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45608 Commits

Author SHA1 Message Date
Ricardo Wurmus 036c86be5a
gnu: gobject-introspection: Update to 1.58.1. 
* gnu/packages/glib.scm (gobject-introspection): Update to 1.58.1.
[source]: Remove snippet.
[arguments]: Add phase "do-not-use-/usr/bin/env".
[inputs]: Replace python-2 with python-wrapper; add zlib.
[native-inputs]: Add autoconf and automake to be able to keep using the
gnu-build-system.
* gnu/packages/patches/gobject-introspection-cc.patch: Update patch to apply
to latest version.
 2019-06-20 23:24:34 -04:00
Ricardo Wurmus 6c237a2d7b
gnu: glib: Update to 2.58.1. 
* gnu/packages/glib.scm (glib): Update to 2.58.1.
[build-system]: Use meson-build-system.
[outputs]: Remove "doc" as the documentation files are no longer included.
[inputs]: Move libffi, util-linux, and zlib from here...
[propagated-inputs]: ...to here; add libselinux.
[arguments]: Remove key "disallowed-references" as it is not supported by the
meson-build-system; delete "bootstrap" phase to prevent use of autotools;
adjust "pre-build" phase; move "disable-failing-tests" phase after "unpack";
disable two more tests in "disable-failing-tests" phase; add phase
"move-executables"; remove configure flags.
 2019-06-20 23:24:28 -04:00
Jeremiah@pdp10.guru e7041c8ef8
gnu: python: Allow building on low-memory systems. 
* gnu/packages/python.scm (python-3.7)[source]: Delete memory-intensive test.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2019-06-20 23:56:59 +02:00
Marius Bakke fc9e5973d6
gnu: expat: Update to 2.2.7. 
* gnu/packages/xml.scm (expat): Update to 2.2.7.
[source](uri): Use XZ compressed archive.
 2019-06-20 23:56:59 +02:00
Marius Bakke d0828b0757
gnu: xorgproto: Update to 2019.1. 
* gnu/packages/xorg.scm (xorgproto): Update to 2019.1.
 2019-06-20 23:56:59 +02:00
Marius Bakke 78b036ddce
gnu: libxi: Update to 1.7.10. 
* gnu/packages/xorg.scm (libxi): Update to 1.7.10.
 2019-06-20 23:56:58 +02:00
Marius Bakke 8449cc133a
gnu: isl: Update to 0.21. 
* gnu/packages/gcc.scm (isl): Update to 0.21.
 2019-06-20 23:56:58 +02:00
Marius Bakke 9f1da6ced3
gnu: isl: Fix fallback URL. 
* gnu/packages/gcc.scm (isl, isl-0.18, isl-0.11)[source](uri): Use '.bz2' tarball.
 2019-06-20 23:56:58 +02:00
Marius Bakke 1bd364364d
gnu: ncurses: Update to 6.1-20190909. 
* gnu/packages/ncurses.scm (ncurses): Update to 6.1-20190609.
[arguments]: Reinstate 'apply-rollup-patch' phase.  Move
'remove-unneeded-shebang' phase later to prevent conflict with patch.
[native-inputs]: Add "rollup-patch" origin.
 2019-06-20 23:56:58 +02:00
Marius Bakke 2b5e412b30
gnu: commencement: Return #t from all phases. 
While at it, remove useless (and ...) indirections, because the procedures
never return #f anyway: instead they would raise an exception upon failure.

