old 2.11 version,
which leads to failure:
<https://lists.gnu.org/archive/html/help-guix/2018-09/msg00027.html >.
* gnu/packages/scheme.scm (racket)[arguments]: Patch the 'ffi-lib' call of
libedit using 'PLT_READLINE_LIB'.
2018-09-13 20:20:41 +08:00
73dc7834de
gnu: rust@1.20.0: Replace "default-ar" by "ar".
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* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[configure]: Replace
"default-ar" by "ar".
2018-09-13 10:10:49 +02:00
1ab3e1dd98
gnu: Add rust@1.22.1.
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* gnu/packages/rust.scm (rust-1.22): New variable.
2018-09-13 10:10:49 +02:00
05ebff92bd
gnu: Add rust@1.21.0.
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* gnu/packages/rust.scm (rust-1.21): New variable.
2018-09-13 10:10:49 +02:00
e69b1a7c6e
gnu: rust-bootstrap: Clean up comments.
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* gnu/packages/rust.scm (rust-bootstrap): Clean up comments.
2018-09-13 10:10:49 +02:00
bfdc0e4d45
gnu: rust: Move "cc" from rust-bootstrap to rust proper.
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* gnu/packages/rust.scm (rust-bootstrap)[arguments]<#:phases>[install]:
Delete "cc".
(rust-1.23)[arguments]<#:phases>: Delete "provide-cc" deletion.
2018-09-13 10:10:49 +02:00
333c0ca966
gnu: rust@1.23.0: Use rust@1.20.0 as template.
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* gnu/packages/rust.scm (rust-1.23)[inherit]: Use rust-1.20.
[arguments]<#:phases>: Delete "patch-cargo-tomls" phase deletion.
Add "provide-cc" phase deletion.
Add "configure-archiver" phase deletion.
[configure]: Inherit phase.
[reset-timestamps-after-changes]: Inherit phase.
[build]: Inherit phase.
[check]: Inherit phase.
[install]: Inherit phase.
[wrap-rustc]: Inherit phase.
2018-09-13 10:10:48 +02:00
f309671c28
gnu: Add emacs-org-reveal.
...
* gnu/packages/emacs.scm (emacs-org-reveal): New variable.
2018-09-12 22:48:04 -04:00
82baeea297
gnu: Add emacs-elpy.
...
* gnu/packages/emacs.scm (emacs-elpy): New variable.
2018-09-12 22:16:25 -04:00
dcc31d7f41
gnu: Add emacs-highlight-indentation.
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* gnu/packages/emacs.scm (emacs-highlight-indentation): New variable.
2018-09-12 22:16:25 -04:00
87e9fb5753
gnu: Add emacs-pyvenv.
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* gnu/packages/emacs.scm (emacs-pyvenv): New variable.
2018-09-12 22:16:24 -04:00
2c6ff3a2bc
gnu: Add emacs-find-file-in-project.
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* gnu/packages/emacs.scm (emacs-find-file-in-project): New variable.
2018-09-12 22:16:24 -04:00
563f151bd4
gnu: Add emacs-mocker.
...
* gnu/packages/emacs.scm (emacs-mocker): New variable.
2018-09-12 22:16:24 -04:00
aaf10fa7d8
gnu: Add emacs-el-x.
...
* gnu/packages/emacs.scm (emacs-el-x): New variable.
2018-09-12 22:16:23 -04:00
8795ce8673
gnu: Add python-black.
...
* gnu/packages/python.scm (python-black): New variable.
2018-09-12 22:16:23 -04:00
7e846d07e8
gnu: Add python-toml.
...
* gnu/packages/python.scm (python-toml): New variables.
2018-09-12 22:16:23 -04:00
4bd8f4f302
gnu: python-jedi: Update to 0.12.1.
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* gnu/packages/python.scm (python-jedi): Update to 0.12.1.
[propagated-inputs]: Move python-parso here, as it is required at run time.
2018-09-12 22:16:18 -04:00
614cfd5c54
gnu: Add rust@1.20.0.
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* gnu/packages/rust.scm (rust-1.20): New variable.
2018-09-13 00:25:01 +02:00
3763e7716c
gnu: rust@1.19.0: Remove superfluous install-file call.
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* gnu/packages/rust.scm (rust-1.19)[arguments]<#:phases>[build]: Remove
superfluous install-file call.
2018-09-12 23:17:42 +02:00
5a3fcf5b44
gnu: rust@1.19.0: Install rustdoc.
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* gnu/packages/rust.scm (rust-1.19)[arguments]<#:phases>[install]: Install
rustdoc.
2018-09-12 23:17:42 +02:00
0bcd1bc778
gnu: rust@1.19.0: Use match-lambda directly.
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Follow-up to 3159ef7c99
2018-09-12 23:17:42 +02:00
f006237c54
gnu: gnurl: Update to 7.61.1.
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* gnu/packages/gnunet.scm (gnurl): Update to 7.61.1.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-09-12 16:02:39 -04:00
ff9008d8de
gnu: Zsh: Remove workaround required for Zsh 5.6.
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This is a followup to commit 5a5d3e3563
2018-09-12 15:21:42 -04:00
4fa7f29f2a
gnu: emacs-hl-todo: Update to 1.9.0.
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* gnu/packages/emacs.scm (emacs-hl-todo): Update to 1.9.0.
2018-09-12 19:51:26 +02:00
4a89bdd196
gnu: python-scikit-learn: Update to 0.19.2.
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* gnu/packages/machine-learning.scm (python-scikit-learn): Update to 0.19.2.
[source]: Fetch from git.
[arguments]: Run tests before installation; replace "check" phase, add
"build-ext" phase; delete "reset-gzip-timestamps" phase.
[native-inputs]: Add python-pytest and python-pandas; remove python-nose.
2018-09-12 19:35:02 +02:00
b002809f84
gnu: Add emacs-blimp.
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* gnu/packages/emacs.scm (emacs-blimp): New variable.
2018-09-12 19:34:17 +02:00
320105eadb
gnu: Add emacs-org-web-tools.
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* gnu/packages/emacs.scm (emacs-org-web-tools): New variable.
2018-09-12 19:34:17 +02:00
9c208f38f2
gnu: Add emacs-youtube-dl.
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* gnu/packages/emacs.scm (emacs-youtube-dl): New variable.
2018-09-12 19:34:14 +02:00
acd4da3f29
gnu: libfilezilla: Update to 0.13.1.
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* gnu/packages/ftp.scm (libfilezilla): Update to 0.13.1.
2018-09-12 16:44:08 +02:00
bec13d872d
gnu: sg3-utils: Update to 1.43.
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* gnu/packages/scsi.scm (sg3-utils): Update to 1.43.
[license]: Add bsd-2.
2018-09-12 16:44:08 +02:00
0f304ba73e
gnu: syslinux: Use HTTPS home page.
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* gnu/packages/bootloaders.scm (syslinux)[home-page]: Use HTTPS.
