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49432 Commits (8c65e219f7e28bbc4207a61ebd01a13f0bc12b1e)

Author SHA1 Message Date
Ricardo Wurmus 8c65e219f7
gnu: r-rhdf5: Update to 2.28.1. 
* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.28.1.
 2019-10-18 20:35:27 +02:00
Ricardo Wurmus be0af9cc8b
gnu: r-rhtslib: Update to 1.16.3. 
* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.16.3.
 2019-10-18 20:35:26 +02:00
Ricardo Wurmus b9f39ac986
gnu: r-mlinterfaces: Update to 1.64.1. 
* gnu/packages/bioconductor.scm (r-mlinterfaces): Update to 1.64.1.
 2019-10-18 20:35:26 +02:00
Ricardo Wurmus b62780d9f9
gnu: r-rsamtools: Update to 2.0.3. 
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.0.3.
 2019-10-18 20:35:26 +02:00
Ricardo Wurmus 195b18b58e
gnu: bowtie1: Update to 1.2.3. 
* gnu/packages/bioinformatics.scm (bowtie1): Update to 1.2.3.
 2019-10-18 20:35:26 +02:00
Christopher Baines 664692c6fc
gnu: guix-data-service: Update to 0.0.1-4.5e2bc7c. 
* gnu/packages/web.scm (guix-data-service): Update to 0.0.1-4.5e2bc7c.
 2019-10-18 18:48:28 +01:00
Tanguy Le Carrour dabcfc6de2
gnu: Add httpie. 
* gnu/packages/python-web.scm (httpie): New variable.

Signed-off-by: Oleg Pykhalov <go.wigust@gmail.com>
 2019-10-18 18:06:38 +03:00
Marius Bakke d8963031af
gnu: upx: Fix UCL input. 
UCL is a runtime dependency, and thus should not be a native input.

* gnu/packages/compression.scm (upx)[native-inputs]: Move UCL from here ...
[inputs]: ... to here.
 2019-10-18 14:43:27 +02:00
Marius Bakke 41c2744463
gnu: ucl: Build shared library instead of static. 
* gnu/packages/compression.scm (ucl)[arguments]: Add "--enable-shared" and
"--disable-static" in #:configure-flags.
 2019-10-18 14:35:58 +02:00
Marius Bakke 01c8b90b7b
gnu: ucl: Update home page. 
* gnu/packages/compression.scm (ucl)[source, home-page]: Use HTTPS.
 2019-10-18 14:35:58 +02:00
Marius Bakke 7349f926c7
gnu: ucl: Build with the C90 standard. 
Fixes <https://bugs.gnu.org/37778>.
Reported by Pierre Neidhardt <mail@ambrevar.xyz>.

* gnu/packages/compression.scm (ucl)[arguments]: New field.
 2019-10-18 14:35:57 +02:00
Marius Bakke 1df9245586
gnu: encfs: Fix build failure with GCC 7. 
Fixes <https://bugs.gnu.org/37779>.
Reported by Pierre Neidhardt <mail@ambrevar.xyz>.

* gnu/packages/crypto.scm (encfs)[arguments]: Add phase 'patch-CMakeLists.txt'.
 2019-10-18 14:35:57 +02:00
Marius Bakke 4ad2c9db7d
gnu: libwacom: Do not build static libraries. 
* gnu/packages/xdisorg.scm (libwacom)[arguments]: New field.
 2019-10-18 14:35:57 +02:00
Marius Bakke e8d6e36107
gnu: libwacom: Update to 1.1. 
* gnu/packages/xdisorg.scm (libwacom): Update to 1.1.
 2019-10-18 14:35:56 +02:00
Marius Bakke 43beec19f4
gnu: looking-glass-client: Disable CPU-specific optimizations. 
* gnu/packages/virtualization.scm (looking-glass-client)[source](modules,
snippet): New fields.
 2019-10-18 14:35:56 +02:00
Marius Bakke a31b745756
gnu: opensubdiv: Use a regular versioning pattern. 
* gnu/packages/graphics.scm (opensubdiv)[version]: Use dots instead of
underscores between numbers.
[source](uri): Adjust accordingly.
 2019-10-18 14:35:56 +02:00
Mark H Weaver 4845dee706
gnu: linux-libre@5.2: Remove. 
The 5.2 release series has reached end-of-life,
and is no longer supported upstream.

