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Author SHA1 Message Date
Ricardo Wurmus 5b5dbece6b
gnu: ghc-cryptonite: Update to 0.25. 
* gnu/packages/haskell-crypto.scm (ghc-cryptonite): Update to 0.25.
[inputs]: Add ghc-basement.
 2018-03-26 20:41:50 +02:00
Ricardo Wurmus 150e8e25f5
gnu: ghc-memory: Update to 0.14.16. 
* gnu/packages/haskell.scm (ghc-memory): Update to 0.14.16.
[inputs]: Add ghc-basement and ghc-foundation.
 2018-03-26 20:41:50 +02:00
Ricardo Wurmus 635cc8fef6
gnu: Add ghc-foundation. 
* gnu/packages/haskell.scm (ghc-foundation): New variable.
 2018-03-26 20:41:50 +02:00
Ricardo Wurmus da5fe92a0b
gnu: Add ghc-basement. 
* gnu/packages/haskell.scm (ghc-basement): New variable.
 2018-03-26 20:41:50 +02:00
Feng Shu 03a34d5412
gnu: emacs-exwm-x: Update to 1.8.1. 
* gnu/packages/emacs.scm (emacs-exwm-x): Update to 1.8.1.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-03-26 20:06:51 +02:00
Feng Shu 9f2a58a01a
gnu: emacs-exwm: Update to 0.18. 
* gnu/packages/emacs.scm (emacs-exwm): Update to 0.18.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-03-26 20:06:46 +02:00
Feng Shu aaa31d1b00
gnu: emacs-xelb: Update to 0.14. 
* gnu/packages/emacs.scm (emacs-xelb): Update to 0.14.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-03-26 20:06:37 +02:00
Nils Gillmann 0741932bc4
gnu: libressl: Update to 2.7.1. 
* gnu/packages/tls.scm (libressl): Update to 2.7.1.

Signed-off-by: Nils Gillmann <ng0@n0.is>
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-03-26 19:46:07 +02:00
Ludovic Courtès 3c1ae2a637
gnu: perl-image-exiftool: Update to 10.80. 
* gnu/packages/photo.scm (perl-image-exiftool): Update to 10.80.
 2018-03-26 18:24:55 +02:00
Ludovic Courtès 5ccd8f4061
gnu: magit-svn: Update to 2.2.0. 
* gnu/packages/emacs.scm (magit-svn): Update to 2.2.0.
[propagated-inputs]: Add WITH-EDITOR.
[arguments]: Add WITH-EDITOR to EMACSLOADPATH.
 2018-03-26 18:24:55 +02:00
Ludovic Courtès a271096b93
gnu: evince: Update to 3.28.0. 
* gnu/packages/gnome.scm (evince): Update to 3.28.0.
 2018-03-26 18:24:55 +02:00
Ludovic Courtès 323991339e
gnu: hwloc@1: Update to 1.11.10. 
* gnu/packages/mpi.scm (hwloc): Update to 1.11.10.
 2018-03-26 18:24:55 +02:00
Ludovic Courtès d2c036557a
gnu: hwloc@2: Update to 2.0.1. 
* gnu/packages/mpi.scm (hwloc-2.0): Update to 2.0.1.
[source]: Remove 'patches'.
* gnu/packages/patches/hwloc-tests-without-sysfs.patch: Remove.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
 2018-03-26 18:24:55 +02:00
Efraim Flashner bab9793f54
gnu: classpath: Add aarch64-linux support. 
* gnu/packages/java.scm (classpath-bootstrap, classpath-0.99)[source]:
Add patch.
* gnu/packages/patches/classpath-aarch64-support.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
 2018-03-26 12:21:33 +03:00
Mark H Weaver 5dc8f5de0c
gnu: linux-libre: Update to 4.15.13. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.15.13.
(%linux-libre-hash): Update hash.
 2018-03-26 05:00:38 -04:00
Mark H Weaver 27d528d81a
gnu: linux-libre@4.14: Update to 4.14.30. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.30.
(%linux-libre-4.14-hash): Update hash.
 2018-03-26 04:59:30 -04:00
Mark H Weaver af55816de5
gnu: linux-libre@4.9: Update to 4.9.90. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.90.
 2018-03-26 04:58:55 -04:00
Mark H Weaver 7ebe7d85c0
gnu: linux-libre@4.4: Update to 4.4.124. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.124.
 2018-03-26 04:58:09 -04:00
Ludovic Courtès e784e2561e
gnu: geeqie: Update to 1.4. 
* gnu/packages/image-viewers.scm (geeqie): Update to 1.4.
[arguments]: In 'autogen' phase, create ChangeLog{,.html}.
 2018-03-26 09:54:46 +02:00
Ludovic Courtès 6ae0fd212a
gnu: emacs-flycheck: Update to 31. 
* gnu/packages/emacs.scm (flycheck): Update to 31.
 2018-03-26 09:43:19 +02:00
Ludovic Courtès 66eb91be9c
gnu: pius: Update to 2.2.6. 
* gnu/packages/gnupg.scm (pius): Update to 2.2.6.
 2018-03-26 09:42:43 +02:00
Ludovic Courtès 07a049ceb1
gnu: usbredir: Build without '-Werror'. 
Fixes build failure introduced in
58ee8a94a9, where compilation would fail
with:

  usbredirhost.c: In function ?usbredirhost_open_full?:
  usbredirhost.c:749:5: error: ?libusb_set_debug? is deprecated: Use libusb_set_option instead [-Werror=deprecated-declarations]
       libusb_set_debug(host->ctx, host->verbose);
       ^
  In file included from usbredirhost.h:24:0,
		   from usbredirhost.c:31:
  /gnu/store/j8hzc465xy33cjfcq3wv39szxia4xrzv-libusb-1.0.22/include/libusb-1.0/libusb.h:1300:18: note: declared here
   void LIBUSB_CALL libusb_set_debug(libusb_context *ctx, int level);
		    ^
  cc1: all warnings being treated as errors