* gnu/packages/commencement.scm (mes-boot, tcc-boot0, tcc-boot,
diffutils-mesboot, binutils-mesboot0, gcc-core-mesboot, gcc-mesboot0,
glibc-headers-mesboot, glibc-mesboot, gnu-make-boot0): Return #t from phases
and remove (and ...) blocks.
 2019-06-20 23:56:58 +02:00
Marius Bakke 70530036b8
gnu: meson: Update to 0.51.0. 
* gnu/packages/build-tools.scm (meson): Update to 0.51.0.
 2019-06-20 23:56:57 +02:00
Marius Bakke ac3842ef3e
gnu: util-linux: Update to 2.34. 
* gnu/packages/linux.scm (util-linux): Update to 2.34.
 2019-06-20 23:56:57 +02:00
Marius Bakke 74c1c8daf5
gnu: libx11: Update to 1.6.8. 
* gnu/packages/xorg.scm (libx11): Update to 1.6.8.
 2019-06-20 23:56:57 +02:00
Marius Bakke c69959f054
gnu: Replace uses of 'cmake' with 'cmake-minimal'. 
This follows up commit 2f33a7321e which
introduced a new CMAKE-MINIMAL variant for use in package inputs.

* gnu/packages/databases.scm (python-pyarrow)[native-inputs]: Replace CMAKE
with CMAKE-MINIMAL.
* gnu/packages/emacs-xyz.scm (emacs-scel)[native-inputs]: Likewise.
* gnu/packages/firmware.scm (ath9k-htc-firmware)[native-inputs]: Likewise.
* gnu/packages/games.scm (0ad, the-butterfly-effect)[native-inputs]: Likewise.
* gnu/packages/gnome.scm (deja-dup)[native-inputs]: Likewise.
* gnu/packages/ibus.scm (ibus-rime)[native-inputs]: Likewise.
* gnu/packages/rust.scm (rust-1.19)[native-inputs]: Likewise.
* gnu/packages/simulation.scm (fenics)[native-inputs]: Likewise.
* gnu/packages/squirrel.scm (squirrel)[native-inputs]: Likewise.
* gnu/packages/video.scm (handbrake)[native-inputs]: Likewise.
* gnu/packages/virtualization.scm (xen)[native-inputs]: Likewise.
* gnu/packages/vulkan.scm (shaderc)[native-inputs]: Likewise.
 2019-06-20 23:56:57 +02:00
Marius Bakke 814e12dc87
packages: Retain version in file name when repacking source checkouts. 
Fixes <https://bugs.gnu.org/34066>.

* guix/packages.scm (patch-and-repack)<tarxz-name>: If FILE-NAME is a source
checkout, reuse the name without the '-checkout' part.
 2019-06-20 23:56:57 +02:00
Marius Bakke a9a78d8bfb
gnu: dbus: Update to 1.12.16. 
* gnu/packages/patches/dbus-CVE-2019-12749.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/glib.scm (dbus): Update to 1.12.16.
[replacement]: Remove.
(dbus/fixed): Remove variable.
 2019-06-20 23:40:52 +02:00
Marius Bakke 6cb1ef9ea2
Merge branch 'staging' into core-updates 2019-06-20 23:38:56 +02:00
Marius Bakke 010689e706
gnu: python-sphinx: Update to 2.1.2. 
* gnu/packages/sphinx.scm (python-sphinx): Update to 2.1.2.
 2019-06-20 23:19:09 +02:00
Marius Bakke 651478aa18
Merge branch 'master' into staging 2019-06-20 23:08:16 +02:00
Marius Bakke 9a2e5fe5fd
gnu: ungoogled-chromium: Disable parallel build. 
* gnu/packages/chromium.scm (ungoogled-chromium)[arguments]: Set
  #:parallel-build? #f.  Adjust 'build' phase to account for it.
 2019-06-20 22:49:32 +02:00
Marius Bakke 0605d939a9
gnu: samba: Update to 4.10.5 [fixes CVE-2019-12435, CVE-2019-12436]. 
* gnu/packages/samba.scm (samba): Update to 4.10.5.
 2019-06-20 22:49:32 +02:00
Marius Bakke cee835897b
gnu: ungoogled-chromium: Update to 75.0.3770.100-0.5d8abc3. 
* gnu/packages/chromium.scm (%chromium-version): Set to 75.0.3770.100.
(%chromium-origin): Update hash.
 2019-06-20 22:49:32 +02:00
Marius Bakke e4386b334a
gnu: openh264: Update to 2.0.0. 
* gnu/packages/video.scm (openh264): Update to 2.0.0.
[source](uri): Adjust file name.
 2019-06-20 22:49:32 +02:00
Alex Griffin 3df7b15e6c
gnu: ungoogled-chromium: Install icons. 
* gnu/packages/chromium.scm (ungoogled-chromium)[arguments]: Install icons.