2018-09-12 16:09:38 +02:00
60d8db74c6
gnu: syslinux: Use INVOKE.
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* gnu/packages/bootloaders.scm (syslinux)[arguments]: Substitute INVOKE
for SYSTEM*.
2018-09-12 16:09:38 +02:00
5a5d3e3563
gnu: zsh: Update to 5.6.1.
...
* gnu/packages/shells.scm (zsh): Update to 5.6.1.
2018-09-12 16:09:38 +02:00
4dbef67102
gnu: zsh: Use HTTPS.
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* gnu/packages/shells.scm (zsh)[source, home-page]: Use HTTPS.
2018-09-12 16:09:37 +02:00
c8749b0250
gnu: Add perl-mock-config.
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* gnu/packages/perl-check.scm (perl-mock-config): New public variable.
2018-09-12 16:09:37 +02:00
b2c8d31ff6
gnu: perl-moosex-getopt: Update to 0.73.
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* gnu/packages/perl.scm (perl-moosex-getopt): Update to 0.73.
[native-inputs]: Add perl-module-build-tiny, perl-path-tiny,
perl-test-needs.
2018-09-12 10:28:47 +03:00
50b3b83143
netsurf: Register patch.
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Follow-up to f9e140a243
2018-09-11 20:29:04 -05:00
bbe46a4af5
mpi: Factorize openmpi setup build phase.
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* gnu/packages/mpi.scm (%openmpi-setup): New variable.
* gnu/packages/maths.scm (scalapack, slepc-openmpi, mumps-openmpi)
(superlu-dist, p4est, petsc-openmpi, hypre-openmpi, elemental)
(sundials-openmpi, arpack-ng-openmpi)[arguments]: Use it in #:phases.
2018-09-11 20:29:04 -05:00
5882078e8c
font-fantasque-sans: Upgrade to 1.7.2.
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* gnu/packages/fonts.scm (font-fantasque-sans): Upgrade to 1.7.2.
[native-inputs]: Add zip.
[arguments]: Add 'xrange->range phase for python3 compatibility. Adjust
install phase to work with newly generated font variants.
2018-09-11 20:29:03 -05:00
2b0820bf0d
gnu: emacs-helm: Update to 3.0.
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* gnu/packages/emacs.scm (emacs-helm): Update to 3.0.
2018-09-11 23:53:35 +02:00
ee0d184502
gnu: Add emacs-hackernews.
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* gnu/packages/emacs.scm (emacs-hackernews): New variable.
2018-09-11 23:53:35 +02:00
bd8f74dfbe
gnu: emacs-evil-collection: Update to 20180911.
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* gnu/packages/emacs.scm (emacs-evil-collection): Update to 20180911.
2018-09-11 23:53:35 +02:00
ac9e307740
gnu: emacs-magit-todos: Update to 1.1.
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* gnu/packages/emacs.scm (emacs-magit-todos): Update to 1.1.
2018-09-11 23:53:35 +02:00
475e16578f
gnu: emacs-helm-system-packages: Update to 1.10.1.
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* gnu/packages/emacs.scm (emacs-helm-system-packages): Update to 1.10.1.
2018-09-11 23:53:35 +02:00
4a67079f71
gnu: mes: Oops, use mirror://gnu download url.
...
* gnu/packages/mes.scm (mes): Oops, use mirror://gnu download url.
2018-09-11 22:34:02 +02:00
a855117c59
gnu: snakemake: Update home page.
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* gnu/packages/python.scm (snakemake)[home-page]: Update.
2018-09-11 21:12:43 +02:00
9b83c15afe
gnu: snakemake: Update to 5.2.2.
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* gnu/packages/python.scm (snakemake): Update to 5.2.2.
2018-09-11 21:03:08 +02:00
a93de1ae9e
gnu: obnam: Add deprecation warning.
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* gnu/packages/backup.scm (obnam)[synopsis, description]: Note its
retirement.
2018-09-11 21:03:07 +02:00
cd1e138cc6
gnu: unbound: Update to 1.8.0.
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* gnu/packages/dns.scm (unbound): Update to 1.8.0.
2018-09-11 21:03:07 +02:00
702a87f2d1
gnu: perl-dbd-mysql: Update to 4.047.
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* gnu/packages/databases.scm (perl-dbd-mysql): Update to 4.047.
[arguments]: Add 'skip-library-detection' phase.
2018-09-11 21:03:07 +02:00
52b0a352c3
gnu: libreoffice: Update to 6.1.0.3.
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* gnu/packages/libreoffice.scm (libreoffice): Update to 6.1.0.3.
[source]: Correct indenting.
[inputs]: Add libnumbertext and python-lxml.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:30 +02:00
aeba7d4650
gnu: Add libnumbertext.
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* gnu/packages/libreoffice.scm (libnumbertext): New public variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:30 +02:00
aa82260bc0
gnu: arpack-ng-openmpi: Fix build.
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* gnu/packages/maths.scm (arpack-ng-openmpi)[arguments]: Add
'set-test-environment phase.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:29 +02:00
d2fe71b04d
gnu: Add emacs-irony-mode.
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* gnu/packages/emacs.scm (emacs-irony-mode): New variable.
(emacs-irony-mode-server): New variable.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:28 +02:00
8539eb5c46
gnu: jupyter-guile-kernel: Add dependencies to the search path.
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This allows:
guix environment --ad-hoc jupyter jupyter-guile-kernel \
-- jupyter notebook
to work out-of-the-box.
* gnu/packages/guile.scm (jupyter-guile-kernel)[arguments]: In
'install-kernel' phase, add '-L' and '-C' flags to 'kernel.json'.
[propagated-inputs]: Remove.
[inputs]: Add GUILE-JSON and GUILE-SIMPLE-ZMQ.
2018-09-11 17:46:28 +02:00
828fa94d7a
gnu: guile-simple-zmq, jupyter-guile-kernel: Update to 5bb66a0 and a7db924.
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* gnu/packages/guile.scm (guile-simple-zmq): Update to 5bb66a0.
(jupyter-guile-kernel): Update to a7db924.
2018-09-11 17:46:28 +02:00
01af264dcb
gnu: Add r-svgui.
...
* gnu/packages/cran.scm (r-svgui): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-11 17:27:10 +02:00
f6b7ccc9f9
gnu: spice: Update to 0.14.1 [fixes CVE-2018-10873].
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* gnu/packages/spice.scm (spice): Update to 0.14.1.
[source](uri): Update to new "spice-server" subdirectory.
[native-inputs]: Add GLIB-NETWORKING and GSETTINGS-DESKTOP-SCHEMAS.
[arguments]: Remove configure-flag which is now off even when celt is
available. Add phase to set $SSL_CERT_FILE.
2018-09-11 14:12:53 +02:00
41a659d2ec
gnu: usbredir: Update to 0.8.0.
