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Author SHA1 Message Date
Ludovic Courtès
b297934437
activation: Aways pass '-d HOME' to 'useradd'. 
Fixes <https://bugs.gnu.org/33422>.
Reported by fps.

* gnu/build/activation.scm (add-user): Always pass "-d HOME" when HOME
is true.  Pass "--create-home" only when HOME, CREATE-HOME?, and SYSTEM?
are true.
(activate-users+groups): Pass #:create-home? create-home? to
'ensure-user'.
* gnu/tests/base.scm (run-basic-test)["accounts"]: Test 'passwd:dir' as
well.
 2018-11-18 23:37:25 +01:00
Julien Lepiller
564cf93f2a
gnu: ocaml: Update to 4.7.0. 
Update ocaml to the latest version and fixes dependent packages by
updating them or by adding new inputs, such as ocaml-num and ocamlbuild,
that were removed from the core ocaml package. Rename packages that
cannot be built with the new compiler with an ocaml4.02 prefix. Add
ocaml4.02 dependencies.

* gnu/packages/ocaml.scm (ocaml): Update to 4.7.0.
(ocaml-4.02, ocamlbuild, camlp4-4.02, ocaml-num, ocaml4.02-menhir)
(ocaml4.02-lablgtk, ocaml4.02-findlib, ocaml4.02-ounit, ocaml4.02-camlzip)
(ocaml4.02-ocamlmod, ocaml4.02-zarith, ocaml4.02-qcheck, ocaml4.02-qtest)
(ocaml4.02-stringext, ocaml4.02-bisect, dune, ocaml-migrate-parsetree)
(ocaml-ppx-tools-versioned, ocaml-ppx-tools-versioned)
(ocaml4.02-bitstring, ocaml4.02-result, ocaml4.02-topkg, ocaml4.02-rresult)
(ocaml4.02-sqlite3, ocaml4.02-csv, ocaml4.02-mtime, ocaml4.02-cmdliner)
(ocaml4.02-fmt, ocaml4.02-astring, ocaml4.02-alcotest, ocaml4.02-ppx-tools)
(ocaml4.02-react, ocaml4.02-ssl, ocaml4.02-lwt, ocaml-lwt-log)
(ocaml4.02-lwt-log, ocaml4.02-logs, ocaml4.02-fpath, ocaml4.02-bos)
(ocaml4.02-xmlm, ocaml4.02-ulex, ocaml4.02-uchar, ocaml4.02-uutf)
(ocaml4.02-jsonm, ocaml4.02-ocurl, ocaml4.02-base64, ocaml4.02-omake)
(ocaml4.02-batteries, ocaml4.02-pcre, ocaml4.02-oasis)
(ocaml4.02-js-build-tools, ocaml4.02-cppo, ocaml-seq, ocaml4.02-seq)
(ocaml4.02-re, ocaml4.02-ocplib-endian, ocaml4.02-easy-format)
(ocaml4.02-piqilib, ocaml4.02-uuidm, ocaml4.02-graph, ocaml4.02-piqi)
(ocaml4.02-camomile, ocaml4.02-zed, ocaml4.02-lambda-term): New packages.
(opam): Update to 2.0.0.
(camlp4): Update to 4.07+1.
(camlp5): Update to 7.06.
(hevea): Update to 2.32.
(coq)[inputs]: Add ocaml-num.
(emacs-tuareg): Update to 2.2.0.
(ocaml-menhir)[native-inputs]: Add ocamlbuild.
(ocaml-lablgtk): Update to 2.18.6.
(unison)[inputs]: Use ocaml-4.02.
(ocaml-findlib): Update to 1.8.0.
(ocaml-ounit)[native-inputs]: Add ocamlbuild.
(ocamlmod): Update to 0.0.9.
(ocaml-frontc)[arguments]: Use ocaml-4.02.
(ocaml-qcheck)[native-inputs]: Add ocamlbuild.
(ocaml-qtest)[native-inputs]: Remove ocaml-findlib and add ocamlbuild.
(ocaml-stringext)[native-inputs]: Add ocamlbuild.
(ocaml-bisect): Update to 1.3.1.
(ocaml4.01-bisect): Downgrade to 1.3.
