5d46c8b47a
gnu: freedesktop.scm: Sort imports and remove duplicates.
...
* gnu/packages/freedesktop.scm: Sort imports alphabetically.
2018-11-24 02:17:46 +01:00
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
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
4d8f4a3f00
Merge branch 'master' into core-updates
2018-11-24 01:58:18 +01:00
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
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
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
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
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
f12f70b1f2
gnu: Add emacs-matrix-client.
...
* gnu/packages/emacs.scm (emacs-matrix-client): New variable.
2018-11-23 21:43:15 +01:00
d4f7b7e127
gnu: Add emacs-a.
...
* gnu/packages/emacs.scm (emacs-a): New variable.
2018-11-23 21:43:15 +01:00
8fc78612b5
gnu: Add emacs-tracking.
...
* gnu/packages/emacs.scm (emacs-tracking): New variable.
2018-11-23 21:43:14 +01:00
87470116e6
gnu: Add emacs-ov.
...
* gnu/packages/emacs.scm (emacs-ov): New variable.
2018-11-23 21:43:14 +01:00
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
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
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
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
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
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
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
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
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
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
72ffb51231
gnu: Add python-objgraph.
...
* gnu/packages/python.scm (python-objgraph): New variable.
2018-11-23 16:01:07 +01:00
93d229cb86
gnu: python-loompy: Remove python-typing.
...
* gnu/packages/bioinformatics.scm (python-loompy)[propagated-inputs]: Remove
python-typing.
2018-11-23 15:59:44 +01:00
332443d429
gnu: emacs-picpocket: Update to 40.
...
Fix version string as well:
<https://lists.gnu.org/archive/html/guix-devel/2018-11/msg00286.html >.
* gnu/packages/emacs.scm (emacs-picpocket): Update to 40.
2018-11-23 22:37:12 +08:00
a605e3c68c
gnu: xpra: Update to 2.4.2.
...
* gnu/packages/xorg.scm (xpra): Update to 2.4.2.
2018-11-23 13:59:36 +01:00
74e35e8c94
gnu: Add u-boot-pinebook.
...
* gnu/packages/patches/u-boot-pinebook-a64-update-dts.patch: New file.
* gnu/packages/patches/u-boot-pinebook-syscon-node.patch: New file.
* gnu/packages/patches/u-boot-pinebook-mmc-calibration.patch: New file.
* gnu/packages/patches/u-boot-pinebook-video-bridge.patch: New file.
* gnu/packages/patches/u-boot-pinebook-r_i2c-controller.patch: New file.
* gnu/packages/patches/u-boot-pinebook-dts.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/bootloaders.scm (u-boot-pinebook): New exported variable.
* gnu/bootloader/u-boot.scm (u-boot-pinebook-bootloader): New exported
variable.
* gnu/system/install.scm (pinebook-installation-os): New exported variable.
2018-11-22 21:59:05 +01:00
37751b480f
gnu: podofo: Add patch to fix build.
...
* gnu/packages/patches/podofo-cmake-3.12.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/pdf.scm (podofo)[source]: Add patch.
2018-11-22 21:56:41 +01:00
691d39a267
gnu: jalv: Build with python-2.
...
* gnu/packages/audio.scm (jalv)[arguments]: Build with python-2.
2018-11-22 22:06:29 +02:00
eff8e0b4d9
gnu: ccl: Fix missing command line argument support in wrapper.
...
* gnu/packages/lisp.scm (ccl): Fix missing command line argument support in wrapper.
2018-11-22 19:40:03 +01:00
e3a2dd5559
gnu: gajim: Rename wrap-program phases.
...
* gnu/packages/messaging.scm (gajim)[arguments]: Rename wrap-program phases to
wrap-gi-typelib-path and wrap-gsettings-schema-dir.
2018-11-22 22:49:56 +05:30
7ff3f3d22c
gnu: python-scikit-learn: Update to 0.20.1.
...
* gnu/packages/patches/python-scikit-learn-fix-test-non-determinism.patch:
Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/machine-learning.scm (python-scikit-learn): Update to 0.20.1.
[source](patches): Remove.