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* gnu/packages/spice.scm (usbredir): Update to 0.8.0.
[source]: Use URL-FETCH.
[native-inputs]: Remove AUTOCONF, AUTOMAKE and LIBTOOL.
[arguments]: Remove.
2018-09-11 14:12:53 +02:00
b4ff75b507
gnu: syncthing: Update to 0.14.50.
...
* gnu/packages/syncthing.scm (syncthing): Update to 0.14.50.
2018-09-11 03:24:46 -04:00
e76709f71f
gnu: go-github-com-syncthing-notify: Update to 0.0.0-2.b76b458.
...
* gnu/packages/syncthing.scm (go-github-com-syncthing-notify): Update to
0.0.0-2.b76b458.
2018-09-11 03:24:42 -04:00
091ef8c97e
gnu: VLC: Update to 3.0.4.
...
* gnu/packages/video.scm (vlc): Update to 3.0.4.
2018-09-10 19:24:51 -04:00
5d9c28f117
gnu: git: Update to 2.19.0.
...
* gnu/packages/version-control.scm (git): Update to 2.19.0.
(cgit)[inputs]: Use the source of Git 2.18.0.
2018-09-10 19:02:45 -04:00
cbb0edd1be
gnu: Add r-abd.
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* gnu/packages/cran.scm (r-abd): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 00:14:58 +02:00
6c6ce2d088
gnu: Add r-mosaic.
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* gnu/packages/cran.scm (r-mosaic): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 00:14:58 +02:00
2f195b6f23
gnu: Add r-mosaicdata.
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* gnu/packages/cran.scm (r-mosaicdata): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 00:14:58 +02:00
d54145c38a
gnu: guitarix: Update to 0.37.3.
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* gnu/packages/audio.scm (guitarix): Update to 0.37.3.
[inputs]: Add curl.
2018-09-10 23:58:14 +02:00
029de52fe9
gnu: guitarix-lv2: Use correct configure flag.
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* gnu/packages/audio.scm (guitarix-lv2)[arguments]: Change configure flag.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-10 23:58:14 +02:00
2740549754
gnu: kakoune: Use HTTPS home page.
...
* gnu/packages/text-editors.scm (kakoune)[home-page]: Use HTTPS.
2018-09-10 22:54:36 +02:00
b38827096f
gnu: mcrl2: Use HTTPS home page.
...
* gnu/packages/maths.scm (mcrl2)[home-page]: Use HTTPS.
2018-09-10 22:54:36 +02:00
4105f13bb5
gnu: tor: Update to 0.3.4.8.
...
* gnu/packages/tor.scm (tor): Update to 0.3.4.8.
2018-09-10 22:54:35 +02:00
695775b138
gnu: kakoune: Update to 2018.09.04.
...
* gnu/packages/text-editors.scm (kakoune): Update to 2018.09.04.
2018-09-10 22:15:20 +02:00
4b41568fa5
gnu: python-binaryornot: Update to 0.4.4.
...
* gnu/packages/python.scm (python-binaryornot): Update to 0.4.4.
2018-09-10 22:15:20 +02:00
86788cb0c9
gnu: python-parse: Update to 1.8.4.
...
* gnu/packages/python.scm (python-parse): Update to 1.8.4.
2018-09-10 22:15:20 +02:00
c0ea7f5ff4
gnu: python-parse: Mark up description.
...
* gnu/packages/python.scm (python-parse)[description]: Use @code{}.
2018-09-10 22:15:20 +02:00
cc12ac58a2
gnu: python-jedi: Update to 0.12.1.
...
* gnu/packages/python.scm (python-jedi): Update to 0.12.1.
[synopsis, description]: Adjust to expanded functionality.
2018-09-10 22:15:19 +02:00
7a6eaf5ca9
gnu: python-parso: Update to 0.3.1.
...
* gnu/packages/python.scm (python-parso): Update to 0.3.1.
2018-09-10 22:15:19 +02:00
d56eee862b
gnu: qtractor: Update to 0.9.2.
...
* gnu/packages/music.scm (qtractor): Update to 0.9.2.
[arguments]: Remove obsolete Qt 5.11 workaround.
2018-09-10 22:15:19 +02:00
875d068176
Adjust all users of (gnu packages ldc) to use (gnu packages dlang).
...
This is a followup to commit 98d6543f86
2018-09-10 15:44:32 -04:00
c5e4b4cc8f
gnu: Add libabigail.
...
* gnu/packages/elf.scm (libabigail): New public variable.
2018-09-10 20:27:42 +02:00
fc449407fe
gnu: python-debian: Update home page.
...
* gnu/packages/python.scm (python-debian)[home-page]: Set to source
repository.
2018-09-10 20:27:42 +02:00
418ec0adc9
gnu: python-libarchive-c: Update to 2.8.
...
* gnu/packages/python.scm (python-libarchive-c): Update to 2.8.
[arguments]: Replace 'check' phase.
[native-inputs]: Add PYTHON-MOCK and PYTHON-PYTEST.
2018-09-10 20:27:42 +02:00
ba0052e8ae
gnu: python-tlsh: Update to 3.4.5.
...
* gnu/packages/python.scm (python-tlsh): Update to 3.4.5.
2018-09-10 20:27:42 +02:00
8fe059bf6c
gnu: python-cryptography: Update to 2.3.1.
...
* gnu/packages/python-crypto.scm (python-cryptography-vectors,
python-cryptography): Update to 2.3.1.
2018-09-10 20:27:42 +02:00
2424d5e56c
gnu: cloc: Update source hash.
...
The upstream tarball was modified in place. The only changes are:
--- /gnu/store/5v39h6zjs33hj5dm2yggz5qk0mva00bs-cloc-1.78.tar.gz
+++ /gnu/store/pm5ghks76vv6awv3969yvi7qxqfnfs1l-cloc-1.78.tar.gz
├── filetype from file(1)
│ @@ -1 +1 @@
│ -gzip compressed data, last modified: Fri Sep 7 18:22:49 2018, from Unix
│ +gzip compressed data, last modified: Sat Sep 8 14:09:43 2018, from Unix
│ --- 5v39h6zjs33hj5dm2yggz5qk0mva00bs-cloc-1.78.tar
├── +++ pm5ghks76vv6awv3969yvi7qxqfnfs1l-cloc-1.78.tar
│ ├── file list
│ │ @@ -1,13 +1,13 @@
│ │ -rwxrwxr-x 0 al (1000) al (1000) 545021 2018-09-07 18:21:22 cloc-1.78/cloc
│ │ -rwxrwxr-x 0 al (1000) al (1000) 1818 2018-09-07 18:21:22 cloc-1.78/sqlite_formatter
│ │ -drwxrwxr-x 0 al (1000) al (1000) 0 2018-09-07 18:21:22 cloc-1.78/Unix/
│ │ --rwxrwxr-x 0 al (1000) al (1000) 498571 2018-09-07 18:21:22 cloc-1.78/Unix/cloc
│ │ +drwxrwxr-x 0 al (1000) al (1000) 0 2018-09-08 14:09:23 cloc-1.78/Unix/
│ │ +-rwxrwxr-x 0 al (1000) al (1000) 498537 2018-09-08 14:09:22 cloc-1.78/Unix/cloc
│ │ -rwxrwxr-x 0 al (1000) al (1000) 32382 2018-09-07 18:21:22 cloc-1.78/Unix/t/00_C.t
│ │ -rwxrwxr-x 0 al (1000) al (1000) 12614 2018-09-07 18:21:22 cloc-1.78/Unix/t/01_opts.t
│ │ -rw-rw-r-- 0 al (1000) al (1000) 862 2018-09-07 18:21:22 cloc-1.78/Unix/README
│ ├── cloc-1.78/Unix/cloc
│ │ @@ -1,8 +1,7 @@
│ │ -#!/usr/local/perl/5.28.0/bin/perl
│ │ #!/usr/bin/env perl
* gnu/packages/code.scm (cloc)[source]: Update sha256 hash.