* gnu/packages/spice.scm (usbredir)[arguments]: In 'autogen' phase,
remove '-Werror' from configure.ac.
 2018-03-26 09:38:29 +02:00
Ricardo Wurmus 51602aac8e
gnu: ecj-javac-wrapper: Fix reference to glibj and tools.zip. 
* gnu/packages/java.scm (ecj-javac-wrapper)[arguments]: Fix references to
glibj and tools.zip.
 2018-03-26 08:05:24 +02:00
Ricardo Wurmus 40e3a197f9
gnu: classpath-jamvm-wrappers: Run JamVM with conservative options. 
* gnu/packages/java.scm (classpath-jamvm-wrappers)[arguments]: Pass extra
options to JamVM.
 2018-03-26 08:05:24 +02:00
Ludovic Courtès ce5964074a
gnu: hwloc@1: Update to 1.11.9. 
* gnu/packages/mpi.scm (hwloc): Update to 1.11.9.
 2018-03-26 00:15:52 +02:00
Ricardo Wurmus ae0a5a7edc
gnu: ecj-javac-wrapper: Run JamVM with conservative options. 
* gnu/packages/java.scm (ecj-javac-wrapper)[arguments]: Add options to jamvm
invocation.
 2018-03-26 00:14:44 +02:00
Ricardo Wurmus d4fd4c3a7b
gnu: ant-bootstrap: Make build more reliable. 
* gnu/packages/java.scm (ant-bootstrap)[arguments]: Remove bootstrap phase;
create HOME/.ant.properties; pass options to JamVM.
 2018-03-26 00:04:53 +02:00
Marius Bakke 7240b4a989
gnu: newsboat: Update to 2.11. 
* gnu/packages/syndication.scm (newsboat): Update to 2.11.
[inputs]: Change from JSON-C-0.12 to JSON-C.
[native-search-paths]: New field.
 2018-03-25 22:57:19 +02:00
Marius Bakke 171e84d63d
gnu: httpd: Update to 2.4.33 [security fixes]. 
This fixes CVE-2017-15710, CVE-2017-15715, CVE-2018-1283, CVE-2018-1301,
CVE-2018-1302, CVE-2018-1303, and CVE-2018-1312.

* gnu/packages/web.scm (httpd): Update to 2.4.33.
 2018-03-25 22:43:39 +02:00
Ricardo Wurmus 269fb7d310
gnu: Remove sablevm and sablevm-classpath, update comments. 
* gnu/packages/java.scm (sablevm, sablevm-classpath): Remove variables.
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus b5a0d42708
gnu: Remove ecj-javac-on-jamvm-wrapper. 
* gnu/packages/java.scm (ecj-javac-on-jamvm-wrapper): Remove variable.
(classpath-devel)[native-inputs]: Use ecj-javac-wrapper instead.
(jamvm)[inputs]: Use ecj-javac-wrapper instead.
(ecj-javac-on-jamvm-wrapper-final): Rename...
(ecj-javac-wrapper-final): ...to this.
(icedtea-6)[native-inputs]: Use "ecj-javac-wrapper-final" instead of
'ecj-javac-on-jamvm-wrapper-final".
[arguments]: Use jamvm's rt.jar.
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus c98d7a66cc
gnu: classpath-jamvm-wrappers: Use classpath-0.99. 
* gnu/packages/java.scm (classpath-jamvm-wrappers): Inherit from
classpath-0.99.
[native-inputs]: Replace "jamvm-bootstrap" with "jamvm-1-bootstrap"; replace
"classpath-on-sablevm" with "classpath-0.99".
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus 58d2b13544
gnu: Remove jamvm-bootstrap. 
* gnu/packages/java.scm (jamvm-bootstrap): Remove variable.
(classpath-devel)[native-inputs]: Use "jamvm-1-bootstrap" instead of
"jamvm-bootstrap".
(jamvm): Inherit from jamvm-1-bootstrap.
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus 8778da03c8
gnu: Replace classpath-on-sablevm with classpath-0.99. 
* gnu/packages/java.scm (classpath-on-sablevm): Replace with...
(classpath-0.99): ...this new variable.
(classpath-devel): Inherit from classpath-0.99.
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus c4f06c1164
gnu: ecj-javac-wrapper: Do not use sablevm. 
* gnu/packages/java.scm (ecj-javac-wrapper)[native-inputs]: Remove sablevm and
sablevm-classpath; add jamvm-1-bootstrap and classpath-bootstrap.
[arguments]: Simplify builder now that only jamvm is used.
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus 6c775dc644
gnu: ecj-bootstrap: Build with JamVM 1.5.1 and jikes. 
* gnu/packages/java.scm (ecj-bootstrap)[native-inputs]: Replace "sablevm" with
"jikes" and "jamvm-1-bootstrap".
[arguments]: Adjust accordingly.
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus ff4d9fdf8c
gnu: ant-bootstrap: Update to 1.8.4. 
* gnu/packages/java.scm (ant-bootstrap): Update to 1.8.4.
 2018-03-25 21:41:27 +02:00
Ricardo Wurmus aa432388da
gnu: ant-bootstrap: Build with JamVM 1.5.1. 
* gnu/packages/java.scm (ant-bootstrap)[native-inputs]: Replace sablevm with
jamvm-1-bootstrap.
[arguments]: Adjust accordingly.
 2018-03-25 21:41:26 +02:00
Ricardo Wurmus 063629aa3e
gnu: Add jamvm-1-bootstrap. 
* gnu/packages/java.scm (jamvm-1-bootstrap): New variable.
 2018-03-25 21:41:26 +02:00
Ricardo Wurmus 45f762ee96
gnu: Add classpath-bootstrap. 
* gnu/packages/java.scm (classpath-bootstrap): New variable.
 2018-03-25 21:41:26 +02:00
Tobias Geerinckx-Rice a667d20e9a
gnu: libmtp: Update to 1.1.15. 
* gnu/packages/libusb.scm (libmtp): Update to 1.1.15.
 2018-03-25 20:01:14 +02:00
Tobias Geerinckx-Rice 58ee8a94a9
gnu: libusb: Update to 1.0.22. 
* gnu/packages/libusb.scm (libusb): Update to 1.0.22.
 2018-03-25 20:01:14 +02:00
Tobias Geerinckx-Rice 1dc3109707
gnu: scotch: Use predictable source URI. 
* gnu/packages/maths.scm (scotch)[source]: Use predictable URI.
 2018-03-25 20:01:02 +02:00
Tobias Geerinckx-Rice bbc55a7dfa
gnu: mate-themes: Update to 3.22.15. 
* gnu/packages/mate.scm (mate-themes): Update to 3.22.15.
 2018-03-25 20:01:01 +02:00
Tobias Geerinckx-Rice 5a5b866324
gnu: filezilla: Update to 3.31.0. 
* gnu/packages/ftp.scm (filezilla): Update to 3.31.0.
 2018-03-25 20:01:01 +02:00
Tobias Geerinckx-Rice 5b367a1ade
gnu: hlint: Update to 2.1.1. 
* gnu/packages/haskell.scm (hlint): Update to 2.1.1.
 2018-03-25 20:01:01 +02:00
Tobias Geerinckx-Rice 326654e42b
gnu: flashrom: Support libusb versions >1.0.21. 
* gnu/packages/flashing-tools.scm (flashrom)[arguments]: Override CFLAGS
in #:make-flags.
 2018-03-25 20:01:01 +02:00
Tobias Geerinckx-Rice 883fa31088
gnu: python-pyld: Update to 1.0.3. 
* gnu/packages/python.scm (python-pyld): Update to 1.0.3.
[arguments]: Run the new test suite.
 2018-03-25 20:01:00 +02:00
Tobias Geerinckx-Rice 7112b2f148
gnu: openlibm: Update to 0.5.5. 
* gnu/packages/maths.scm (openlibm): Update to 0.5.5.
 2018-03-25 20:01:00 +02:00
Danny Milosavljevic 9b36e3bf25
gnu: Add python-parted. 
* gnu/packages/disk.scm (python-parted, python2-parted): New variables.
 2018-03-25 19:26:27 +02:00
Danny Milosavljevic a4e7215df2
gnu: Add python2-ipy. 
* gnu/packages/networking.scm (python2-ipy): New variable.
 2018-03-25 18:51:03 +02:00
Danny Milosavljevic c35d9830ce
gnu: fc-host-tools: Update to version 8. 
* gnu/packages/embedded.scm (fc-host-tools): Update to version 8.
 2018-03-25 17:02:10 +02:00
Danny Milosavljevic 6cf2ac3cd6
gnu: Add pure. 
* gnu/packages/pure.scm: New file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
 2018-03-25 17:02:01 +02:00
Danny Milosavljevic 1679923a2c
gnu: Add pan. 
* gnu/packages/mail.scm (pan): New variable.
 2018-03-25 17:01:34 +02:00
Danny Milosavljevic cd49e4789a
gnu: gtkspell3: Add enchant. 
* gnu/packages/gtk.scm (gtkspell3)[native-inputs]: Add enchant.
 2018-03-25 17:00:37 +02:00
Efraim Flashner 4bd2e2a5b0
gnu: clisp: Update license. 
License clarified with upstream.