[arguments]: Skip network tests with pytest instead of deleting files. Make
sure $HOME is writable.
(python2-scikit-learn): Rewrite in terms of PACKAGE-WITH-PYTHON2.
2018-11-22 17:02:47 +01:00
561e3c1d0d
gnu: supercollider: Update to 3.9.3.
...
* gnu/packages/audio.scm (supercollider): Update to 3.9.3.
2018-11-22 13:00:15 +01:00
af90cc45ae
gnu: giac-xcas: Add a "doc" output
...
* gnu/packages/algebra.scm (giac-xcas): Add "doc" output.
[arguments]: Add phase to install documentation in the appropriate directory.
2018-11-22 12:18:52 +01:00
90d5ec55ae
gnu: giac-xcas: Update to 1.5.0-19.
...
* gnu/packages/algebra.scm (giac-xcas): Update to 1.5.0-19.
2018-11-22 12:18:43 +01:00
910ac0effe
gnu: ccl: Properly include x86-headers and remove missing "contrib" folder.
...
* gnu/packages/lisp.scm (ccl): Include x86-headers and remove missing "contrib" folder.
[home-page]: Use HTTPS.
2018-11-22 11:43:17 +01:00
ec8130eb23
Merge branch 'master' into core-updates
2018-11-22 00:10:44 +01:00
437c78bcfb
gnu: python-tblib: Fix test failure with Python 3.7.
...
* gnu/packages/python.scm (python-tblib)[arguments]: Add 'adjust-tests' phase.
2018-11-22 00:00:44 +01:00
148caae049
gnu: python-numpy: Update to 1.15.4.
...
* gnu/packages/python.scm (python-numpy): Update to 1.15.4.
2018-11-21 23:15:21 +01:00
d9f8e846b6
gnu: mbedtls-apache: Update to 2.14.0.
...
* gnu/packages/tls.scm (mbedtls-apache): Update to 2.14.0.
2018-11-21 23:06:08 +01:00
b344a3a937
gnu: termite: Update to 14.
...
* gnu/packages/terminals.scm (termite): Update to 14.
2018-11-21 23:01:38 +01:00
b069c30b52
gnu: vte-ng: Update to 0.54.2.a.
...
* gnu/packages/gnome.scm (vte-ng): Update to 0.54.2.a.
2018-11-21 22:59:27 +01:00
6bc00737b0
gnu: vte-ng: Fetch source using git.
...
* gnu/packages/gnome.scm (vte-ng)[source]: Rewrite in terms of GIT-FETCH.
2018-11-21 22:57:48 +01:00
afd90f8d62
gnu: vte-ng: Add a home page.
...
* gnu/packages/gnome.scm (vte-ng)[home-page]: New field.
2018-11-21 22:57:14 +01:00
b96386501f
gnu: python-numpy: Update to 1.14.6.
...
* gnu/packages/python.scm (python-numpy): Update to 1.14.6.
2018-11-21 22:42:25 +01:00
da15325e36
gnu: webkitgtk: Update to 2.22.4.
...
* gnu/packages/webkit.scm (webkitgtk-2.22): Update to 2.22.4.
2018-11-21 22:24:51 +01:00
dca7d8a25c
gnu: git: Update to 2.19.2.
...
* gnu/packages/version-control.scm (git): Update to 2.19.2.
2018-11-21 22:24:35 +01:00
aa9eb25983
gnu: feh: Update to 3.1.
...
* gnu/packages/image-viewers.scm (feh): Update to 3.1.
2018-11-21 22:23:47 +01:00
f9e5caf9ba
gnu: teeworlds: Update to 0.7.0 [fixes CVE-2018-18541].
...
* gnu/packages/games.scm (teeworlds): Update to 0.7.0.
[source]: Switch to git-fetch. Remove all bundled libraries except md5.
[arguments]: Adjust accordingly.
[inputs]: Use sdl2 instead of sdl and python-wrapper instead of python-2.
Add json-parser and pnglite.
* gnu/packages/patches/teeworlds-use-latest-wavpack.patch: Update it.
2018-11-22 03:21:29 +08:00
53367e17b6
gnu: bam: Update to 0.5.1.