Signed-off-by: Marius Bakke <mbakke@fastmail.com>
 2019-06-20 22:49:32 +02:00
Marius Bakke b549a05353
gnu: Use HTTPS for sphinx-doc.org. 
* gnu/packages/sphinx.scm (python-sphinx,
python-sphinxcontrib-websupport)[home-page]: Use HTTPS.
 2019-06-20 22:49:31 +02:00
Marius Bakke bd9d72067e
gnu: python-unidecode: Update to 1.1.0. 
* gnu/packages/python-xyz.scm (python-unidecode): Update to 1.1.0.
 2019-06-20 22:49:31 +02:00
Marius Bakke 377bd155ea
gnu: dbus: Fix CVE-2019-12749. 
* gnu/packages/patches/dbus-CVE-2019-12749.patch: New file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/glib.scm (dbus)[replacement]: New field.
(dbus/fixed): New variable.
 2019-06-20 22:49:31 +02:00
Ricardo Wurmus 28618b05f0
gnu: pigx-rnaseq: Update to 0.0.7. 
* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.7.
[inputs]: Add coreutils and sed.
 2019-06-20 22:29:43 +02:00
Giovanni Biscuolo 78407a27cf
licenses: Add Historical Permission Notice and Disclaimer license 
* gnu/licenses.scm (hpnd): New variable.
 2019-06-20 18:24:49 +02:00
Andreas Enge eacf29835d
gnu: Add iml. 
* gnu/packages/algebra.scm (iml): New variable.
 2019-06-20 17:36:39 +02:00
Andreas Enge 264334716f
gnu: Add ppl. 
* gnu/packages/maths.scm (ppl): New variable.
 2019-06-20 16:46:37 +02:00
Kristofer Buffington ace8e269a4
services: opensmtpd: Extend the PAM service. 
* gnu/services/mail.scm (%opensmtpd-pam-services): New variable.
(opensmtpd-service-type)[extensions]: Add it, extending
PAM-ROOT-SERVICE-TYPE.

Signed-off-by: Tobias Geerinckx-Rice <me@tobias.gr>
 2019-06-20 15:54:51 +02:00
Ricardo Wurmus 30adfd3600
gnu: ngs-sdk: Update to 2.9.6. 
* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 2.9.6.
 2019-06-20 14:33:57 +02:00
Ricardo Wurmus 20874b7044
gnu: sra-tools: Update to 2.9.6. 
* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.9.6.
 2019-06-20 14:33:57 +02:00
Ricardo Wurmus 7cb44fb571
gnu: ncbi-vdb: Update to 2.9.6. 
* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.9.6.
[arguments]: Pass HAVE_HDF5 make flag; add build phase "patch-krypto-flags".
 2019-06-20 14:33:57 +02:00
Robert Vollmert b46a9b9a5e
import: hackage: Add two expected failing test cases. 
This adds failing test cases for two hackage import bugs:
https://debbugs.gnu.org/cgi/bugreport.cgi?bug=25138
https://debbugs.gnu.org/cgi/bugreport.cgi?bug=35743

* tests/hackage.scm: Make comment style consistent. Add two
cabal parsing tests, marked as expected failures.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-06-20 14:07:01 +02:00
Robert Vollmert 3149c00264
utils: canonical-newline-port: Fix handling of carriage return at buffer end. 
Prior to this change the added test fails for me locally at byte
1024. It might depend on some default buffer sizes.