* gnu/packages/lisp.scm (clisp)[license]: Correct license to gpl2+.
 2018-03-25 09:40:11 +03:00
Efraim Flashner be828bc40a
gnu: clisp: Remove ineffective 'remove-timestamp' phase. 
* gnu/packages/lisp.scm (clisp)[arguments]: Remove 'remove-timestamps'
phase.
 2018-03-25 09:40:05 +03:00
Tobias Geerinckx-Rice c77fb2d658
gnu: libdvdcss: Update to 1.4.2. 
* gnu/packages/video.scm (libdvdcss): Update to 1.4.2.
 2018-03-25 00:36:36 +01:00
Tobias Geerinckx-Rice d4297f71c6
gnu: gexiv2: Update to 0.10.8. 
* gnu/packages/gnome.scm (gexiv2): Update to 0.10.8.
 2018-03-25 00:36:36 +01:00
Tobias Geerinckx-Rice a26040c5ee
gnu: ruby-ffi: Update to 1.9.23. 
* gnu/packages/libffi.scm (ruby-ffi): Update to 1.9.23.
 2018-03-25 00:36:35 +01:00
Tobias Geerinckx-Rice a2b9cfa547
gnu: clutter-gst: Update to 3.0.26. 
* gnu/packages/gnome.scm (clutter-gst): Update to 3.0.26.
 2018-03-25 00:36:35 +01:00
Tobias Geerinckx-Rice 4bd76eac11
gnu: python-graphviz: Update to 0.8.2. 
* gnu/packages/graphviz.scm (python-graphviz): Update to 0.8.2.
 2018-03-25 00:36:35 +01:00
Tobias Geerinckx-Rice c7da85104b
gnu: gnome-autoar: Update to 0.2.3. 
* gnu/packages/gnome.scm (gnome-autoar): Update to 0.2.3.
 2018-03-25 00:36:35 +01:00
Tobias Geerinckx-Rice 4541072c11
gnu: libstrophe: Update to 0.9.2. 
* gnu/packages/messaging.scm (libstrophe): Update to 0.9.2.
 2018-03-25 00:36:34 +01:00
Tobias Geerinckx-Rice 1635cb5083
gnu: hunspell: Use INVOKE. 
* gnu/packages/libreoffice.scm (hunspell)[arguments]: Substitute INVOKE
for SYSTEM* and end phase with explicit #t.
 2018-03-25 00:36:34 +01:00
Tobias Geerinckx-Rice ef82b71c0f
gnu: hunspell: Update to 1.6.2. 
* gnu/packages/libreoffice.scm (hunspell): Update to 1.6.2.
 2018-03-25 00:36:34 +01:00
Tobias Geerinckx-Rice 1a52206e60
gnu: python-ly: Use PYPI-URI. 
* gnu/packages/python.scm (python-ly)[source]: Use PYPI-URI.
 2018-03-25 00:36:33 +01:00
Tobias Geerinckx-Rice 36828576b3
gnu: gnome-klotski: Update to 3.22.3. 
* gnu/packages/gnome.scm (gnome-klotski): Update to 3.22.3.
 2018-03-25 00:36:33 +01:00
Tobias Geerinckx-Rice 491883a6ea
gnu: aisleriot: Update to 3.22.5. 
* gnu/packages/gnome.scm (aisleriot): Update to 3.22.5.
 2018-03-25 00:36:33 +01:00
Tobias Geerinckx-Rice faf44e3810
gnu: neomutt: Update to 20180323. 
* gnu/packages/mail.scm (neomutt): Update to 20180323.
 2018-03-25 00:36:32 +01:00
Tobias Geerinckx-Rice e0bee0de70
gnu: ceres-solver: Update to 1.14.0. 
* gnu/packages/maths.scm (ceres-solver): Update to 1.14.0.
 2018-03-25 00:36:32 +01:00
Tobias Geerinckx-Rice 4fbcc21dc3
gnu: python-gitpython: Update to 2.1.1.9. 
* gnu/packages/version-control.scm (python-gitpython): Update to 2.1.9.
 2018-03-25 00:36:32 +01:00
Tobias Geerinckx-Rice 4349f3d0bd
gnu: yoshimi: Update to 1.5.7. 
* gnu/packages/music.scm (yoshimi): Update to 1.5.7.
 2018-03-25 00:36:32 +01:00
Tobias Geerinckx-Rice 904c3a4e99
gnu: r-annotate: Update to 1.56.2. 
* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.56.2.
 2018-03-25 00:36:31 +01:00
Tobias Geerinckx-Rice 749d800850
gnu: perl-text-simpletable: Update to 2.04. 
* gnu/packages/perl.scm (perl-text-simpletable): Update to 2.04.
 2018-03-25 00:36:31 +01:00
Tobias Geerinckx-Rice 810cd037a0
gnu: emacs-mmm-mode: Update to 0.5.5. 
* gnu/packages/emacs.scm (emacs-mmm-mode): Update to 0.5.5.
 2018-03-25 00:36:31 +01:00
Tobias Geerinckx-Rice 5660325eb7
gnu: autossh: Update to 1.4f. 
* gnu/packages/ssh.scm (autossh): Update to 1.4f.
 2018-03-25 00:36:30 +01:00
Tobias Geerinckx-Rice eb762cc70c
gnu: perl-www-mechanize: Update to 1.88. 
* gnu/packages/web.scm (perl-www-mechanize): Update to 1.88.
 2018-03-25 00:36:30 +01:00
Tobias Geerinckx-Rice 929e2d9f98
gnu: links: Update to 2.15. 
* gnu/packages/web-browsers.scm (links): Update to 2.15.
[source]: Remove patch for fixed CVE.
* gnu/packages/patches/links-CVE-2017-11114.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2018-03-25 00:36:30 +01:00
Ludovic Courtès e087dad3ab
gnu: less: Update to 530. 
* gnu/packages/less.scm (less): Update to 530.
 2018-03-25 00:29:59 +01:00
Ludovic Courtès c91e0f1ab3
gnu: cuirass: Update to 326264c. 
* gnu/packages/ci.scm (cuirass): Update to 326264c.
 2018-03-25 00:19:24 +01:00
Ricardo Wurmus 4d4a5698ec
gnu: sablevm: Do not change GC, just disable stripping. 
* gnu/packages/java.scm (sablevm)[arguments]: Disable stripping; do not play
with GC settings as they have no reliable effect on build success.
 2018-03-25 00:14:30 +01:00
Ricardo Wurmus f15e2ee4e8
gnu: sablevm: Use a different GC implementation. 
This is an attempt to fix a segfault when building ant-bootstrap.