...
* gnu/packages/build-tools.scm (bam): Update to 0.5.1.
[source]: Switch to git-fetch.
[arguments]: Use newly provided Makefile.
[inputs]: Add lua.
2018-11-22 03:21:05 +08:00
078e2edf1d
gnu: Add json-parser.
...
* gnu/packages/web.scm (json-parser): New variable.
2018-11-22 03:20:49 +08:00
6e35bad0a9
gnu: Add pnglite.
...
* gnu/packages/image.scm (pnglite): New variable.
2018-11-22 03:20:11 +08:00
9cf4ff199c
Merge remote-tracking branch 'origin/master' into core-updates
2018-11-21 19:41:43 +02:00
bf6859e45a
gnu: libbytesize: Make .mo file builds reproducible.
...
* gnu/packages/c.scm (libbytesize)[sources](modules, snippet): New
fields.
[arguments]: Add #:configure-flags and #:phases.
2018-11-21 17:38:00 +01:00
e555bbfc48
gnu: emacs-pdf-tools: Fix build with recent Poppler.
...
* gnu/packages/patches/emacs-pdf-tools-poppler.patch: New file.
* gnu/packages/emacs.scm (emacs-pdf-tools)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.
2018-11-21 17:38:00 +01:00
c3d8c6ac7e
gnu: emacs-pdf-tools: Use 'git-fetch'.
...
* gnu/packages/emacs.scm (emacs-pdf-tools)[source]: Switch to
GIT-FETCH.
[arguments]: In 'emacs-patch-variables' phase, make files writable.
2018-11-21 17:38:00 +01:00
e1f7912761
gnu: casync: Fix build with glibc 2.28.
...
* gnu/packages/patches/casync-renameat2-declaration.patch: New file.
* gnu/packages/sync.scm (casync)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.
2018-11-21 17:38:00 +01:00
4cf879fefb
gnu: ntk: Don't use bundled waf.
...
* gnu/packages/fltk.scm (ntk)[inputs]: Add python-waf.
[arguments]: Add custom phase to replace vendored waf.
2018-11-21 15:43:23 +02:00
24a2e19c43
gnu: python-waf: Use a proper directory structure.
...
Fixes <https://bugs.gnu.org/25634 >.
* gnu/packages/python.scm (python-waf): Replace custom 'install phase to
install "waf" binary into the bin directory. Remove the 'wrap phase.
* gnu/packages/video.scm (mpv)[arguments]: Adjust the 'setup-waf phase
accordingly.
2018-11-21 15:43:23 +02:00
a2aa746cfe
gnu: python-waf: Use a proper directory structure.
...
Fixes <https://bugs.gnu.org/25634 >.
* gnu/packages/python.scm (python-waf): Replace custom 'install phase to
install "waf" binary into the bin directory. Remove the 'wrap phase.
* gnu/packages/video.scm (mpv)[arguments]: Adjust the 'setup-waf phase
accordingly.
2018-11-21 15:20:20 +02:00
96cae1b48c
gnu: font-ubuntu: Update url.
...
* gnu/packages/fonts.scm (font-ubuntu): Use new url, update hash.
2018-11-21 14:06:07 +01:00
ab5d91dd50
gnu: Add python-wikidata.
...
* gnu/packages/python.scm (python-wikidata): New variable.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-11-21 11:55:57 +01:00
4e94cdb652
gnu: python-astroid: Update to 2.0.4.
...
* gnu/packages/python.scm (python-astroid): Update to 2.0.4.
[source]: Switch to pypi source.
[native-inputs]: Add python-dateutil, python-nose, python-pytest,
python-pytest-runner.
[arguments]: Add phase to remove spurious test failure. Update custom
'check phase.
(python2-astroid): Update to 1.6.5.
[source]: Use pypi source.
[arguments]: Add phase to remove spurious test failure.
2018-11-21 12:00:01 +02:00
1200783972
gnu: thermald: Clean up package definition.
...
* gnu/packages/admin.scm (thermald)[arguments]: Remove redundant
'bootstrap phase. Remove unnecessary udev configure flag.