2018-09-10 20:20:00 +02:00
254844f22d
gnu: nano: Update to 3.0.
...
* gnu/packages/nano.scm (nano): Update to 3.0.
2018-09-10 13:54:29 -04:00
eb07a6f898
gnu: linux-libre: Update to 4.18.7.
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* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.7.
(%linux-libre-hash): Update hash.
2018-09-10 13:25:54 -04:00
c727ed05ac
gnu: linux-libre@4.14: Update to 4.14.69.
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* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.69.
(%linux-libre-4.14-hash): Update hash.
2018-09-10 13:24:01 -04:00
176999f18e
gnu: linux-libre@4.9: Update to 4.9.126.
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* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.126.
2018-09-10 13:23:20 -04:00
d7e9bd15fa
gnu: linux-libre@4.4: Update to 4.4.155.
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* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.155.
2018-09-10 13:22:35 -04:00
98184e566c
gnu: gnome-mpv: Update to 0.15.
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* gnu/packages/video.scm (gnome-mpv): Update to 0.15.
2018-09-10 18:22:00 +02:00
37a2ea118d
gnu: fortify-headers: Update to 1.0.
...
* gnu/packages/suckless.scm (fortify-headers): Update to 1.0.
2018-09-10 18:22:00 +02:00
7c8b1bf664
gnu: python-genshi: Update to 0.7.1.
...
* gnu/packages/python-web.scm (python-genshi): Update to 0.7.1.
[source]: Use GIT-FETCH and GIT-FILE-NAME. Remove patches.
* gnu/packages/patches/python-genshi-add-support-for-python-3.4-AST.patch,
gnu/packages/patches/python-genshi-buildable-on-python-2.7.patch,
gnu/packages/patches/python-genshi-disable-speedups-on-python-3.3.patch,
gnu/packages/patches/python-genshi-fix-tests-on-python-3.5.patch,
gnu/packages/patches/python-genshi-isstring-helper.patch,
gnu/packages/patches/python-genshi-stripping-of-unsafe-script-tags.patch:
Delete files.
* gnu/local.mk (dist_patch_DATA): Remove them.
2018-09-10 18:21:59 +02:00
83397e0786
gnu: python-sockjs-tornado: Update to 1.0.5.
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* gnu/packages/python-web.scm (python-sockjs-tornado): Update to 1.0.5.
2018-09-10 18:21:59 +02:00
1f7fe26f83
gnu: python-sockjs-tornado: Edit synopsis & description.
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* gnu/packages/python-web.scm (python-sockjs-tornado)[synopsis]
[description]: Pick nits.
2018-09-10 18:21:59 +02:00
98d6543f86
gnu: Rename ldc.scm to dlang.scm.
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* gnu/packages/ldc.scm: Rename to...
* gnu/packages/dlang.scm: ... this.
* gnu/local.mk (GNU_SYSTEM_MODULES): Adjust accordingly.
2018-09-10 17:47:52 +02:00
633e8aab69
gnu: ldc: Update to 1.10.0.
...
* gnu/packages/ldc.scm (ldc): Update to 1.10.0.
[native-inputs]: Switch to LLVM and CLANG.
(ldc-bootstrap)[synopsis, description]: Tweak.
* gnu/packages/patches/ldc-disable-phobos-tests.patch: New file.
* gnu/packages/patches/ldc-1.7.0-disable-phobos-tests.patch: Remove.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-10 17:47:52 +02:00
f80d6ea251
gnu: Add hstr.
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* gnu/packages/shellutils.scm (hstr): New variable.
2018-09-10 17:47:52 +02:00
8a8662d286
gnu: emacs-guix: Update to 0.5.
...
* gnu/packages/emacs.scm (emacs-guix): Update to 0.5.
[propagated-inputs]: Add 'guile-gcrypt'.
[arguments]: Adjust #:configure-flags accordingly.
2018-09-10 18:38:32 +03:00
fdf68c232d
gnu: emacs-build-farm: Update to 0.2.1.
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* gnu/packages/emacs.scm (emacs-build-farm): Update to 0.2.1.
Change source from gitlab to notabug.
2018-09-10 18:38:32 +03:00
5d78cf0b6c
gnu: emacs-bui: Update to 1.2.0.
...
* gnu/packages/emacs.scm (emacs-bui): Update to 1.2.0.
Change source from github to notabug.
2018-09-10 18:38:32 +03:00
5bfa7510d1
gnu: Add python-pygenometracks.
...
* gnu/packages/bioinformatics.scm (python-pygenometracks): New variable.
2018-09-10 16:50:26 +02:00
1189c7f1b0
gnu: Add python-hicexplorer.
...
* gnu/packages/bioinformatics.scm (python-hicexplorer): New variable.
2018-09-10 16:50:26 +02:00
5bb9e0af8d
gnu: Add python-cooler.
...
* gnu/packages/bioinformatics.scm (python-cooler): New variable.
2018-09-10 16:50:26 +02:00
80f4db91b1
gnu: Add python-pyfaidx.
...
* gnu/packages/bioinformatics.scm (python-pyfaidx): New variable.
2018-09-10 16:50:26 +02:00
1f41f01c14
gnu: Add python-pypairix.
...
* gnu/packages/bioinformatics.scm (python-pypairix): New variable.
2018-09-10 16:50:26 +02:00
a9d496b353
gnu: Add python-intervaltree.
...
* gnu/packages/bioinformatics.scm (python-intervaltree): New variable.
2018-09-10 16:50:26 +02:00
a6a7156aa9
gnu: Add python-dask.
...
* gnu/packages/python.scm (python-dask): New variable.
2018-09-10 16:50:26 +02:00
035989c403
gnu: Add python-partd.
...
* gnu/packages/python.scm (python-partd): New variable.
2018-09-10 16:50:26 +02:00
c27a9d8a88
gnu: Add python-blosc.