* gnu/packages/java.scm (sablevm)[arguments]: Use gencopy GC implementation.
 2018-03-24 23:00:03 +01:00
Ricardo Wurmus 15b8b5deca
gnu: sablevm-classpath: Remove unnecessary inputs. 
* gnu/packages/java.scm (sablevm-classpath)[inputs]: Remove.
 2018-03-24 23:00:03 +01:00
Efraim Flashner 29be6cfb20
gnu: Add u-boot-pine64-plus. 
* gnu/packages/bootloaders.scm (u-boot-pine64-plus): New variable.
 2018-03-24 22:15:12 +03:00
Efraim Flashner 9a1c4a6cb8
gnu: make-u-boot-package: Install 'itb' and 'dtb' files also. 
* gnu/packages/bootloaders.scm (make-u-boot-package)[arguments]: Add
'itb' and 'dtb' files to the files installed during custom 'install phase.
 2018-03-24 22:15:11 +03:00
Efraim Flashner ecff374e1c
gnu: arm-trusted-firmware-pine64-plus: New variable. 
* gnu/packages/firmware.scm (arm-trusted-firmware-pine64-plus): New
variable.
 2018-03-24 22:15:11 +03:00
Efraim Flashner e9252fd11c
gnu: make-arm-trusted-firmware: New procedure. 
* gnu/packages/firmware.scm (make-arm-trusted-firmware): New procedure.
 2018-03-24 22:15:11 +03:00
Alex Kost d591989b42
gnu: tvtime: Fix build. 
* gnu/packages/tv.scm (tvtime)[native-inputs]: Add 'pkg-config' to avoid
compilation errors.
 2018-03-24 19:36:03 +03:00
Alex Kost 1f849cba9f
gnu: dunst: Update to 1.3.1. 
* gnu/packages/dunst.scm (dunst): Update to 1.3.1.
[arguments]: Add SERVICEDIR_DBUS make flag.
[inputs]: Use 'gdk-pixbuf' instead of 'gtk'.
 2018-03-24 19:36:03 +03:00
Oleg Pykhalov bba66e7a60
gnu: streamlink: Update to 0.11.0. 
* gnu/packages/video.scm (streamlink): Update to 0.11.0.
[native-inputs]: Add python-urllib3.
 2018-03-24 09:30:02 +03:00
Chris Marusich a335f6fcc9
system: Add "guix system docker-image" command. 
* gnu/system/vm.scm (system-docker-image): New procedure.
* guix/scripts/system.scm (system-derivation-for-action): Add a case for
  docker-image, and in that case, call system-docker-image.
  (show-help): Document docker-image.
  (guix-system): Parse arguments for docker-image.
* doc/guix.texi (Invoking guix system): Document "guix system
  docker-image".
* gnu/system/examples/docker-image.tmpl: New file.
 2018-03-24 03:04:11 +01:00
Chris Marusich 8c9bf2946a
gnu: When building in a VM, share a temporary directory. 
* gnu/build/vm.scm (load-in-linux-vm): Make a shared temporary directory
  available in the VM.
* gnu/system/vm.scm (%linux-vm-file-systems): Add a corresponding entry.
 2018-03-24 03:04:10 +01:00
Chris Marusich af81311b8c
vm: Allow control of deduplication in root-partition-initializer. 
* gnu/build/vm.scm (root-partition-initializer): Add #:deduplicate?
  keyword argument.
 2018-03-24 03:04:10 +01:00
Chris Marusich 272c070962
tests: Add tests for "guix pack". 
* guix/scripts/pack.scm (bootstrap-xz): New variable.
  (%options) <--bootstrap>: New option.
  (show-help): Document the new --bootstrap option.
  (guix-pack): When --bootstrap is specified, use the bootstrap Guile,
  tar, and xz to build the pack, and do not use any profile hooks or
  locales.
* doc/guix.texi (Invoking guix pull): Document the new --bootstrap
  option.
* tests/guix-pack.sh: New file.
* Makefile.am (SH_TESTS): Add guix-pack.sh.
* gnu/packages/package-management.scm (guix) <inputs>: Add util-linux.
 2018-03-24 03:04:07 +01:00
Sahithi Yarlagadda 24fa6bcac6
gnu: Add r-catdap. 
* gnu/packages/cran.scm (r-catdap): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2018-03-23 21:56:39 +01:00
Leo Famulari 116c12a122
gnu: Keep Krita 3 along with Krita 4. 
* gnu/packages/kde.scm (krita-3): New variable.
 2018-03-23 15:42:01 -04:00
Gábor Boskovits 2cac889151
gnu: java-aqute-bnd-annotation: Update to 3.5.0. 
* gnu/packages/java.scm (java-aqute-bnd-annotation): Update to 3.5.0.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2018-03-23 20:21:37 +01:00
Tobias Geerinckx-Rice 7aff5d025d
gnu: git: Update to 2.16.3. 
* gnu/packages/version-control.scm (git): Update to 2.16.3.
 2018-03-23 14:03:52 +01:00
Tobias Geerinckx-Rice b1be07cf04
gnu: libgee: Update to 0.20.1. 
* gnu/packages/gnome.scm (libgee): Update to 0.20.1.
 2018-03-23 11:32:16 +01:00
Tobias Geerinckx-Rice cd4c6039ea
gnu: fribidi: Update to 1.0.2. 
* gnu/packages/fribidi.scm (fribidi): Update to 1.0.2.
[arguments]: Disable building documentation for now.
 2018-03-23 11:32:16 +01:00
Tobias Geerinckx-Rice ee789a411c
gnu: parallel: Update to 20180322. 
* gnu/packages/parallel.scm (parallel): Update to 20180322.
 2018-03-23 11:32:15 +01:00
Tobias Geerinckx-Rice dd8237b6c3
gnu: coq-flocq: Use predictable source URI. 
* gnu/packages/ocaml.scm (coq-flocq)[source]: Use predictable URI.
 2018-03-23 11:32:15 +01:00
Mark H Weaver 77f2ced1a6
gnu: linux-libre@4.9: Update to 4.9.89. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.89.
 2018-03-23 04:50:01 -04:00
Mark H Weaver b06e94d310
gnu: linux-libre@4.4: Update to 4.4.123. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.123.
 2018-03-23 04:49:59 -04:00
Danny Milosavljevic ec40a0501f
gnu: Add lyx. 
* gnu/packages/patches/lyx-2.2.3-fix-test.patch: New file.
* gnu/local.mk: Add it.
* gnu/packages/tex.scm (lyx): New variable.
 2018-03-22 23:11:17 +01:00
Jelle Licht 282e48eae9
gnu: node: Update to 9.9.0. 
* gnu/packages/node.scm (node): Update to 9.9.0.
 2018-03-22 19:15:24 +01:00
Leo Famulari 5e56dfadba
gnu: krita: Update to 4.0.0. 
* gnu/packages/kde.scm (krita): Update to 4.0.0.
 2018-03-22 13:37:25 -04:00
Leo Famulari 10e2ee7887
gnu: darktable: Update to 2.4.2. 
* gnu/packages/photo.scm (darktable): Update to 2.4.2.
 2018-03-22 12:10:55 -04:00
Ricardo Wurmus 618050a126
gnu: r-bookdown: Do not propagate ghc-pandoc. 
This package propagates r-rmarkdown, which propagates its own variant of
Pandoc.