2018-11-21 10:13:07 +02:00
d09e84c271
gnu: thermald: Don't use unstable tarball.
...
* gnu/packages/admin.scm (thermald)[source]: Download source using
git-fetch.
2018-11-21 10:13:06 +02:00
56ddcf0414
gnu: emacs-elpy: Update to 1.26.0.
...
* gnu/packages/emacs.scm (emacs-elpy): Update to 1.26.0.
2018-11-20 23:57:58 -05:00
0da3526d58
gnu: u-boot-pine64-plus: Refactor package definition.
...
* gnu/packages/bootloaders.scm (make-u-boot-sunxi64-package): New procedure.
(u-boot-pine64-plus): Use it.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2018-11-20 23:39:41 +01:00
95d9198606
gnu: arm-trusted-firmware-pine64-plus: Rename variable to arm-trusted-firmware-sun50i-a64.
...
* gnu/packages/firmware (arm-trusted-firmware-pine64-plus): Rename to...
(arm-trusted-firmware-sun50i-a64): ...this.
* gnu/packages/bootloaders (u-boot-pine64-plus)[native-inputs]: Use it.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2018-11-20 23:34:31 +01:00
725b077e40
gnu: arm-trusted-firmware-pine64-plus: Update to 2.0-1.cabe0a3.
...
* gnu/packages/firmware.scm (arm-trusted-firmware-pine64-plus):
Use platform name from upstream ("sun50i_a64").
[version]: Update to 2.0-1.cabe0a3,
[source](uri): Use upstream git repository.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2018-11-20 23:32:55 +01:00
be02d4df84
gnu: Add python-django-debug-toolbar.
...
* gnu/packages/django.scm (python-django-debug-toolbar,
python2-django-debug-toolbar): New variables.
2018-11-20 19:48:03 +00:00
a2e9259697
gnu: Add python-django-jinja.
...
* gnu/packages/django.scm (python-django-jinja, python2-django-jinja): New
variables.
2018-11-20 19:48:02 +00:00
6cd1bbd0b1
gnu: Add python-django-pipeline.
...
* gnu/packages/django.scm (python-django-pipeline, python2-django-pipeline):
New variables.
2018-11-20 19:48:02 +00:00
9c98d588c2
gnu: Add python-slimit.
...
* gnu/packages/python-web.scm (python-slimit, python2-slimit): New variables.
2018-11-20 19:48:02 +00:00
90b9c5adea
gnu: Add python-jsmin.
...
* gnu/packages/python-web.scm (python-jsmin, python2-jsmin): New variables.
2018-11-20 19:48:00 +00:00
b3175c709d
gnu: cabextract: Update to 1.9.
...
* gnu/packages/compression.scm (cabextract): Update to 1.9.
[arguments]: Add phase "unpack-libmspack".
[inputs]: Add libmspack-source.
2018-11-20 13:55:10 -05:00
ea80fd1ff5
gnu: libmspack: Update to 0.9.1.
...
* gnu/packages/compression.scm (libmspack): Update to 0.9.1.
2018-11-20 13:53:06 -05:00
3c4103c84f
gnu: java-jansi-native: Add "mips64el-linux" case.
...
* gnu/packages/java.scm (java-jansi-native)[arguments]: Add
"mips64el-linux" in 'match' clause.
2018-11-20 18:39:22 +01:00
e11462c2e4
Revert "gnu: ccl: Include x86-headers and remove missing "contrib" folder."
...
This reverts commit d22ba64276
2018-11-20 18:36:05 +01:00
242b29baa1
gnu: autotalent: Simplify 'license'.
...
* gnu/packages/audio.scm (autotalent)[license]: Remove unnecessary 'list'.
2018-11-20 18:36:05 +01:00
5e369f8ab9
gnu: Add pinentry-efl.
...
* gnu/packages/gnupg.scm (pinentry-efl): New variable.
* gnu/packages/patches/pinentry-efl.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
2018-11-20 12:38:57 +02:00
4f70db97a0
Merge branch 'master' into core-updates
2018-11-20 01:14:12 +01:00
30f0feff19
gnu: libwebp: Update to 1.0.1.