...
* gnu/packages/python.scm (python-blosc): New variable.
2018-09-10 16:50:26 +02:00
b2b8226244
gnu: Add python-locket.
...
* gnu/packages/python.scm (python-locket): New variable.
2018-09-10 16:50:26 +02:00
930ba31d20
gnu: Add python-cloudpickle.
...
* gnu/packages/python.scm (python-cloudpickle): New variable.
2018-09-10 16:50:26 +02:00
3d352cb9cf
gnu: Add python-sortedcontainers.
...
* gnu/packages/python.scm (python-sortedcontainers): New variable.
2018-09-10 16:50:26 +02:00
098cb1e9c4
gnu: Add python-cytoolz.
...
* gnu/packages/python.scm (python-cytoolz): New variable.
2018-09-10 16:50:26 +02:00
7cd51cd28e
gnu: Add python-toolz.
...
* gnu/packages/python.scm (python-toolz): New variable.
2018-09-10 16:50:25 +02:00
943a4cb601
gnu: Add python-multiprocess.
...
* gnu/packages/python.scm (python-multiprocess): New variable.
2018-09-10 16:50:25 +02:00
fc62567251
gnu: Add python-dill.
...
* gnu/packages/python.scm (python-dill): New variable.
2018-09-10 16:50:25 +02:00
82d5c7c6de
gnu: python-typing: Update to 3.6.6.
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* gnu/packages/python.scm (python-typing): Update to 3.6.6.
2018-09-10 15:29:13 +02:00
419aa05e1b
gnu: tinyproxy: Update to 1.10.0.
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* gnu/packages/web.scm (tinyproxy): Update to 1.10.0.
[native-inputs]: Remove asciidoc.
2018-09-10 15:29:12 +02:00
f6c8a97a04
gnu: spectrwm: Update to 3.2.0.
...
* gnu/packages/wm.scm (spectrwm): Update to 3.2.0.
[arguments]: Remove 'fix-freetype-include' phase.
2018-09-10 15:29:12 +02:00
57d70dbabc
gnu: Add yad.
...
* gnu/packages/gtk.scm (yad): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-10 14:45:15 +02:00
94b3b6041d
gnu: hpcguix-web: Update to 53e09ea.
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* gnu/packages/web.scm (hpcguix-web): Update to 53e09ea.
2018-09-10 12:18:14 +02:00
81317071fb
services: hpcguix-web: Produce a log file and rotate it.
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* gnu/services/web.scm (%hpcguix-web-log-file)
(%hpcguix-web-log-rotations): New variables.
(hpcguix-web-shepherd-service): Pass #:log-file.
(hpcguix-web-service-type): Extend ROTTLOG-SERVICE-TYPE.
2018-09-10 12:12:52 +02:00
19de8273ee
services: tailon: Move to (gnu services web).
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This allows (gnu services admin) to remain deeper in the module graph
and to be used by (gnu services web).
* gnu/services/admin.scm (<tailon-configuration-file>)
(tailon-configuration-files-string)
(tailon-configuration-file-compiler, <tailon-configuration>)
(tailon-shepherd-service, %tailon-accounts)
(tailon-service-type): Move to...
* gnu/services/web.scm: ... here.
* gnu/tests/admin.scm: Remove. Move test to...
* gnu/tests/web.scm (%tailon-os)
(run-tailon-test, %test-tailon): ... here.
2018-09-10 12:12:50 +02:00
d930374014
gnu: youtube-dl: Update to 2018.08.04.
...
* gnu/packages/video.scm (youtube-dl): Update to 2018.08.04.
2018-09-10 11:31:34 +02:00
de15ff1a6c
gnu: Add asignify.
...
* gnu/packages/crypto.scm (asignify): New variable.
2018-09-09 20:05:47 -04:00
d4bd2453ec
gnu: certbot: Update to 0.27.1.
...
* gnu/packages/tls.scm (python-acme): Update to 0.27.1.
[arguments]: Use invoke.
(certbot): Update to 0.27.1.
[native-inputs]: Use python-sphinx-1.6.
2018-09-09 18:52:04 -04:00
ced98c7e89
gnu: libgd: Fix CVE-2018-{5711,1000222}.
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* gnu/packages/patches/gd-CVE-2018-1000222.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/gd.scm (gd/fixed): New variable.
* gnu/packages/php.scm (gd-for-php)[source]: Use 'gd-CVE-2018-1000222.patch'.
2018-09-09 18:13:19 -04:00
45350539aa
gnu: r-chron: Update to 2.3-53.
...
* gnu/packages/statistics.scm (r-chron): Update to 2.3-53.
2018-09-09 22:26:02 +02:00
ab50580a9d
gnu: r-annotationhub: Update to 2.12.1.
...
* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.12.1.
2018-09-09 22:26:02 +02:00
35c076e619
gnu: r-chippeakanno: Update to 3.14.2.
...
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.2.
2018-09-09 22:26:02 +02:00
c36d972531
gnu: Update texmaker to 5.0.2.
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* gnu/packages/tex.scm (texmaker): Update to 5.0.2.
2018-09-09 21:59:08 +02:00
0084744b3a
gnu: ghostscript: Update replacement to 9.24 [security fixes].
...
The following CVEs are fixed with this release: CVE-2018-15908,
CVE-2018-15909, CVE-2018-15910, CVE-2018-15911, CVE-2018-16509,
CVE-2018-16510, CVE-2018-16511, CVE-2018-16513, CVE-2018-16539,
CVE-2018-16540, CVE-2018-16541, CVE-2018-16542, CVE-2018-16543.
* gnu/packages/patches/ghostscript-CVE-2018-10194.patch: Delete file.
* gnu/packages/patches/ghostscript-CVE-2018-16509.patch,
gnu/packages/patches/ghostscript-bug-699708.patch: New files.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/ghostscript.scm (ghostscript/fixed): Update to 9.24.
[source](patches): Remove 'ghostscript-CVE-2018-10194.patch' and
'ghostscript-runpath.patch'. Add 'ghostscript-CVE-2018-16509.patch' and
'ghostscript-bug-699708.patch'.
[arguments]: Add LDFLAGS to #:configure-flags, and a phase to create output
directory.
2018-09-09 16:43:11 +02:00
910a20e2b8
gnu: jbig2dec: Replace with 0.15 [security fixes].
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* gnu/packages/image.scm (jbig2dec-0.15): New public variable.
(jbig2dec)[replacement]: New field.
2018-09-09 16:43:11 +02:00
a617fd55df
gnu: OpenBLAS: Update source URI.
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* gnu/packages/maths.scm (openblas)[source](uri): Use the more stable
SourceForge mirror.
2018-09-09 16:43:11 +02:00
1448fa2547
gnu: openal: Update to 1.19.0.
...
* gnu/packages/audio.scm (openal): Update to 1.19.0.