(ocaml-bitstring): Update to 3.1.0.
(ocaml-topkg)[native-inputs]: Add ocamlbuild.
(ocaml-rresult)[native-inputs]: Add ocamlbuild.
(ocaml-sqlite3)[native-inputs]: Add ocamlbuild.
(ocaml-csv)[native-inputs]: Add ocamlbuild.
(ocaml-mtime)[native-inputs]: Add ocamlbuild.
(ocaml-cmdliner)[native-inputs]: Add ocamlbuild.
(ocaml-fmt)[native-inputs]: Add ocamlbuild.
(ocaml-astring)[native-inputs]: Add ocamlbuild.
(ocaml-alcotest)[native-inputs]: Add ocamlbuild.
(ocaml-ppx-tools)[native-inputs]: Add ocamlbuild.
(ocaml-react)[native-inputs]: Add ocamlbuild.
(ocaml-ssl)[arguments]: Return #t in phases.
(ocaml-lwt): Update to 4.1.0.
(ocaml-logs)[native-inputs]: Add ocamlbuild.
(ocaml-fpath)[native-inputs]: Add ocamlbuild.
(ocaml-bos)[native-inputs]: Add ocamlbuild.
(ocaml-xmlm): Update to 1.3.0.
(ocaml-ulex): Update to 1.2.0.
(ocaml-uchar)[native-inputs]: Add ocamlbuild.
(ocaml-uutf): Update to 1.0.1.
(ocaml-jsonm): Update to 1.0.1.
(ocaml-ocurl): Update to 0.8.2.
(ocaml-base64)[native-inputs]: Add ocamlbuild.
(ocamlify)[native-inputs]: Use ocaml-4.02.
(omake): Update to 0.10.3.
(ocaml-batteries): Update to 2.9.0.
(ocaml-pcre)[native-inputs]: Add ocamlbuild.
(ocaml-expect): Update 0.0.6.
(ocaml4.02-fileutils): Update to 0.5.3.
(ocaml-oasis): Update 0.4.11.
(ocaml-js-build-tools)[native-inputs]: Add ocamlbuild.
(ocaml-bin-prot): Rename to ocaml4.02-bin-prot.
(ocaml-fieldslib): Rename to ocaml4.02-fieldslib.
(ocaml-ppx-core): Rename to ocaml4.02-ppx-core.
(ocaml-ppx-optcomp): Rename to ocaml4.02-ppx-optcomp.
(ocaml-ppx-driver): Rename to ocaml4.02-ppx-driver.
(ocaml-cppo): Update to 1.6.5.
(ocaml-ppx-deriving): Rename to ocaml4.02-ppx-deriving.
(ocaml-ppx-type-conv): Rename to ocaml4.02-ppx-type-conv.
(ocaml-ppx-inline-test): Rename to ocaml4.02-ppx-inline-test.
(ocaml-ppx-bench): Rename to ocaml4.02-ppx-bench.
(ocaml-ppx-compare): Rename to ocaml4.02-ppx-compare.
(ocaml-sexplib): Rename to ocaml4.02-sexplib.
(ocaml-typerep): Rename to ocaml4.02-typerep.
(ocaml-variantslib): Rename to ocaml4.02-variantslib.
(ocaml-ppx-sexp-conv): Rename to ocaml4.02-ppx-sexp-conv.
(ocaml-ppx-variants-conv): Rename to ocaml4.02-ppx-variants-conv.
(ocaml-ppx-here): Rename to ocaml4.02-ppx-here.
(ocaml-ppx-assert): Rename to ocaml4.02-ppx-assert.
(ocaml-ppx-enumerate): Rename to ocaml4.02-ppx-enumerate.
(ocaml-ppx-let): Rename to ocaml4.02-ppx-let.
(ocaml-ppx-typerep-conv): Rename to ocaml4.02-ppx-typerep-conv.
(ocaml-ppx-sexp-value): Rename to ocaml4.02-ppx-sexp-value.
(ocaml-ppx-pipebang): Rename to ocaml4.02-ppx-pipebang.
(ocaml-ppx-bin-prot): Rename to ocaml4.02-ppx-bin-prot.
(ocaml-ppx-fail): Rename to ocaml4.02-ppx-fail.