Fixes <https://bugs.gnu.org/35863>.

* tests/utils.scm ("canonical-newline-port-1024"): Add test.
* guix/utils.scm (canonical-newline-port): Correct comments on CR/LF.
Remove CR even when they're at the end of the buffer.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-06-20 14:07:01 +02:00
Ludovic Courtès c050f18700
gnu: guile: Add 2.2.5. 
* gnu/packages/guile.scm (guile-2.2.5): New variable.
 2019-06-20 14:07:01 +02:00
Ricardo Wurmus becb9cbfe1
gnu: python-jupyter-console: Update to 6.0.0. 
* gnu/packages/python-xyz.scm (python-jupyter-console): Update to 6.0.0.
[arguments]: Enable tests.
[propagated-inputs]: Replace python-prompt-toolkit-1 with
python-prompt-toolkit.
 2019-06-20 13:14:16 +02:00
Ricardo Wurmus 8e590c8153
gnu: python2-jupyter-console: Split from python-jupyter-console. 
* gnu/packages/python-xyz.scm (python2-jupyter-console): Implement without
package-with-python2.
 2019-06-20 13:14:16 +02:00
Nicolas Goaziou e2ab228b46
Revert "gnu: Add libgd." 
This reverts commit 059e4c9a15.
 2019-06-20 12:39:21 +02:00
Andreas Enge 197ebc36be
gnu: Add lrcalc. 
* gnu/packages/algebra.scm (lrcalc): New variable.
 2019-06-20 12:21:11 +02:00
Andreas Enge 66c67e7ba1
gnu: Add eclib. 
* gnu/packages/algebra.scm (eclib): New variable.
 2019-06-20 12:21:04 +02:00
Andreas Enge 6cbedbd2f2
gnu: Add m4rie. 
* gnu/packages/algebra.scm (m4rie): New variable.
 2019-06-20 12:20:11 +02:00
Josh Holland 9553a41dbe
gnu: weechat: update to 2.5 
* gnu/packages/irc.scm (weechat): update to 2.5

Signed-off-by: Gábor Boskovits <boskovits@gmail.com>
 2019-06-20 11:55:09 +02:00
Nicolas Goaziou 25cbaa9e70
gnu: Add python-fpylll. 
* gnu/packages/algebra.scm (python-fpylll): New variable.
 2019-06-20 11:07:12 +02:00
Nicolas Goaziou 1de48e8f8a
gnu: fplll: Update to 5.2.1. 
* gnu/packages/algebra.scm (fplll): Update to 5.2.1.
[source]: Use Github tagged release: the original tarball no longer exists.
[native-inputs]: Add Autoconf and al.
[homepage]: Update it, the previous one no longer exists.
[description]: Expound description.
 2019-06-20 11:03:37 +02:00
Tobias Geerinckx-Rice f7dbf186b4
services: Fix typo in (gnu services mail) exports. 
* gnu/services/mail.scm (define-module):
Re-spell ‘%default-imap4d-config-file’.
 2019-06-20 10:43:25 +02:00
Nicolas Goaziou 75a73bb024
gnu: Add symmetrica. 
* gnu/packages/algebra.scm (symmetrica): New variable.
* gnu/packages/patches/symmetrica-bruch.patch:
* gnu/packages/patches/symmetrica-int32.patch:
* gnu/packages/patches/symmetrica-return_values.patch:
* gnu/packages/patches/symmetrica-sort_sum_rename.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add patches.
 2019-06-20 10:19:12 +02:00
Alex Griffin a42cb6f1f1
gnu: zathura: Install icons. 
* gnu/packages/pdf.scm (zathura)[native-inputs]: Add librsvg to build and
install the application icons.

Signed-off-by: Gábor Boskovits <boskovits@gmail.com>
 2019-06-20 10:10:31 +02:00