* gnu/packages/linux.scm (deblob-scripts-5.2, linux-libre-5.2-version)
(linux-libre-5.2-pristine-source, linux-libre-5.2-source)
(linux-libre-headers-5.2, linux-libre-5.2): Remove variables.
 2019-10-18 08:16:58 -04:00
Mark H Weaver e02c2f85b3
gnu: linux-libre: Update to 5.3.7. 
* gnu/packages/linux.scm (linux-libre-5.3-version): Update to 5.3.7.
(linux-libre-5.3-pristine-source): Update hash.
 2019-10-18 07:53:15 -04:00
Mark H Weaver b1b721186a
gnu: linux-libre@4.19: Update to 4.19.80. 
* gnu/packages/linux.scm (linux-libre-4.19-version): Update to 4.19.80.
(linux-libre-4.19-pristine-source): Update hash.
 2019-10-18 07:53:13 -04:00
Mark H Weaver e5df2dfce1
gnu: linux-libre@4.14: Update to 4.14.150. 
* gnu/packages/linux.scm (linux-libre-4.14-version): Update to 4.14.150.
(linux-libre-4.14-pristine-source): Update hash.
 2019-10-18 07:53:10 -04:00
Mark H Weaver b84d7ac06e
gnu: linux-libre@4.9: Update to 4.9.197. 
* gnu/packages/linux.scm (linux-libre-4.9-version): Update to 4.9.197.
(linux-libre-4.9-pristine-source): Update hash.
 2019-10-18 07:53:08 -04:00
Mark H Weaver 6f11d1b54e
gnu: linux-libre@4.4: Update to 4.4.197. 
* gnu/packages/linux.scm (linux-libre-4.4-version): Update to 4.4.197.
(linux-libre-4.4-pristine-source): Update hash.
 2019-10-18 07:53:06 -04:00
Pierre Neidhardt 6c16f1a5b3
gnu: lisp: Add most missing source package for Common Lisp libraries. 
* gnu/packages/lisp.scm (cl-parse-js, cl-parse-number, cl-iterate, cl-uglify,
  cl-cffi, cl-sqlite, cl-cffi-gtk, cl-webkit, cl-iolib, cl-ieee-floats,
  cl-xml, cl-reexport, cl-dexador, cl-cookie, cl-lisp-namespace,
  cl-trivial-cltl2, cl-introspect-environment, cl-type-i, cl-optima,
  cl-fare-quasiquote, cl-trivia, cl-mk-string-metrics, cl-str, cl-xmlspam):
  New variables.
 2019-10-18 12:46:25 +02:00
Ludovic Courtès a870f20fd8
news: Add CVE ID. 
* etc/news.scm: Add CVE ID for insecure permissions entry.
 2019-10-18 12:02:52 +02:00
Ludovic Courtès d7fcd9c565
lint: Comment out 'cve' checker. 
* guix/lint.scm (%network-dependent-checkers): Comment out 'cve' checker.
 2019-10-18 12:02:52 +02:00
Tonton b080b6d937
gnu: Add batctl. 
* gnu/packages/networking.scm (batctl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-10-18 12:02:52 +02:00
Boris A. Dekshteyn ad8aaf47f5
gnu: Add FontManager. 
* gnu/packages/fontutils.scm (fontmanager): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-10-18 12:02:52 +02:00
Ludovic Courtès e6ea74d86c
pull: Call 'ensure-default-profile' after 'set-build-options'. 
This is a followup to 81c580c866.