...
* gnu/packages/image.scm (libwebp): Update to 1.0.1.
2018-11-20 00:57:49 +01:00
7882cc55bc
gnu: fluidsynth: Update to 2.0.2.
...
* gnu/packages/audio.scm (fluidsynth): Update to 2.0.2.
2018-11-20 00:57:49 +01:00
352401efb8
gnu: python-joblib: Update home page.
...
* gnu/packages/python.scm (python-joblib)[home-page]: Update to current.
2018-11-20 00:57:49 +01:00
ff43d95807
gnu: python-joblib: Update to 0.13.0.
...
* gnu/packages/python.scm (python-joblib): Update to 0.13.0.
[source](snippet): Remove.
[arguments]: Remove 'disable-failing-tests' phase. Add custom check phase.
[native-inputs]: Remove PYTHON-NOSE, PYTHON-SPHINX, PYTHON-DOCUTILS and
PYTHON-NUMPYDOC. Add PYTHON-PYTEST.
2018-11-20 00:57:49 +01:00
89d88b8530
gnu: python-natsort: Update to 5.4.1.
...
* gnu/packages/python.scm (python-natsort): Update to 5.4.1.
[arguments]: Add #:modules. Replace 'check' phase with custom pytest
invokation.
[native-inputs]: Remove PYTHON-PYTEST-CACHE, PYTHON-PYTEST-FLAKES and
PYTHON-PYTEST-PEP8. Add PYTHON-PYTEST and PYTHON-PYTEST-MOCK.
(python2-natsort)[native-inputs]: Remove PYTHON2-ENUM34 and PYTHON2-MOCK.
2018-11-20 00:57:48 +01:00
4a4f3e771b
gnu: z3: Update to 4.8.1.
...
* gnu/packages/maths.scm (z3): Update to 4.8.1.
2018-11-20 00:57:48 +01:00
fb525bfd83
gnu: z3: Fetch source using git.
...
* gnu/packages/maths.scm (z3)[source]: Change to GIT-FETCH.
2018-11-20 00:57:48 +01:00
cc661cb348
gnu: xonotic: Symlink to xonotic data instead of copying into xonotic.
...
* gnu/packages/games.scm (xonotic)[arguments]: Modify the phase
'install-data so it creates a symlink to xonotic's data instead of
copying it into the xonotic package.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-19 23:11:38 +01:00
c3276dbecb
gnu: Add autotalent.
...
* gnu/packages/audio.scm (autotalent): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-19 23:11:38 +01:00
887437ee0e
gnu: git-when-merged: Fix license.
...
Reported by Mark H Weaver <mhw@netris.org>.
* gnu/packages/version-control.scm (git-when-merged)[license]: Change to
GPL2+.
2018-11-19 23:11:38 +01:00
4db71841ee
gnu: r-shinyfiles: Update to 0.7.2.
...
* gnu/packages/web.scm (r-shinyfiles): Update to 0.7.2.
2018-11-19 17:20:05 +01:00
0adf04a2d3
gnu: r-mclust: Update to 5.4.2.
...
* gnu/packages/statistics.scm (r-mclust): Update to 5.4.2.
2018-11-19 17:19:44 +01:00
185663e568
gnu: r-openssl: Update to 1.1.
...
* gnu/packages/statistics.scm (r-openssl): Update to 1.1.
2018-11-19 17:19:15 +01:00
749872a5ed
gnu: r-biocmanager: Update to 1.30.4.
...
* gnu/packages/cran.scm (r-biocmanager): Update to 1.30.4.
2018-11-19 17:18:41 +01:00
278e0f6506
gnu: r-ggeffects: Update to 0.7.0.
...
* gnu/packages/cran.scm (r-ggeffects): Update to 0.7.0.
2018-11-19 17:18:19 +01:00
fba7dbe76c
gnu: r-sjstats: Update to 0.17.2.
...
* gnu/packages/cran.scm (r-sjstats): Update to 0.17.2.
2018-11-19 17:17:54 +01:00
1659c5dd27
gnu: r-ggpubr: Update to 0.2.