* gnu/packages/bioinformatics.scm (r-bookdown)[propagated-inputs]: Remove
ghc-pandoc.
 2018-03-22 17:07:15 +01:00
Marius Bakke 63c295d2f5
gnu: nginx: Update to 1.13.10. 
* gnu/packages/web.scm (nginx): Update to 1.13.10.
[arguments]: Update kernel version to match glibc minimum requirement.
 2018-03-22 14:40:40 +01:00
Marius Bakke 069d0b7f91
gnu: nmap: Update to 7.70. 
* gnu/packages/admin.scm (nmap): Update to 7.70.
[source](snippet): End on #t.
[inputs]: Add ZLIB.
 2018-03-22 14:40:40 +01:00
Marius Bakke 0e4d067f9e
gnu: talloc: Update to 2.1.12. 
* gnu/packages/samba.scm (talloc): Update to 2.1.12.
 2018-03-22 14:16:36 +01:00
Marius Bakke cbcbb10a63
gnu: certbot: Update to 0.22.2. 
* gnu/packages/tls.scm (python-acme, certbot): Update to 0.22.2.
 2018-03-22 14:14:09 +01:00
Marius Bakke 5da2a934b4
gnu: python-cryptography: Update to 2.2.1. 
* gnu/packages/python-crypto.scm (python-cryptography-vectors,
python-cryptography): Update to 2.2.1.
 2018-03-22 14:02:11 +01:00
Maxim Cournoyer 247384d069
gnu: Add supercollider. 
* gnu/packages/audio.scm (supercollider): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-03-22 12:31:00 +01:00
Maxim Cournoyer 6f976d2880
gnu: yaml-cpp: Update to 0.6.1. 
* gnu/packages/serialization.scm (yaml-cpp): Update to 0.6.1.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-03-22 12:30:46 +01:00
Maxim Cournoyer 7624300c84
gnu: Add boost-sync. 
* gnu/packages/boost.scm (boost-sync): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-03-22 12:30:39 +01:00
Ludovic Courtès ca5b73114f
gnu: shepherd: Update to 0.4.0. 
* gnu/packages/admin.scm (shepherd): Update to 0.4.0.  Remove patches.
* gnu/packages/patches/shepherd-close-fds.patch,
gnu/packages/patches/shepherd-herd-status-sorted.patch: Remove.
* gnu/local.mk (dist_patch_DATA): Remove them.
* gnu/services/admin.scm (%default-rotations): Remove
/var/log/shepherd.log.
 2018-03-22 11:43:30 +01:00
Ludovic Courtès 7fe1432a2e
services: rottlog: Add /var/log/debug to '%default-rotations'. 
* gnu/services/admin.scm (%rotated-files): Add "/var/log/debug".
 2018-03-22 11:43:29 +01:00
Mark H Weaver 4d7c5f6d7e
gnu: linux-libre: Update to 4.15.12. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.15.12.
(%linux-libre-hash): Update hash.
 2018-03-21 20:48:49 -04:00
Mark H Weaver 8ec89c358f
gnu: linux-libre@4.14: Update to 4.14.29. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.29.
(%linux-libre-4.14-hash): Update hash.
 2018-03-21 20:47:53 -04:00
Vasile Dumitrascu 4dd0f8c0c1
gnu: emacs-deferred: Update to 0.5.1. 
* gnu/packages/emacs.scm (emacs-deferred): Update to 0.5.1.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2018-03-22 00:09:55 +01:00
Vasile Dumitrascu 2fa6f63b16
gnu: emacs-clojure-mode: Update to 5.6.1. 
* gnu/packages/emacs.scm (emacs-clojure-mode): Update to 5.6.1.
 2018-03-22 00:08:15 +01:00
Leo Famulari b87c76dcaa
Fix copyright notice for Nils Gillmann. 
This is a followup to commit af23710ff5.

* gnu/packages/linux.scm: Fix name and email address for Nils Gillmann.
 2018-03-21 18:26:25 -04:00
Leo Famulari 4102588f85
gnu: mpd: Update to 0.20.18. 
* gnu/packages/mpd.scm (mpd): Update to 0.20.18.
 2018-03-21 18:26:25 -04:00
Tobias Geerinckx-Rice e2f9847be0
gnu: Add tinyscheme. 
* gnu/packages/scheme.scm (tinyscheme): New public variable.
 2018-03-21 18:38:23 +01:00
Tobias Geerinckx-Rice 0d73f1481b
gnu: libosinfo: Update usb.ids. 
This follows up commit 0def912088, which
tried to use the CVS ID as the SVN revision, which unfortunately doesn't
work.

* gnu/packages/virtualization.scm (libosinfo)[native-inputs]: Update
revision and hash for ‘usb.ids’.
 2018-03-21 17:00:11 +01:00
Leo Famulari ab68cbf2ee
gnu: rawtherapee: Update to 5.4. 
* gnu/packages/photo.scm (rawtherapee): Update to 5.4.
 2018-03-21 11:43:16 -04:00
Ricardo Wurmus 363ee7a3f4
gnu: pigx-chipseq: Update to 0.0.10. 
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.10.
[inputs]: Remove r-rcas and duplicate of snakemake; add r-biocparallel,
r-biostrings, r-dplyr, r-genomicalignments, rsamtools, r-s4vectors, r-tibble,
r-tidyr, r-htmlwidgets, and r-rmarkdown.
 2018-03-21 11:52:56 +01:00
Danny Milosavljevic 0def912088
gnu: libosinfo: Fix URL for usb.ids. 
Fixes <http://bugs.gnu.org/30890>.