(ocaml-ppx-custom-printf): Rename to ocaml4.02-ppx-custom-printf.
(ocaml-ppx-sexp-message): Rename to ocaml4.02-ppx-sexp-message.
(ocaml-ppx-fields-conv): Rename to ocaml4.02-ppx-fields-conv.
(ocaml-re): Update to 1.8.0.
(ocaml-ppx-expect): Rename to ocaml4.02-ppx-expect.
(ocaml-ppx-jane): Rename to ocaml4.02-ppx-jane.
(ocaml-core-kernel): Rename to ocaml4.02-core-kernel.
(ocaml-async-kernel): Rename to ocaml4.02-async-kernel.
(ocaml-async-rpc-kernel): Rename to ocaml4.02-async-rpc-kernel.
(ocaml-core): Rename to ocaml4.02-core.
(ocaml-async-unix): Rename to ocaml4.02-async-unix.
(ocaml-async-extra): Rename to ocaml4.02-async-extra.
(ocaml-async): Rename to ocaml4.02-async.
(ocaml-ocplib-endian)[native-inputs]: Update to 1.0.
(ocaml-cstruct): Rename to ocaml4.02-cstruct.
(ocaml-hex): Rename to ocaml4.02-hex.
(ocaml-ezjsonm): Rename to ocaml4.02-ezjsonm.
(ocaml-uri): Rename to ocaml4.02-uri.
(optcomp): Use ocaml-4.02.
(ocaml-piqilib): Update to 0.6.14.
(ocaml-uuidm)[native-inputs]: Add ocamlbuild.
(ocaml-graph): Update to 1.8.8.
(ocaml-piqi): Update to 0.7.6.
(bap): Update to 1.3.0.
(ocaml-camomile): Update to 1.0.1.
(ocaml-jbuilder): Use ocaml-4.02.
(ocaml-lambda-term): Update to 1.13.
(ocaml-utop): Update to 2.2.0.
(ocaml-integers)[native-inputs]: Add ocamlbuild.
(ocaml-ctypes): Update to 0.14.0.
(ocaml-ocb-stubblr)[native-inputs]: Add ocamlbuild.
(ocaml-tsdl)[native-inputs]: Add ocamlbuild.
* gnu/packages/machine-learning.scm (ocaml-mcl): Use ocaml-4.02.
* gnu/packages/maths.scm (cubicle): Update to 1.1.2.
* gnu/packages/patches/ocaml-bisect-fix-camlp4-in-another-directory.patch:
Update patch.
* guix/build-system/ocaml.scm: (default-ocaml4.02, default-ocaml4.02-findlib)
(package-with-ocaml4.02, strip-ocaml4.02-variant): New variables.
 2018-11-18 18:51:08 +01:00
Kei Kebreau
1472d19abf
gnu: maxima: Fix tests on i686 and x86_64. 
* gnu/packages/maths.scm (maxima)[arguments]: Replace check phase.
 2018-11-18 11:58:38 -05:00
Pierre Neidhardt
d22ba64276
gnu: ccl: Include x86-headers and remove missing "contrib" folder. 
* gnu/packages/lisp.scm (ccl): Include x86-headers and remove missing "contrib" folder.
 2018-11-18 10:39:47 +01:00
Marius Bakke
f8cba3ff4f
gnu: mesa: Stay on RTTI-less LLVM. 
* gnu/packages/llvm.scm (llvm-without-rtti): New public variable.
* gnu/packages/gl.scm (mesa)[inputs]: Use that instead of LLVM.
 2018-11-17 22:54:03 +01:00
Eric Bavier
0a41123f01
gnu: Add ClamAV. 
* gnu/packages/antivirus.scm: New file.
* gnu/packages/patches/clamav-system-tomsfastmath.patch,
gnu/packages/patches/clamav-config-llvm-libs.patch: New files.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add new module.
(dist_patch_DATA): Add patches.

Co-authored-by: Christopher Baines <mail@cbaines.net>
 2018-11-17 00:20:44 -06:00
Eric Bavier
7ed018e8a2
gnu: Add TomsFastMath. 
* gnu/packages/multiprecision.scm (tomsfastmath): New variable.
