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31859 Commits

Author SHA1 Message Date
Marius Bakke 07d4200c1c gnu: mdds: Update to 1.4.3. 
* gnu/packages/boost.scm (mdds): Update to 1.4.3.
 2018-11-25 17:04:10 +01:00
Marius Bakke 9b3e11f6a8 gnu: python2-numpy@1.8: Provide "python2-nose". 
Also remove other native-inputs since they appear unnecessary.

* gnu/packages/python.scm (python2-numpy-1.8)[native-inputs]: New field.
 2018-11-25 16:56:26 +01:00
Julien Lepiller 07fdf96140 gnu: diffoscope: Update to 106. 
* gnu/packages/package-management.scm (diffoscope): Update to 106.
 2018-11-25 12:57:26 +01:00
Julien Lepiller c1d80c7a9c gnu: diffoscope: Fix test failure. 
* gnu/packages/package-management.scm (diffoscope)[arguments]: Remove
failing Berkeley DB test.
 2018-11-25 12:57:20 +01:00
Marius Bakke 4820b75de0 Merge branch 'master' into core-updates 2018-11-24 19:44:05 +01:00
Marius Bakke 1261804985 gnu: python-pika: Update to 0.12.0. 
* gnu/packages/python.scm (python-pika): Update to 0.12.0.
 2018-11-24 19:43:18 +01:00
Marius Bakke 4b2d1dc4dc gnu: bless: Adjust to zlib static output. 
* gnu/packages/bioinformatics.scm (bless)[inputs]: Add ZLIB:STATIC.
[arguments]: Adjust #:make-flags accordingly.
 2018-11-24 19:32:48 +01:00
Mark H Weaver 1b3083267c gnu: ocaml-piqilib: Remove duplicate 'home-page' field. 
This is a followup to commit 564cf93f2a.