* gnu/packages/virtualization.scm (libosinfo)[native-inputs]: Fix URL of
"usb.ids".
 2018-03-21 08:23:15 +01:00
Danny Milosavljevic db6609bd10
gnu: texlive-fonts-amsfonts: Make build reproducible. 
* gnu/packages/tex.scm (texlive-fonts-amsfonts)[arguments]<#:phases>[build]:
Make build reproducible.
 2018-03-21 01:36:50 +01:00
Leo Famulari af23710ff5
gnu: util-linux: Fix CVE-2018-7738 without grafting. 
* gnu/packages/linux.scm (util-linux)[replacement]: Remove field.
(util-linux-2.31.1): New variable.
* gnu/system.scm (%base-packages): Use util-linux-2.31.1.
 2018-03-20 17:14:22 -04:00
Tobias Geerinckx-Rice 8023f0fd03
gnu: gparted: Update to 0.31.0. 
* gnu/packages/disk.scm (gparted): Update to 0.31.0.
 2018-03-20 19:49:47 +01:00
Tobias Geerinckx-Rice 8abbe5dc82
gnu: coq-flocq: Update phase style. 
* gnu/packages/ocaml.scm (coq-flocq)[arguments]: Substitute INVOKE for
SYSTEM* and end all phases with an explicit #t.
 2018-03-20 19:49:47 +01:00
Tobias Geerinckx-Rice 324f192700
gnu: leocad: Use HTTPS home page. 
* gnu/packages/lego.scm (leocad)[home-page]: Use HTTPS.
 2018-03-20 19:49:47 +01:00
Tobias Geerinckx-Rice 84775d65a8
gnu: leocad: Update phase style. 
* gnu/packages/lego.scm (leocad)[arguments]: Substitute INVOKE for
SYSTEM* and end all phases with an explicit #t.
 2018-03-20 19:49:47 +01:00
Tobias Geerinckx-Rice b5df3e266b
gnu: leocad: Update to 18.02. 
* gnu/packages/lego.scm (leocad): Update to 18.02.
 2018-03-20 19:49:46 +01:00
Tobias Geerinckx-Rice 7d15cf175e
gnu: gmp-ecm: Update to 7.0.4. 
* gnu/packages/algebra.scm (gmp-ecm): Update to 7.0.4.
[source]: Use predictable URI.
 2018-03-20 19:49:46 +01:00
Tobias Geerinckx-Rice ef8b9a771c
gnu: r-spams: Use predictable source URI. 
* gnu/packages/statistics.scm (r-spams)[source]: Use predictable
URI.
 2018-03-20 19:49:46 +01:00
Ricardo Wurmus d7a11f1a8d
gnu: pigx-chipseq: Update to 0.0.9. 
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.9.
[inputs]: Add coreutils and grep.
 2018-03-20 19:47:37 +01:00
Vijayalakshmi 385e8614ef
gnu: Add python-logwrap. 
* gnu/packages/python.scm (python-logwrap): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
 2018-03-20 19:47:37 +01:00
Oleg Pykhalov 8c4bd04c86
gnu: python-ptyprocess: Update source URL. 
* gnu/packages/python.scm (python-ptyprocess)[origin](source): Update URL.
 2018-03-20 21:43:42 +03:00
Marius Bakke 576e0ae495
gnu: rofi: Update source hash. 
The tarball was updated in-place with a bugfix; see
<https://github.com/DaveDavenport/rofi/issues/782>.

* gnu/packages/xdisorg.scm (rofi)[source](sha256): Adjust hash.
[arguments]: Remove phase 'add-missing-configuration-files'.
 2018-03-20 19:23:34 +01:00
ng0 4a78fd4617
Correct name and Email for ng0. 
* .mailmap: Correct name and Email for ng0.
* Makefile.am, doc/guix.texi, etc/completion/fish/guix.fish
gnu/packages/accessibility.scm, gnu/packages/admin.scm,
gnu/packages/audio.scm, gnu/packages/autotools.scm,
gnu/packages/cdrom.scm, gnu/packages/check.scm,
gnu/packages/cinnamon.scm, gnu/packages/compression.scm,
gnu/packages/crypto.scm, gnu/packages/databases.scm,
gnu/packages/django.scm, gnu/packages/dns.scm,
gnu/packages/emacs.scm, gnu/packages/enlightenment.scm,
gnu/packages/fonts.scm, gnu/packages/fontutils.scm,
gnu/packages/forth.scm, gnu/packages/fvwm.scm,
gnu/packages/games.scm, gnu/packages/gl.scm,
gnu/packages/gnome.scm, gnu/packages/gnunet.scm,
gnu/packages/gnupg.scm, gnu/packages/gnuzilla.scm,
gnu/packages/gtk.scm, gnu/packages/guile-wm.scm,
gnu/packages/guile.scm, gnu/packages/haskell-check.scm,
gnu/packages/haskell-crypto.scm, gnu/packages/haskell.scm,
gnu/packages/image-viewers.scm, gnu/packages/image.scm,
gnu/packages/irc.scm, gnu/packages/language.scm,
gnu/packages/libcanberra.scm, gnu/packages/linux.scm,
gnu/packages/lisp.scm, gnu/packages/lolcode.scm,
gnu/packages/lxde.scm, gnu/packages/lxqt.scm,
gnu/packages/mail.scm, gnu/packages/markup.scm,
gnu/packages/mate.scm, gnu/packages/maths.scm,
gnu/packages/mc.scm, gnu/packages/messaging.scm,
gnu/packages/music.scm, gnu/packages/ncurses.scm,
gnu/packages/networking.scm, gnu/packages/nickle.scm,
gnu/packages/openbox.scm, gnu/packages/pdf.scm,
gnu/packages/perl-check.scm, gnu/packages/perl.scm,
gnu/packages/python-crypto.scm, gnu/packages/python-web.scm,
gnu/packages/python.scm, gnu/packages/qt.scm,
gnu/packages/ruby.scm, gnu/packages/rust.scm,
gnu/packages/scheme.scm, gnu/packages/serialization.scm,
gnu/packages/shells.scm, gnu/packages/ssh.scm,
gnu/packages/suckless.scm, gnu/packages/tbb.scm,
gnu/packages/telephony.scm, gnu/packages/text-editors.scm,
gnu/packages/textutils.scm, gnu/packages/time.scm,
gnu/packages/tls.scm, gnu/packages/tor.scm,
gnu/packages/version-control.scm, gnu/packages/video.scm,
gnu/packages/vim.scm, gnu/packages/web.scm,
gnu/packages/wm.scm, gnu/packages/xdisorg.scm,
gnu/packages/xfce.scm, gnu/packages/xml.scm,
gnu/packages/xorg.scm, gnu/services/certbot.scm,
gnu/services/desktop.scm, gnu/services/version-control.scm,
gnu/services/web.scm, guix/import/hackage.scm,
guix/licenses.scm: Likewise.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2018-03-20 17:17:58 +01:00
Kei Kebreau f812145e3e
gnu: ruby-sanitize: Update to 4.6.3. 
This fixes CVE-2018-3740.