* gnu/packages/patches/tomsfastmath-constness.patch: New patch.
* gnu/local.mk (dist_patch_DATA): Add it.
 2018-11-17 00:20:44 -06:00
Eric Bavier
fc9dbf4131
llvm: Build with RTTI by default. 
Increases size of llvm@6 by 2.5MiB (2.5%), but saves building specialized
llvm's with rtti enabled for packages that require RTTI when linking with the
llvm libraries.

* gnu/packages/llvm.scm (llvm-3.8-with-rtti): Remove variable.
(llvm)[arguments]: Add '-DLLVM_REQUIRES_RTTI=1' to #:configure-flags.
* gnu/packages/audio.scm (faust-2)[native-inputs]:
'llvm-3.8-with-rtti' -> 'llvm-3.8'.
 2018-11-17 00:19:53 -06:00
Vagrant Cascadian
0c7707d53e
gnu: u-boot: Update to 2018.11. 
* gnu/packages/bootloaders.scm (u-boot): Update to 2018.11.
(u-boot)[native-inputs]: Add lz4.
 2018-11-17 00:16:29 +01:00
Kyle Meyer
243bdcc12e
gnu: Add git-when-merged. 
* gnu/packages/version-control.scm (git-when-merged): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-16 23:11:40 +01:00
Thorsten Wilms
7a44e8752e
gnu: Add caps-plugins-lv2. 
* gnu/packages/audio.scm (caps-plugins-lv2): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-16 23:09:00 +01:00
David Thompson
a7b7d48cc7
gnu: tiled: Update to 1.2.1. 
* gnu/packages/game-development.scm (tiled): Update to 1.2.1.
 2018-11-16 10:34:29 -05:00
Mathieu Othacehe
2aee2a96b6
guile: newt: Update revision to 2. 
* gnu/packages/guile.scm (guile-newt): Update revision to 2.
 2018-11-16 17:42:07 +09:00
Andreas Enge
eea7cd7519
gnu: Add cmh. 
* gnu/packages/algebra.scm (cmh): New variable.
 2018-11-16 09:06:31 +01:00
Andreas Enge
44ff80fc0e
gnu: gp2c: Update to 0.0.11pl1. 
* gnu/packages/algebra.scm (gp2c): Update to 0.0.11pl1.
 2018-11-16 08:48:47 +01:00
Maxim Cournoyer
03592a6f88
gnu: emacs-realgud: Patch configure.ac to repair the build. 
This fixes https://bugs.gnu.org/33196, a build problem caused by a defective
Elisp snippet in a check in configure.ac.

* gnu/packages/patches/emacs-realgud-fix-configure-ac.patch: Add patch.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/emacs.scm (emacs-realgud)[source]: Use it.
 2018-11-15 22:42:35 -05:00
pimi
30f0d21b40
gnu: Add nanopolish. 
* gnu/packages/bioinformatics.scm (nanopolish): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2018-11-15 22:23:57 +01:00
Roel Janssen
2d86eaff5b
gnu: sambamba: Update to 0.6.8. 
* gnu/packages/bioinformatics.scm (sambamba): Update to 0.6.8.
 2018-11-15 13:09:01 +01:00
Mark H Weaver
7413c31693
gnu: linux-libre: Update to 4.19.2. 
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.19.2.
(%linux-libre-hash): Update hash.
 2018-11-14 19:16:24 -05:00
Mark H Weaver
24ba798731
gnu: linux-libre@4.14: Update to 4.14.81. 
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.81.
(%linux-libre-4.14-hash): Update hash.
 2018-11-14 19:14:39 -05:00
Mark H Weaver
6a1cff70bc
gnu: linux-libre@4.9: Update to 4.9.137. 
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.137.
 2018-11-14 19:13:46 -05:00
Paul Garlick
ae0f1dd1a4
gnu: Add fenics. 
* gnu/packages/simulation.scm (fenics): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick
0ace6c0b84
gnu: Add fenics-dolfin. 
* gnu/packages/simulation.scm (fenics-dolfin): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick
6b7f1f8afa
gnu: Add python-fenics-ffc. 
* gnu/packages/simulation.scm (python-fenics-ffc): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:09 +01:00
Paul Garlick
0fc499834f
gnu: Add python-fenics-fiat. 