* gnu/packages/ocaml.scm (ocaml-piqilib)[home-page]: Remove duplicate field.
 2018-11-24 13:30:06 -05:00
Mark H Weaver e1d97c4efc gnu: rhythmbox: Update hash of patch. 
* gnu/packages/gnome.scm (rhythmbox)[source]: Update hash of the applied
patch.
 2018-11-24 13:29:59 -05:00
Marius Bakke 5ff6e06763 gnu: adb: Fix FTBFS with Glibc 2.28. 
* gnu/packages/android.scm (adb)[arguments]: Add phase 'glibc-compat'.
 2018-11-24 19:26:01 +01:00
Marius Bakke 45bc4b7ecb gnu: python2-fasteners: Propagate python2-futures. 
* gnu/packages/python.scm (python-fasteners)[properties]: New field.
(python2-fasteners)[propagated-inputs]: Add PYTHON2-FUTURES.
 2018-11-24 18:43:07 +01:00
Marius Bakke 366cd7fcba gnu: python2-futures: Update to 3.2.0. 
* gnu/packages/python.scm (python2-futures): Update to 3.2.0.
 2018-11-24 18:43:07 +01:00
Marius Bakke 799d4bac62 gnu: python2-futures: Disable tests. 
* gnu/packages/python.scm (python2-futures)[arguments]: Set #:test? #f.
 2018-11-24 18:43:06 +01:00
Pierre Neidhardt 4bddcae94b gnu: sbcl: Update to 1.4.13. 
* gnu/packages/lisp.scm (sbcl): Update to 1.4.13.
[native-inputs]: Use minimal texlive-union instead of full texlive.
[native-inputs]: Use CCL instead of buggy CLISP.
[arguments]: Replace all (zero? (system* ...)) by invoke.
 2018-11-24 18:36:14 +01:00
Pierre Neidhardt 27ebd5c4f9 gnu: gcl: Remove unnecessary texlive input. 
* gnu/packages/lisp.scm (gcl)[native-inputs]: Remove texlive.
 2018-11-24 18:36:13 +01:00
Marius Bakke 60667159d3 gnu: python-pycurl: Fix FTBFS from 7b84410046. 
* gnu/packages/python-web.scm (python-pycurl)[arguments]: Add phase
'configure-tls-backend'.
 2018-11-24 15:57:56 +01:00
Marius Bakke 68f2e55206 gnu: ledger: Fix build with Boost >= 1.68. 
* gnu/packages/finance.scm (ledger)[arguments]: Add phase 'boost-compat.
 2018-11-24 15:57:56 +01:00
Marius Bakke f028823c0f gnu: mosaik: Fix FTBFS from b90289dadc. 
* gnu/packages/bioinformatics.scm (mosaik)[inputs]: Add ZLIB:STATIC.
 2018-11-24 15:57:56 +01:00
Marius Bakke 15b5f9f718 gnu: python-cheetah: Update to 3.1.0. 
* gnu/packages/python.scm (python2-cheetah): Rename to ...
(python-cheetah): ... this.  Update to 3.1.0.
[arguments]: Add custom 'check' phase.
[propagated-inputs]: Change PYTHON2-MARKDOWN to PYTHON-MARKDOWN.
(python2-cheetah): Rewrite in terms of PACKAGE-WITH-PYTHON2.
 2018-11-24 15:57:56 +01:00
Marius Bakke 59a1aa595b gnu: python2-cheetah: Update home page. 
* gnu/packages/python.scm (python-cheetah)[home-page]: Update to current.
 2018-11-24 15:57:56 +01:00
Pierre Neidhardt 96cfa168e5 gnu: clojure: Move to new clojure.scm. 
* gnu/local.mk (clojure): Include new clojure.scm.
* gnu/packages/clojure.scm: Add clojure, clojure-algo-generic,
  clojure-algo-monads, clojure-core-match, clojure-instaparse,
  clojure-tools-macro.
* gnu/packages/lisp.scm: Remove clojure, clojure-algo-generic,
  clojure-algo-monads, clojure-core-match, clojure-instaparse,
  clojure-tools-macro.
 2018-11-24 15:20:51 +01:00
Pierre Neidhardt e83c7d1aba gnu: femtolisp: Move to scheme.scm. 
* gnu/packages/lisp.scm (femtolisp): Remove.
* gnu/packages/scheme.scm (femtolisp): Add.
 2018-11-24 15:11:37 +01:00
Leo Famulari 083ce0ad5e gnu: Add APFS-FUSE. 
* gnu/packages/file-systems.scm (apfs-fuse): New variable.
 2018-11-23 21:54:52 -05:00
Mark H Weaver 318507a6f6 gnu: linux-libre: Update to 4.19.4. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.19.4.
(%linux-libre-hash): Update hash.
 2018-11-23 21:05:18 -05:00
Mark H Weaver 245139cd0d gnu: linux-libre@4.14: Update to 4.14.83. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.83.
(%linux-libre-4.14-hash): Update hash.
 2018-11-23 21:03:29 -05:00
Mark H Weaver 268ba4cbcf gnu: linux-libre@4.9: Update to 4.9.140. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.140.
 2018-11-23 21:02:53 -05:00
Mark H Weaver f3d1a0463a gnu: linux-libre@4.4: Update to 4.4.164. 
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.164.
 2018-11-23 21:01:49 -05:00
Marius Bakke 5d46c8b47a gnu: freedesktop.scm: Sort imports and remove duplicates. 
* gnu/packages/freedesktop.scm: Sort imports alphabetically.
 2018-11-24 02:17:46 +01:00
Marius Bakke 01cef16f85 gnu: rust: Don't depend on 'git'. 
* gnu/packages/rust.scm (rust-1.19)[inputs]: Remove GIT.
(rust-1.20)[arguments]: Disable Cargo tests that require git.
(rust-1.26)[arguments]: Likewise.
 2018-11-24 02:03:12 +01:00
Marius Bakke 52b24ba495 gnu: mariadb: Update to 10.1.37 [security fixes]. 
This release fixes CVE-2018-3282, CVE-2018-3174, CVE-2018-3143, CVE-2018-3156,
and CVE-2018-3251.  See
<https://mariadb.com/kb/en/library/mariadb-10137-release-notes/> for details.