* guix/scripts/pull.scm (guix-pull): Move 'ensure-default-profile' call after
'set-build-options-from-command-line' call.  This ensures that the
'profiles/per-user/$USER' directory is created before
'ensure-default-profile' is called when 'GUIX_DAEMON_SOCKET' points to a
remote TCP daemon.
 2019-10-18 12:02:52 +02:00
Guillaume Le Vaillant 63729d9277
gnu: Add ecl-dexador. 
* gnu/packages/lisp.scm (ecl-dexador): New variable.
 2019-10-18 11:09:44 +02:00
Guillaume Le Vaillant 85a898536c
gnu: Add ecl-trivial-mimes. 
* gnu/packages/lisp.scm (ecl-trivial-mimes): New variable.
 2019-10-18 11:09:44 +02:00
Guillaume Le Vaillant 55af9fe0f4
gnu: sbcl-trivial-mimes: Fix 'fix-paths' phase. 
* gnu/packages/lisp.scm (sbcl-trivial-mimes)[arguments]: Use '(%lisp-type)'
  instead of hard coded 'sbcl' in 'fix-paths' phase.
 2019-10-18 11:09:44 +02:00
Guillaume Le Vaillant 5cace974a4
build-system/asdf: Fix package transform. 
* guix/build-system/asdf.scm (package-with-build-system):
  [find-input-package]: New function.
  [rewrite]: Use it.
 2019-10-18 11:09:44 +02:00
Guillaume Le Vaillant f733862cc9
gnu: Add arrows. 
* gnu/packages/lisp.scm (cl-arrows, sbcl-arrows, ecl-arrows): New variables.
 2019-10-18 10:55:52 +02:00
Guillaume Le Vaillant 3de2031097
gnu: cl+ssl: Update to 0.0.0-1.141ae91. 
* gnu/packages/lisp.scm (sbcl-cl+ssl): Update to 0.0.0-1.141ae91.
  [inputs]: Add alexandria and trivial-features.
 2019-10-18 10:52:12 +02:00
Florian Pelz 99190575a0
Fix documentation of delete_after in the getmail service. 
* doc/guix.texi (Getmail service): Remove the word `not'.
* gnu/services/getmail.scm (getmail-options-configuration): Ditto.
 2019-10-18 07:53:55 +00:00
Brian Leung d133bdbcaf
gnu: emacs-helm-sly: Fix hash. 
* gnu/packages/emacs-xyz.scm (emacs-helm-sly): Fix hash.
 2019-10-18 00:26:21 -07:00
Joseph LaFreniere fec41bceb8
gnu: Add emacs-minibuffer-line. 
* gnu/packages/emacs-xyz.scm (emacs-minibuffer-line): New variable.
 2019-10-18 07:15:15 +02:00
Danny Milosavljevic 919c5e1b43
gnu: sunxi-tools: Adapt to cross-compiler toolchain changes. 
* gnu/packages/admin.scm (sunxi-tools)[arguments]<#:phases>[set-environment-up]:
Adapt to cross-compiler toolchain changes.
 2019-10-18 01:52:11 +02:00
Julien Lepiller 9fbd0b1769
gnu: neovim: Remove unneeded reference. 
gnu/packages/vim.scm (neovim)[arguments]: Add a phase to remove a
reference to the compiler.
 2019-10-17 21:12:38 +02:00
Leo Famulari bf67988070
gnu: Exim: Update to 4.92.3 [fixes CVE-2019-16928]. 
* gnu/packages/mail.scm (exim): Update to 4.92.3.
 2019-10-17 15:05:48 -04:00
Christopher Baines 92807b6f57
doc: Remove 'maintainers' field from package documentation. 
The field itself was removed in 154f1f0937.

* doc/guix.texi (package Reference): Remove 'maintainers' field.
 2019-10-17 19:14:03 +01:00
Tanguy Le Carrour bfaa061718
gnu: Add minisign. 
* gnu/packages/crypto.scm (minisign): New public variable.

Signed-off-by: Mathieu Othacehe <m.othacehe@gmail.com>
 2019-10-17 17:30:58 +02:00
Ludovic Courtès 5fdf373701
gnu: ucx: Build verbosely. 
* gnu/packages/fabric-management.scm (ucx)[arguments]: Add #:make-flags.
 2019-10-17 14:50:13 +02:00
Ludovic Courtès ba95233f84
gnu: ucx: Disable optimizations specific to the build machine. 
* gnu/packages/fabric-management.scm (ucx)[arguments]: Replace
"--enable-optimizations" with "--disable-optimizations".
 2019-10-17 14:50:13 +02:00
Pierre Neidhardt 0cfdc7506b
gnu: Add emacs-helm-sly. 
* gnu/packages/emacs-xyz.scm (emacs-helm-sly): New variable.
 2019-10-17 12:02:44 +02:00
Pierre Neidhardt 7d66e87a5d
gnu: emacs-evil-collection: Update to 20191017. 
* gnu/packages/emacs-xyz.scm (emacs-evil-collection): Update to 20191017.
 2019-10-17 11:53:43 +02:00
Pierre Neidhardt 1635670c50
gnu: emacs-sly: Update to 20191016. 
* gnu/packages/emacs-xyz.scm (emacs-sly): Update to 20191016.
 2019-10-17 11:52:04 +02:00
Tobias Geerinckx-Rice 0230b92fde
gnu: emacs-nhexl-mode: Update to 1.4. 
* gnu/packages/emacs-xyz.scm (emacs-nhexl-mode): Update to 1.4.
 2019-10-17 07:11:35 +02:00
Tobias Geerinckx-Rice 99791c53cb
gnu: r-covr: Update to 3.3.2. 
* gnu/packages/cran.scm (r-covr): Update to 3.3.2.
 2019-10-17 07:11:34 +02:00
Tobias Geerinckx-Rice 2c19c5d86e
gnu: linux-libre@5.3: Update to 5.3.6. 
* gnu/packages/linux.scm (deblob-scripts-5.3)
(linux-libre-5.3-version, linux-libre-5.3-pristine-sources):
Update to 5.3.6.
 2019-10-17 07:11:34 +02:00