* gnu/packages/ruby.scm (ruby-sanitize): Update to 4.6.3.
 2018-03-20 11:20:33 -04:00
宋文武 32745b71e1
gnu: cdogs-sdl: Update to commit bab20313. 
Fixes <https://bugs.gnu.org/30623>.

* gnu/packages/games.scm (cdogs-sdl): Update to commit
bab2031369b9ea2dbeb7eedbde10a43dd8ca83db.
[source]: Use git-fetch.
 2018-03-20 22:33:18 +08:00
Sahithi Yarlagadda c56739df6b
gnu: Add r-dyn. 
* gnu/packages/cran.scm (r-dyn): New variable.
 2018-03-20 15:00:52 +01:00
Ricardo Wurmus 4f1e4f33a0
gnu: pigx-bsseq: Update to 0.0.8. 
* gnu/packages/bioinformatics.scm (pigx-bsseq): Update to 0.0.8.
 2018-03-20 14:56:44 +01:00
Marius Bakke dc7e07c9b9
Merge branch 'staging' 2018-03-20 14:13:05 +01:00
Ricardo Wurmus 616446ffbf
gnu: pigx-rnaseq: Update to 0.0.3. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.3.
[inputs]: Add gzip.
 2018-03-20 12:20:51 +01:00
Tobias Geerinckx-Rice c657716ede
gnu: dnsmasq: Fix description typos. 
* gnu/packages/dns.scm (dnsmasq)[description]: Fix some typos.
 2018-03-20 02:03:52 +01:00
Tobias Geerinckx-Rice 4e6c51d4eb
gnu: dnsmasq: Update to 2.79. 
* gnu/packages/dns.scm (dnsmasq): Update to 2.79.
 2018-03-20 02:03:52 +01:00
Marius Bakke a3e2b72ca9
gnu: certbot: Update to 0.22.1. 
* gnu/packages/tls.scm (python-acme, certbot): Update to 0.22.1.
 2018-03-20 01:40:07 +01:00
Marius Bakke 818e6d9704
gnu: python-cryptography: Update to 2.2. 
* gnu/packages/python-crypto.scm (python-cryptography-vectors,
python-cryptography): Update to 2.2.
 2018-03-20 01:25:10 +01:00
Marius Bakke c9838530d3
gnu: imlib2: Update to 1.5.1. 
* gnu/packages/image.scm (imlib2): Update to 1.5.1.
 2018-03-20 01:24:48 +01:00
Marius Bakke 264cb77646
gnu: imagemagick: Update to 6.9.9-39. 
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.9-39.
 2018-03-20 01:09:16 +01:00
Marius Bakke 0d729c5b14
gnu: zziplib: Correct license. 
* gnu/packages/compression.scm (zziplib)[license]: Add MPL1.1.
 2018-03-20 01:06:43 +01:00
Marius Bakke 3f986ff657
gnu: zziplib: Update to 0.13.69. 
* gnu/packages/compression.scm (zziplib): Update to 0.13.69.
[home-page]: Use new GitHub home.
[source](uri): Adjust accordingly.
[arguments]: Remove.
 2018-03-20 00:56:04 +01:00
Marius Bakke 712be306a8
gnu: rofi: Update to 1.5.1. 
* gnu/packages/xdisorg.scm (rofi): Update to 1.5.1.
 2018-03-20 00:34:00 +01:00
Marius Bakke dbc75dadb5
Revert "Revert "gnu: patchelf: Update argument phase."" 
This change only affects armhf, which doesn't use PatchELF.  My bad!

This reverts commit b1d096f869.
 2018-03-20 00:20:59 +01:00
Marius Bakke b1d096f869
Revert "gnu: patchelf: Update argument phase." 
It causes too many rebuilds this late in the 'staging' cycle.