...
* gnu/packages/cran.scm (r-ggpubr): Update to 0.2.
2018-11-19 17:17:25 +01:00
e396b37822
gnu: r-recipes: Update to 0.1.4.
...
* gnu/packages/cran.scm (r-recipes): Update to 0.1.4.
2018-11-19 17:17:03 +01:00
e21659c70b
gnu: r-dimred: Update to 0.2.2.
...
* gnu/packages/cran.scm (r-dimred): Update to 0.2.2.
2018-11-19 17:16:35 +01:00
c2e26dc156
gnu: r-ensembldb: Update to 2.6.2.
...
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.2.
2018-11-19 16:46:32 +01:00
e038819138
gnu: r-msnbase: Update to 2.8.1.
...
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.1.
2018-11-19 16:46:00 +01:00
4535a7b0f5
gnu: r-genomeinfodb: Update to 1.18.1.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.18.1.
2018-11-19 16:33:35 +01:00
5497214d80
gnu: Add clojure-algo-monads.
...
* gnu/packages/lisp.scm (clojure-algo-monads): New public variable.
2018-11-19 12:10:06 +01:00
2cab1d4a7d
gnu: Add clojure-tools-macro.
...
* gnu/packages/lisp.scm (clojure-tools-macro): New public variable.
2018-11-19 12:09:53 +01:00
eea5530c9f
gnu: Add clojure-algo-generic.
...
* gnu/packages/lisp.scm (clojure-algo-generic): New public variable.
2018-11-19 12:09:39 +01:00
c784ffa0c4
gnu: Add clojure-core-match.
...
* gnu/packages/lisp.scm (clojure-core-match): New public variable.
2018-11-19 12:09:15 +01:00
d2a659e5bf
gnu: Add clojure-instaparse.
...
* gnu/packages/lisp.scm (clojure-instaparse): New public variable.
2018-11-19 12:08:26 +01:00
53f316ab90
guix: Add clojure-utils.
...
* guix/build/clojure-utils.scm: New file.
* gnu/packages/lisp.scm (clojure)[arguments]: Use it.
* Makefile.am (MODULES): Add it.
2018-11-19 12:05:19 +01:00
d0ad97115a
gnu: clojure: Use (guix build java-utils) to simplify build phases.
...
* gnu/packages/lisp.scm (clojure)[arguments]: Use 'ant-build-javadoc',
'install-jars' and 'install-javadoc' in build phases.
2018-11-19 12:02:26 +01:00
8da9187a5a
gnu: clojure: Refactor to ensure there's a single list of libraries.
...
This avoids having to update multiple lists.
* gnu/packages/lisp.scm (clojure)[native-inputs]: Use new local variable.
[arguments]: Adjust build phases accordingly.
2018-11-19 12:02:09 +01:00
df0a180421
gnu: clojure: Remove 'remove-archives' snippet.
...
This is no longer needed since clojure now makes official source releases
in github.
* gnu/packages/lisp.scm (clojure)[source]: Remove it.
[native-inputs]: Remove it in 'submodule'.
[arguments]: Adjust 'unpack-submodule-sources' phase accordingly.
2018-11-19 12:01:48 +01:00
28e32b14e4
gnu: clojure: Move from java to lisp.
...
* gnu/packages/java.scm (clojure): Move from here...
* gnu/packages/lisp.scm (clojure): ...to here.
2018-11-19 12:01:25 +01:00
f4ee41c960
gnu: python-kivy: Update to 1.10.1
...
* gnu/packages/python.scm (python-kivy): Update to 1.10.1.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-19 09:59:08 +01:00
5e9ce98af7
gnu: help2man: Add 1.47.8.
...
* gnu/packages/man.scm (help2man/latest): New variable.
2018-11-19 09:59:08 +01:00
1372754dc0
gnu: fuse-exfat: Update to 1.3.0.
...
* gnu/packages/linux.scm (fuse-exfat): Update to 1.3.0.
2018-11-19 09:59:08 +01:00
c39f3e1c43
gnu: diffoscope: Update to 105.
...
* gnu/packages/package-management.scm (diffoscope): Update to 105.