2018-09-09 16:43:11 +02:00
e9c1492f66
gnu: glm: Update to 0.9.9.1.
...
* gnu/packages/maths.scm (glm): Update to 0.9.9.1.
2018-09-09 16:43:10 +02:00
91b3a6d4db
gnu: msmtp: Remove unneeded input.
...
* gnu/packages/mail.scm (msmtp)[inputs]: Remove LIBIDN, which is only required
when using OpenSSL (or GnuTLS sans IDN support).
2018-09-09 16:43:10 +02:00
37f9cfae43
gnu: msmtp: Update to 1.8.0.
...
* gnu/packages/mail.scm (msmtp): Update to 1.8.0.
2018-09-09 16:43:10 +02:00
249846bfde
gnu: libsoup: Update to 2.64.0.
...
* gnu/packages/gnome.scm (libsoup): Update to 2.64.0.
[inputs]: Add LIBPSL.
2018-09-09 16:43:10 +02:00
617cf5de92
gnu: mpfr: Update home page.
...
* gnu/packages/multiprecision.scm (mpfr)[home-page]: Use HTTPS.
2018-09-09 16:43:10 +02:00
81bf0fd0d4
gnu: julia: Update objconv input.
...
* gnu/packages/julia.scm (julia)[inputs]: Update the hash of "objconv", which
does not have a stable URL. Add a file name and use HTTPS while at it.
2018-09-09 16:43:10 +02:00
b64e67ad40
gnu: cloc: Update to 1.78.
...
* gnu/packages/code.scm (cloc): Update to 1.78.
[source]: Update URI.
2018-09-09 15:01:55 +02:00
c2311644a5
gnu: signify: Update to 24.
...
* gnu/packages/crypto.scm (signify): Update to 24.
2018-09-09 15:01:54 +02:00
bb105673b8
gnu: musl: Update to 1.1.20.
...
* gnu/packages/musl.scm (musl): Update to 1.1.20.
2018-09-09 15:01:54 +02:00
bb5e06a35e
gnu: perl-pegex: Update to 0.67.
...
* gnu/packages/perl.scm (perl-pegex): Update to 0.67.
2018-09-09 15:01:54 +02:00
9ad80992d0
gnu: perl-config-autoconf: Update to 0.317.
...
* gnu/packages/perl.scm (perl-config-autoconf): Update to 0.317.
2018-09-09 15:01:53 +02:00
15dbc911f6
gnu: perl-extutils-installpaths: Update to 0.012.
...
* gnu/packages/perl.scm (perl-extutils-installpaths): Update to 0.012.
2018-09-09 15:01:53 +02:00
4e77b75e11
gnu: perl-extutils-helpers: Update to 0.026.
...
* gnu/packages/perl.scm (perl-extutils-helpers): Update to 0.026.
2018-09-09 15:01:53 +02:00
748e6e1271
gnu: perl-getopt-long-descriptive: Update to 0.103.
...
* gnu/packages/perl.scm (perl-getopt-long-descriptive): Update to 0.103.
2018-09-09 15:01:53 +02:00
04fc0b9489
gnu: perl-namespace-clean: Update to 0.27.
...
* gnu/packages/perl.scm (perl-namespace-clean): Update to 0.27.
2018-09-09 15:01:52 +02:00
49e63e3884
gnu: perl-datetime: Update to 1.50.
...
* gnu/packages/perl.scm (perl-datetime): Update to 1.50.
2018-09-09 15:01:52 +02:00
2d32a6572d
gnu: perl-params-validate: Update to 1.29.
...
* gnu/packages/perl.scm (perl-params-validate): Update to 1.29.
2018-09-09 15:01:52 +02:00
a0fad0374e
gnu: links: Update to 2.17.
...
* gnu/packages/web-browsers.scm (links): Update to 2.17.
2018-09-09 15:01:52 +02:00
b9114ccbad
gnu: aircrack-ng: Update to 1.3.
...
* gnu/packages/networking.scm (aircrack-ng): Update to 1.3.
[native-inputs]: Add autoconf, automake, libtool, and which.
[inputs]: Add libpcap.
[arguments]: Use conventional --options in #:configure-flags.
Restore ‘configure’ phase. Add ‘patch-evalrev’ and customise ‘bootstrap’
phases. Simplify ‘absolutize-tools’ phase.
2018-09-09 14:50:34 +02:00
6930ea33c9
gnu: aircrack-ng: Use HTTPS.
...
* gnu/packages/networking.scm (aircrack-ng)[source, home-page]: Use HTTPS.
2018-09-09 14:50:34 +02:00
d7f99b3b76
gnu: perl: Improve description.
...
Fixes <https://bug.gnu.org/32650 >.
* gnu/packages/perl.scm (perl)[description]: Use description from 'perlintro'.
2018-09-09 19:11:52 +08:00
4ab6a2f23d
tests: base: Add Guile-Gcrypt & co. to the search path.
...
Fixes a regression introduced in
ca71942445
2018-09-08 23:02:01 +02:00
e80c725db7
services: nginx: 'stop' returns #f.
...
Previously we'd return #t, which the Shepherd would consider a failure
to stop the service.
* gnu/services/web.scm (nginx-shepherd-service): In 'nginx-action',
return #f when stopping the service.
2018-09-08 23:02:00 +02:00
985975ae80
services: nginx: Don't read PID file when passed a custom config file.
...
Fixes <https://bugs.gnu.org/32665 >.
* gnu/services/web.scm (nginx-shepherd-service): Check whether FILE is
true and don't read the PID file if it is; use 'read-pid-file' instead
of a potentially endless loop.
2018-09-08 23:02:00 +02:00
c665774a1c
gnu: mes: Update to 0.17.1.
...
* gnu/packages/patches/mes-nyacc-0.86.0.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/mes.scm (mes): Update to 0.17.1, depend on latest Nyacc 0.86.0.
(nyacc-for-mes): Remove.
2018-09-08 20:36:30 +02:00
445ecce923
gnu: nyacc: Update to 0.86.0.
...
* gnu/packages/patches/nyacc-binary-literals.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/mes.scm (nyacc): Update to 0.86.0, add patch.
2018-09-08 20:36:30 +02:00
39b5d8fd9d
gnu: Add frotz, frotz-dumb-terminal, and frotz-sdl.
...
* gnu/packages/games.scm (frotz, frotz-dumb-terminal, frotz-sdl): New
variables.
Signed-off-by: Kei Kebreau <kkebreau@posteo.net>
2018-09-08 13:41:10 -04:00
090e3768e8
gnu: linux-libre: Update to 4.18.6.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.6.
(%linux-libre-hash): Update hash.
2018-09-07 21:05:14 -04:00
4be8fdd3cc
gnu: linux-libre@4.14: Update to 4.14.68.
...
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.68.
(%linux-libre-4.14-hash): Update hash.
2018-09-07 21:03:03 -04:00
ddb419ce04
gnu: linux-libre@4.9: Update to 4.9.125.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.125.