This reverts commit c1d1cd817c.
 2018-03-20 00:06:34 +01:00
Leo Famulari d41ad1d553
gnu: uwsgi: Update to 2.0.17 [fixes CVE-2018-7490]. 
* gnu/packages/web.scm (uwsgi): Update to 2.0.17.
[source]: Use HTTPS URL.
 2018-03-19 18:56:26 -04:00
Ludovic Courtès cfbf6de18c
gnu: mcron: Update to 1.1 and deprecate "mcron2". 
* gnu/packages/guile.scm (mcron): Update to 1.1.
[native-inputs]: Add TZDATA-FOR-TESTS.
[arguments]: New field.
(mcron2): Define using 'deprecated-package'.
* gnu/services/mcron.scm: Replace 'mcron2' with 'mcron'.
* doc/guix.texi (Scheduled Job Execution): Likewise.
* gnu/tests/base.scm (%mcron-os): Remove comment about mcron2.
 2018-03-19 23:19:49 +01:00
Mark H Weaver f88028c432
gnu: linux-libre: Update to 4.15.11. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.15.11.
(%linux-libre-hash): Update hash.
 2018-03-19 18:02:29 -04:00
Mark H Weaver dd07a549d0
gnu: linux-libre@4.14: Update to 4.14.28. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.28.
(%linux-libre-4.14-hash): Update hash.
 2018-03-19 18:01:49 -04:00
Mark H Weaver cc367c7c7a
gnu: linux-libre@4.9: Update to 4.9.88. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.88.
 2018-03-19 18:01:12 -04:00
Mark H Weaver 75abeb73e3
gnu: linux-libre@4.4: Update to 4.4.122. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.122.
 2018-03-19 18:00:37 -04:00
Tobias Geerinckx-Rice 9010123565
gnu: weechat: Update to 2.1. 
* gnu/packages/irc.scm (weechat): Update to 2.1.
 2018-03-19 22:26:41 +01:00
Tobias Geerinckx-Rice 1d9b041c2e
gnu: perl-xml-compile-soap: Update to 3.24. 
* gnu/packages/xml.scm (perl-xml-compile-soap): Update to 3.24.
 2018-03-19 22:26:41 +01:00
Tobias Geerinckx-Rice fa3fff430b
gnu: perl-xml-simple: Update to 2.25. 
* gnu/packages/xml.scm (perl-xml-simple): Update to 2.25.
 2018-03-19 22:26:40 +01:00
Tobias Geerinckx-Rice 8d0d14479d
gnu: perl-math-random-secure: Fix typo. 
* gnu/packages/crypto.scm (perl-math-random-secure)[description]: Fix
the spelling of ‘millennia’.
 2018-03-19 22:26:30 +01:00
Ricardo Wurmus 9dbdc830f6
gnu: pigx-bsseq: Update to 0.0.7. 
* gnu/packages/bioinformatics.scm (pigx-bsseq): Update to 0.0.7.
[inputs]: Add coreutils, sed, and grep.
 2018-03-19 21:06:51 +01:00
Ricardo Wurmus 096589035e
gnu: bismark: Fix references to gunzip. 
* gnu/packages/bioinformatics.scm (bismark)[arguments]: Keep reference to
gunzip executable.
[inputs]: Add gzip.
 2018-03-19 21:06:51 +01:00
Ricardo Wurmus 51237011bf
gnu: pigx-scrnaseq: Update to 0.0.3. 
* gnu/packages/bioinformatics.scm (pigx-scrnaseq): Update to 0.0.3.
[inputs]: Add coreutils and perl.
 2018-03-19 21:06:50 +01:00
Efraim Flashner 203631d9ad
patchelf: Use 'https' for source uri. 
* gnu/packages/elf.scm (patchelf)[source]: Use 'https' for source uri.
 2018-03-19 21:48:43 +02:00
Efraim Flashner 05666fb8db
patchelf: Use 'https' for source uri. 
* gnu/packages/elf.scm (patchelf)[source]: Use 'https' for source uri.
 2018-03-19 21:48:06 +02:00
Efraim Flashner c1d1cd817c
gnu: patchelf: Update argument phase. 
* gnu/packages/elf.scm (patchelf)[arguments]: Use 'modify-phases'
syntax.  Replace 'system*' with 'invoke'.
 2018-03-19 21:48:06 +02:00
Efraim Flashner c24f1f1614
gnu: patchelf: Use 'target-arm32?' for armhf-linux case. 
* gnu/packages/elf.scm (patchelf)[inputs]: Replace armhf-linux detection
logic with 'target-arm32?' macro.
[arguments]: Same.
 2018-03-19 21:48:03 +02:00
Leo Famulari 9687d4042a
gnu: python-paramiko: Update to 2.1.5. 
* gnu/packages/python-crypto.scm (python-paramiko, python2-paramiko):
Update to 2.1.5.
 2018-03-19 14:34:55 -04:00
Leo Famulari 6969ad0edd
gnu: python-pynacl: Update to 1.2.0. 
* gnu/packages/python-crypto.scm (python-pynacl): Update to 1.2.0.
[native-inputs]: Add python-hypothesis.
 2018-03-19 12:37:51 -04:00
Ricardo Wurmus d8f08c85ad
gnu: pigx: Update to 0.0.2. 
* gnu/packages/bioinformatics.scm (pigx): Update to 0.0.2.
 2018-03-19 16:55:43 +01:00
Ricardo Wurmus d93a1c276b
gnu: r-rcas: Use ghc-pandoc-citeproc-with-pandoc-1. 
* gnu/packages/bioinformatics.scm (r-rcas)[inputs]: Replace
ghc-pandoc-citeproc with ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 16:55:43 +01:00
Tobias Geerinckx-Rice 504be7db58
gnu: bash-completion: Update to 2.8. 
* gnu/packages/bash.scm (bash-completion): Update to 2.8.
* gnu/packages/patches/bash-completion-directories.patch: Update context.
 2018-03-19 14:44:13 +01:00
Tobias Geerinckx-Rice 39c6af4774
gnu: hdparm: Update to 9.55. 
* gnu/packages/linux.scm (hdparm): Update to 9.55.
 2018-03-19 14:41:47 +01:00
Tobias Geerinckx-Rice eaa69a7996
gnu: libtirpc: Update to 1.0.3. 
* gnu/packages/onc-rpc.scm (libtirpc): Update to 1.0.3.
[source]: Remove patch.
* gnu/packages/patches/libtirpc-missing-headers.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
 2018-03-19 13:25:27 +01:00
Tobias Geerinckx-Rice 86ce44c503
gnu: libtirpc: Always return #t from phases. 
* gnu/packages/onc-rpc.scm (libtirpc)[arguments]: End phase with #t.
 2018-03-19 13:25:26 +01:00
Tobias Geerinckx-Rice 12c069dbcf
gnu: perl-file-basedir: Update to 0.08. 
* gnu/packages/freedesktop.scm (perl-file-basedir): Update to 0.08.
 2018-03-19 13:25:26 +01:00
Tobias Geerinckx-Rice 0f7514580b
gnu: enlightenment: Update to 0.22.2. 
* gnu/packages/enlightenment.scm (enlightenment): Update to 0.22.2.
 2018-03-19 13:24:28 +01:00
Tobias Geerinckx-Rice ad19762859
gnu: python-oslo.utils: Update to 3.36.0. 
* gnu/packages/openstack.scm (python-oslo.utils): Update to 3.36.0.
 2018-03-19 13:24:28 +01:00
Tobias Geerinckx-Rice 207e4d2705
gnu: python-oslo.i18n: Update to 3.20.0. 
* gnu/packages/openstack.scm (python-oslo.i18n): Update to 3.20.0.
 2018-03-19 13:24:28 +01:00
Tobias Geerinckx-Rice bae598d6c9
gnu: r-withr: Update to 2.1.2. 
* gnu/packages/statistics.scm (r-withr): Update to 2.1.2.
 2018-03-19 13:24:27 +01:00
Efraim Flashner 9760061315
gnu: tilda: Update to 1.4.1. 
* gnu/packages/terminals.scm (tilda): Update to 1.4.1.
[arguments]: Rename 'autogen phase to 'bootstrap.  Clean up 'bootstrap
phase.
 2018-03-19 14:22:28 +02:00
Ricardo Wurmus 32b7ccf9b4
gnu: pigx-chipseq: Update to 0.0.8. 
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.8.
[inputs]: Add python-magic, python-xlrd, and trim-galore.
[arguments]: Disable tests.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus 2915221bcb
gnu: pigx-scrnaseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus 9dcb4d22a4
gnu: pigx-bsseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus fd757a8f21
gnu: pigx-chipseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:55 +01:00
Ricardo Wurmus 1a29fc3ff9
gnu: pigx-rnaseq: Use pandoc-1. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq)[inputs]: Replace ghc-pandoc
with ghc-pandoc-1, and ghc-pandoc-citeproc with
ghc-pandoc-citeproc-with-pandoc-1.
 2018-03-19 11:07:54 +01:00
Ricardo Wurmus 8c6117ee22
gnu: Add ghc-pandoc-citeproc-with-pandoc-1. 
* gnu/packages/haskell.scm (ghc-pandoc-citeproc-with-pandoc-1): New variable.
 2018-03-19 11:07:54 +01:00
Marius Bakke 4eade64706
Merge branch 'master' into staging 2018-03-19 03:50:39 +01:00