* gnu/packages/simulation.scm (python-fenics-fiat): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
3941cf5afa
gnu: Add python-fenics-ufl. 
* gnu/packages/simulation.scm (python-fenics-ufl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
f7a4757a4c
gnu: Add python-fenics-dijitso. 
* gnu/packages/simulation.scm (python-fenics-dijitso): New varaible.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
6b5687d053
gnu: Add python-slepc4py. 
* gnu/packages/maths.scm (python-slepc4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
90ff287401
gnu: Add python-petsc4py. 
* gnu/packages/maths.scm (python-petsc4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Paul Garlick
54fcd547b3
gnu: Add python-mpi4py. 
* gnu/packages/mpi.scm (python-mpi4py): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2018-11-14 21:34:08 +01:00
Ludovic Courtès
7a54b2281d
gnu: guix-daemon: Install 'guix-authenticate'. 
Fixes <https://bugs.gnu.org/33368>.
Reported by Konrad Hinsen <konrad.hinsen@fastmail.net>.

* gnu/packages/package-management.scm (guix-daemon)[arguments]: In
'install' phase, build "install-nodist_libexecSCRIPTS" target to install
'guix-authenticate'.
 2018-11-14 21:34:08 +01:00
Marius Bakke
e921993c25
gnu: xf86-video-r128: Update to 6.12.0. 
* gnu/packages/xorg.scm (xf86-video-r128): Update to 6.12.0.
 2018-11-14 21:05:30 +01:00
Marius Bakke
24dd6ec38a
gnu: mtools: Update to 4.0.20. 
* gnu/packages/mtools.scm (mtools): Update to 4.0.20.
[source](uri): Change to 'bz2' compressed tarball.
 2018-11-14 21:05:30 +01:00
Marius Bakke
7939387da8
gnu: nano: Update to 3.2. 
* gnu/packages/nano.scm (nano): Update to 3.2.
 2018-11-14 21:05:30 +01:00
Marius Bakke
d63f588486
gnu: sudo: Update to 1.8.26. 
* gnu/packages/admin.scm (sudo): Update to 1.8.26.
 2018-11-14 21:05:30 +01:00
Marius Bakke
bac2974e86
gnu: feh: Update to 3.0. 
* gnu/packages/image-viewers.scm (feh): Update to 3.0.
 2018-11-14 21:05:30 +01:00
Ricardo Wurmus
ee66a13563
gnu: Add jamm. 
* gnu/packages/bioinformatics.scm (jamm): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
e4f4a04a51
gnu: Add r-ouch. 
* gnu/packages/cran.scm (r-ouch): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
10483a64ee
gnu: Add r-activity. 
* gnu/packages/cran.scm (r-activity): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
3cef715a46
gnu: Add r-circular. 
* gnu/packages/cran.scm (r-circular): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
08bf097a0b
gnu: Add r-overlap. 
* gnu/packages/cran.scm (r-overlap): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
acbf23da44
gnu: Add r-acdm. 
* gnu/packages/cran.scm (r-acdm): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
ffdeda3ce0
gnu: Add r-acd. 
* gnu/packages/cran.scm (r-acd): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
488dc4e1e2
gnu: Add r-abn. 
* gnu/packages/cran.scm (r-abn): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
0c92f3734e
gnu: Add r-rjags. 
* gnu/packages/cran.scm (r-rjags): New variable.
 2018-11-14 15:13:20 +01:00
Ricardo Wurmus
0bca8643a2
gnu: Add jags. 
* gnu/packages/statistics.scm (jags): New variable.
 2018-11-14 15:13:17 +01:00
Ricardo Wurmus
51b262f310
gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Update to 3.4.4. 
* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene):
Update to 3.4.4.
 2018-11-13 23:34:40 +01:00
Ricardo Wurmus
d34959b8d4
gnu: r-org-mm-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.7.0.
 2018-11-13 23:34:40 +01:00
Ricardo Wurmus
314511b862
gnu: r-org-dm-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00
Ricardo Wurmus
76bd16bcf6
gnu: r-org-ce-eg-db: Update to 3.7.0. 
* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.7.0.
 2018-11-13 23:34:39 +01:00