2018-09-07 21:02:30 -04:00
48d17ba1d3
gnu: linux-libre@4.4: Update to 4.4.154.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.154.
2018-09-07 21:01:48 -04:00
9b6c435564
services: 'instantiate-missing-services' reaches fixed point.
...
Fixes a bug whereby services indirectly depended on would not be
automatically instantiated.
* gnu/services.scm (instantiate-missing-services): Loop back when the
length of ADJUSTED is greater than that of INSTANCES.
* tests/services.scm ("instantiate-missing-services, indirect"): New test.
2018-09-07 23:00:39 +02:00
9f1f200c04
gnu: diffoscope: Update to 100.
...
* gnu/packages/package-management.scm (diffoscope): Update to 100.
2018-09-07 17:59:16 +02:00
afdd1555c4
gnu: indent: Add version 2.2.12.
...
* gnu/packages/code.scm (indent-2.2.12): New variable.
2018-09-07 17:57:04 +02:00
6b4f99102c
gnu: gdb: Update to 8.2.
...
* gnu/packages/gdb.scm (gdb): Update to 8.2.
2018-09-07 17:55:55 +02:00
15214828a5
gnu: guile-json: Update to 1.2.0.
...
* gnu/packages/guile.scm (guile-json): Update to 1.2.0.
[license]: Change to GPL3+.
2018-09-07 17:55:51 +02:00
214452ffd3
gnu: Add r-ggformula.
...
* gnu/packages/cran.scm (r-ggformula): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
c61f7bc543
gnu: Add r-mosaiccore.
...
* gnu/packages/cran.scm (r-mosaiccore): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
77b33e0ede
gnu: Add r-ggstance.
...
gnu/packages/cran.scm (r-ggstance): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
12da2a5e58
gnu: Add r-abctools.
...
* gnu/packages/cran.scm (r-abctools): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
cadc10a513
gnu: Add r-abcrf.
...
* gnu/packages/cran.scm (r-abcrf): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
40c10917bc
gnu: Add r-abcp2.
...
* gnu/packages/cran.scm (r-abcp2): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
12498b59e7
gnu: emacs-ess: Update to 17.11.
...
* gnu/packages/emacs.scm (emacs-ess): Update to 17.11
[url]: Use github for https
[snippet]: update julia-mode substitution, only build info doc, bypass failing test
[propagated-inputs]: Add emacs-julia-mode
[description]: Mention that ESS supports Julia and JAGS (which replaces OpenBUGS)
[arguments]: Remove 'set-home' phase.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
1540075c79
vm: Make UUID computation really deterministic.
...
Fixes <https://bugs.gnu.org/32652 >.
* gnu/system/vm.scm (operating-system-uuid)[service-name,
file-system-digest]: New procedures.
Map these over services and file systems and hash the result.
* tests/guix-system.sh: Add test.
2018-09-07 11:40:05 +02:00
0012e0dd56
gnu: knot: Update to 2.7.2.
...
* gnu/packages/dns.scm (knot): Update to 2.7.2.
2018-09-07 03:01:40 +02:00
91cc2a38de
gnu: Wireshark: Update to 2.6.3 [fixes CVE-2018-{14994,16056,16057,16058}].
...
* gnu/packages/networking.scm (wireshark): Update to 2.6.3.
2018-09-06 17:05:42 -04:00
1e066f0706
gnu: curl: Update replacement to 7.61.1 [fixes CVE-2018-14618].
...
* gnu/packages/curl.scm (curl)[replacement]: Update to 7.61.1.
(curl-7.61.0): Replace variable with ...
(curl-7.61.1): ... new variable.
2018-09-06 17:02:52 -04:00
21f5f351fb
gnu: libgme: Update to 0.6.2.
...
* gnu/packages/music.scm (libgme): Update to 0.6.2.
[native-inputs]: Add gcc-4.9.
2018-09-06 11:01:52 -04:00
7df945656c
services: hpcguix-web: Set SSL_CERT_DIR.
...
Previously Git pulls over HTTPS would fail with:
guix/git.scm:132:7: In procedure update-cached-checkout:
Throw to key `git-error' with args `(#<<git-error> code: -17 message: "the SSL certificate is invalid" class: 16>)'.
* gnu/services/web.scm (hpcguix-web-shepherd-service): Pass
"SSL_CERT_DIR=/etc/ssl/certs".
* doc/guix.texi (Web Services): Mention certificates.
2018-09-06 13:49:06 +02:00
f66be84d08
gnu: gfortran, gcc-objc, gcc-objc++: Add version 8.
...
* gnu/packages/gcc.scm (gfortran-8, gcc-objc-8, gcc-objc++-8): New
variables.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-06 11:12:40 +02:00
b290a631a0
gnu: guile-present: Install .go files to libdir.
...
* gnu/packages/plotutils.scm (guile-present)[source](modules, snippet):
Remove.
2018-09-06 10:49:42 +02:00
89874fd156
gnu: guile-charting: Install .go files to libdir.
...
* gnu/packages/plotutils.scm (guile-charting)[source](modules, snippet):
Remove.
2018-09-06 10:48:44 +02:00
b3ca2d8883
gnu: hpcguix-web: Update to 9ff40fc.
...
* gnu/packages/web.scm (hpcguix-web): Update to 9ff40fc.
[arguments]: In 'wrap-program' phase, add guile-gcrypt, guile-git, and
guile-bytestructures to DEPS.
2018-09-06 10:46:07 +02:00
96d6c41dfa
gnu: guile-commonmark: Install .go files to libdir.
...
* gnu/packages/guile.scm (guile-commonmark)[source](snippet): Change the
"modir = " and "godir = " line separately, allowing .go files to be
installed to $(libdir).
2018-09-06 10:43:01 +02:00
d53aeeafcc
Add missing use-modules clause.
...
This is a follow-up to commit 5dfe491290
2018-09-06 04:53:32 +02:00
79b283e433
gnu: ccache: Update to 3.4.3.
...
* gnu/packages/ccache.scm (ccache): Update to 3.4.3.
[arguments]: Remove obsolete 'munge-failing-test' phase.
2018-09-06 02:33:47 +02:00
d83477adf9
gnu: font-fira-code: Update to 1.205.
...
* gnu/packages/fonts.scm (font-fira-code): Update to 1.205.
2018-09-06 02:33:47 +02:00
a5c70c2e0e
gnu: libmpdclient: Update to 2.15.
...
* gnu/packages/mpd.scm (libmpdclient): Update to 2.15.
2018-09-06 02:33:47 +02:00
00a43cb81c
gnu: pigx-scrnaseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
c2b4f81e51
gnu: pigx-bsseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
7cd40c8c5d
gnu: pigx-chipseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
ca248f1db9
gnu: pigx-rnaseq: Use latest version of Pandoc.
...