* gnu/packages/databases.scm (mariadb): Update to 10.1.37.
 2018-11-24 02:03:12 +01:00
Marius Bakke 4d8f4a3f00 Merge branch 'master' into core-updates 2018-11-24 01:58:18 +01:00
Marius Bakke dc4851093c gnu: libraw: Update to 0.19.1. 
* gnu/packages/photo.scm (libraw): Update to 0.19.1.
 2018-11-24 01:50:43 +01:00
Marius Bakke 43bcf392a7 gnu: libtorrent-rasterbar: Update to 1.1.11. 
* gnu/packages/bittorrent.scm (libtorrent-rasterbar): Update to 1.1.11.
 2018-11-24 01:50:43 +01:00
Nam Nguyen c2be790fb1 gnu: Add deluge. 
* gnu/packages/bittorrent.scm (deluge): New variable.

Co-authored-by: Mike Rosset <mike.rosset@gmail.com>
Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-24 01:50:43 +01:00
Nam Nguyen 39da44c2c0 gnu: libtorrent-rasterbar: Compile Python bindings in C++11 mode. 
* gnu/packages/bittorrent.scm (libtorrent-rasterbar)[arguments]: Add phase to
  substitute setup.py.

Co-authored-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-24 01:50:43 +01:00
Nam Nguyen 8afe166dd7 gnu: Add python-service-identity. 
* gnu/packages/python-crypto.scm (python-service-identity,
  python2-service-identity): New variables.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-24 01:50:42 +01:00
Nicolas Goaziou f12f70b1f2 gnu: Add emacs-matrix-client. 
* gnu/packages/emacs.scm (emacs-matrix-client): New variable.
 2018-11-23 21:43:15 +01:00
Nicolas Goaziou d4f7b7e127 gnu: Add emacs-a. 
* gnu/packages/emacs.scm (emacs-a): New variable.
 2018-11-23 21:43:15 +01:00
Nicolas Goaziou 8fc78612b5 gnu: Add emacs-tracking. 
* gnu/packages/emacs.scm (emacs-tracking): New variable.
 2018-11-23 21:43:14 +01:00
Nicolas Goaziou 87470116e6 gnu: Add emacs-ov. 
* gnu/packages/emacs.scm (emacs-ov): New variable.
 2018-11-23 21:43:14 +01:00
Paul Garlick 57d30004e5 gnu: python-slepc4py: Update to 3.10.0. 
* gnu/packages/maths.scm (python-slepc4py): Update to 3.10.0.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Paul Garlick cd3681a237 gnu: python-petsc4py: Update to 3.10.0. 
* gnu/packages/maths.scm (python-petsc4py): Update to 3.10.0.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Paul Garlick e93da160ca gnu: slepc: Update to 3.10.1. 
* gnu/packages/maths.scm (slepc): Update to 3.10.1.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Paul Garlick e6951e4ee0 gnu: petsc: Update to 3.10.2 
* gnu/packages/maths.scm (petsc): Update to 3.10.2.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:27:15 +01:00
Luther Thompson dc240b6aa5 gnu: python-ilinkedlist: Update to 0.4.0. 
* gnu/packages/python.scm (python-ilinkedlist): Update to 0.4.0.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2018-11-23 20:17:23 +01:00
Ludovic Courtès c491f7f8de gnu: pt-scotch, pt-scotch32: Add Open MPI setup phase. 
* gnu/packages/maths.scm (pt-scotch)[arguments]: Use 'invoke' instead of
'system*'.  Add 'mpi-setup' phase.
(pt-scotch32)[arguments]: Likewise.
 2018-11-23 18:44:47 +01:00
Ricardo Wurmus d57ec906ba gnu: pigx-scrnaseq: Use latest snakemake. 
* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace snakemake-4
with snakemake.
 2018-11-23 16:30:48 +01:00
Ricardo Wurmus 92d9a1e2c6 gnu: pigx-bsseq: Use latest snakemake. 
* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace snakemake-4
with snakemake.
 2018-11-23 16:30:16 +01:00
Ricardo Wurmus c068d00746 gnu: pigx-chipseq: Use latest snakemake. 
* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace snakemake-4
with snakemake.
 2018-11-23 16:29:35 +01:00
Ricardo Wurmus 936ea3d664 gnu: python-gevent: Update to 1.3.7. 
* gnu/packages/python.scm (python-gevent): Update to 1.3.7.
[arguments]: Find headers for greenlet in phase "do-not-use-bundled-sources".
[propagated-inputs]: Add python-objgraph.
 2018-11-23 16:01:21 +01:00