* gnu/packages/bioinformatics.scm (pigx-rnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
dff5640a59
gnu: r-rcas: Use standard version of ghc-pandoc-citeproc.
...
* gnu/packages/bioinformatics.scm (r-rcas)[native-inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc".
2018-09-05 20:03:09 +02:00
f33a4748b7
gnu: r-modelmetrics: Update to 1.2.0.
...
* gnu/packages/statistics.scm (r-modelmetrics): Update to 1.2.0.
[propagated-inputs]: Add r-data-table.
2018-09-05 20:03:09 +02:00
0d279d607a
gnu: r-robustbase: Update to 0.93-2.
...
* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-2.
2018-09-05 20:03:09 +02:00
8e499d756a
gnu: r-rann: Update to 2.6.
...
* gnu/packages/statistics.scm (r-rann): Update to 2.6.
2018-09-05 20:03:09 +02:00
314e8e763f
gnu: r-ggthemes: Update to 4.0.1.
...
* gnu/packages/statistics.scm (r-ggthemes): Update to 4.0.1.
[propagated-inputs]: Remove r-assertthat and r-colorspace; add r-purrr,
r-stringr, and r-tibble.
2018-09-05 20:03:09 +02:00
e5db6890ad
gnu: r-ztable: Update to 0.2.0.
...
* gnu/packages/statistics.scm (r-ztable): Update to 0.2.0.
[propagated-inputs]: Add r-flextable, r-magrittr, r-moonbook, r-officer,
r-rcolorbrewer, r-scales, and r-stringr.
2018-09-05 20:03:08 +02:00
f0519c8fae
gnu: r-zoo: Update to 1.8-3.
...
* gnu/packages/statistics.scm (r-zoo): Update to 1.8-3.
2018-09-05 20:03:08 +02:00
8da236a377
gnu: r-gtools: Update to 3.8.1.
...
* gnu/packages/statistics.scm (r-gtools): Update to 3.8.1.
2018-09-05 20:03:08 +02:00
c28d8d8db0
gnu: r-kernlab: Update to 0.9-27.
...
* gnu/packages/machine-learning.scm (r-kernlab): Update to 0.9-27.
2018-09-05 20:03:08 +02:00
c0608f815c
gnu: r-adaptivesparsity: Update to 1.6.
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* gnu/packages/machine-learning.scm (r-adaptivesparsity): Update to 1.6.
[propagated-inputs]: Add r-mass and r-matrix.
2018-09-05 20:03:08 +02:00
a207bca2ad
gnu: r-codedepends: Move from cran to bioconductor.
...
* gnu/packages/cran.scm (r-codedepends): Move from here...
* gnu/packages/bioconductor.scm (r-codedepends): ...to here.
2018-09-05 20:03:08 +02:00
5dfe491290
gnu: r-graph: Move from bioinformatics to bioconductor.
...
* gnu/packages/bioinformatics.scm (r-graph): Move from here...
* gnu/packages/bioconductor.scm (r-graph): ...to here.
2018-09-05 20:03:08 +02:00
caaec88651
gnu: r-ggpubr: Update to 0.1.8.
...
* gnu/packages/cran.scm (r-ggpubr): Update to 0.1.8.
[propagated-inputs]: Add r-glue and r-polynom.
2018-09-05 20:03:08 +02:00
a9b02ddd73
gnu: r-codedepends: Update to 0.6.5.
...
* gnu/packages/cran.scm (r-codedepends): Update to 0.6.5.
[propagated-inputs]: Add r-graph.
2018-09-05 20:03:08 +02:00
2e6909baf0
gnu: r-later: Update to 0.7.4.
...
* gnu/packages/cran.scm (r-later): Update to 0.7.4.
2018-09-05 20:03:08 +02:00
12132229b0
gnu: r-maptools: Update to 0.9-3.
...
* gnu/packages/cran.scm (r-maptools): Update to 0.9-3.
2018-09-05 20:03:08 +02:00
7a96c4e0a0
gnu: r-fnn: Update to 1.1.2.1.
...
* gnu/packages/cran.scm (r-fnn): Update to 1.1.2.1.
2018-09-05 20:03:08 +02:00
19950821d7
gnu: r-heatmaply: Update to 0.15.2.
...
* gnu/packages/cran.scm (r-heatmaply): Update to 0.15.2.
2018-09-05 20:03:08 +02:00
1fe9919a57
gnu: r-tsa: Update to 1.2.
...
* gnu/packages/cran.scm (r-tsa): Update to 1.2.
[propagated-inputs]: Remove r-tseries.
2018-09-05 20:03:08 +02:00
be5642eb69
gnu: r-statnet-common: Update to 4.1.4.
...
* gnu/packages/cran.scm (r-statnet-common): Update to 4.1.4.
2018-09-05 20:03:08 +02:00
e32368c130
gnu: r-metap: Update to 1.0.
...
* gnu/packages/cran.scm (r-metap): Update to 1.0.
[propagated-inputs]: Add r-rdpack.
2018-09-05 20:03:07 +02:00
d97d98e142
gnu: r-tinytex: Update to 0.8.
...
* gnu/packages/cran.scm (r-tinytex): Update to 0.8.
2018-09-05 20:03:07 +02:00
6f5b157e3d
gnu: r-pillar: Update to 1.3.0.
...
* gnu/packages/cran.scm (r-pillar): Update to 1.3.0.
[propagated-inputs]: Add r-fansi.
2018-09-05 20:03:07 +02:00
69bf449bf1
gnu: r-xts: Update to 0.11-0.
...
* gnu/packages/cran.scm (r-xts): Update to 0.11-0.
[native-inputs]: Remove.
2018-09-05 20:03:07 +02:00
1b3b2a72ee
gnu: r-mice: Update to 3.3.0.
...
* gnu/packages/cran.scm (r-mice): Update to 3.3.0.
2018-09-05 20:03:07 +02:00
a7265593d3
gnu: r-pan: Update to 1.6.
...
* gnu/packages/cran.scm (r-pan): Update to 1.6.
2018-09-05 20:03:07 +02:00
e7630cc931
gnu: r-jomo: Update to 2.6-4.
...
* gnu/packages/cran.scm (r-jomo): Update to 2.6-4.
[propagated-inputs]: Add r-ordinal.
2018-09-05 20:03:07 +02:00
b8f6e2f82a
gnu: Add r-ordinal.
...
* gnu/packages/cran.scm (r-ordinal): New variable.
2018-09-05 20:03:07 +02:00
dc66835226
gnu: Add r-ucminf.
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* gnu/packages/cran.scm (r-ucminf): New variable.
2018-09-05 20:03:07 +02:00
45c156bf81
gnu: r-broom: Update to 0.5.0.
...
* gnu/packages/cran.scm (r-broom): Update to 0.5.0.
[propagated-inputs]: Add r-backports, r-dplyr, r-purrr, and r-tibble; remove
r-plyr and r-psych.
2018-09-05 20:03:07 +02:00
pimi