2018-11-19 09:59:07 +01:00
5c40a69f71
gnu: Add libfdk 'FDK AAC' library.
...
* gnu/packages/audio.scm (libfdk): New variable.
2018-11-18 18:19:34 -05:00
2d546858b1
gnu: hurd: Build against glibc 2.28.
...
Version 2.28 of glibc is the first in a long time that fully supports
GNU/Hurd. This change updates the Hurd and Mach to provide the features
glibc 2.28 expects and adjusts the cross-compilation tool chain for
"i586-pc-gnu".
* gnu/packages/base.scm (glibc/linux): Rename to...
(glibc): ... this.
[propagated-inputs]: Add 'hurd-target?' case.
[arguments]: Use '--disable-werror' when 'hurd-target?'. Add
'augment-libc.so' phase when 'hurd-target?'.
[native-inputs]: Add MIG and PERL when 'hurd-target?'.
(glibc/hurd, glibc-for-target): Remove
(glibc/hurd-headers): Inherit from GLIBC, not GLIBC/HURD.
[arguments]: Remove "--enable-obsolete-rpc" configure flag and
'patch-configure-script' phase.
* gnu/packages/cross-base.scm (cross-kernel-headers)[xglibc/hurd-headers]:
Move 'set-cross-headers-path' after 'unpack'.
* gnu/packages/cross-base.scm (cross-libc)[cross-libc-for-target]:
Remove.
Pass "--disable-werror" when TARGET matches 'hurd-triplet?'.
* gnu/packages/hurd.scm (hurd-target?, patch-url): New procedures.
(gnumach-headers)[source](patches, modules, snippet): New fields.
(hurd-headers): Use Git commit 98b3390.
[native-inputs]: Add AUTOCONF and AUTOMAKE.
[arguments]: Add "ac_cv_func_*" configure flags.
(hurd-minimal)[native-inputs]: Remove.
[arguments]: In 'build' phase, build "include/assert-backtrace.h"
first.
2018-11-18 23:12:36 +01:00
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
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
8504d19222
gnu: spice: Run tests sequentially.
...
* gnu/packages/spice.scm (spice)[arguments]: Add #:parallel-tests?.
2018-11-18 12:28:34 +01:00
af50b4abc0
gnu: qt@5: Fix build failure on glibc 2.28.
...
* gnu/packages/patches/qt-5-renameat2.patch: New file.
* gnu/packages/qt.scm (qt)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.
2018-11-18 12:28:34 +01:00
774f8bbeb1
gnu: linkchecker: Use 'git-file-name' for the source.
...
* gnu/packages/web.scm (linkchecker)[source]: Add missing 'file-name'
field.
2018-11-18 11:57:44 +02:00
74854d11ce
gnu: python-pytest-localserver: Update to 0.5.0.
...
* gnu/packages/check.scm (python-pytest-localserver): Update to 0.5.0.
2018-11-18 11:42:35 +02:00
45a2346f32
gnu: python-pytest-localserver: Fix test suite.
...
* gnu/packages/check.scm (python-pytest-localserver): Replace custom
'check phase.
2018-11-18 11:42:23 +02:00
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
e005ddc223
gnu: libgtextutils: Re-instate custom bootstrap phase.
...
The source lacks a standard bootstrap script so the bootstrap phase is
skipped otherwise.
* gnu/packages/textutils.smc (libgtextutils)[arguments]: Replace
'bootstrap phase with upstream's bootstrap phase.
2018-11-18 10:18:47 +02:00
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
bc9aa60bd5
gnu: nss: Make tests deterministic.
...
Tests would fail once certificates had expired, along these lines:
chains.sh: Verifying certificate(s) PayPalEE.cert with flags -d AllDB -pp -o OID.2.16.840.1.114412.1.1
vfychain -d AllDB -pp -vv -o OID.2.16.840.1.114412.1.1 /tmp/guix-build-nss-3.39.drv-0/nss-3.39/nss/tests/libpkix/certs/PayPalEE.cert
Chain is bad!
PROBLEM WITH THE CERT CHAIN:
CERT 0. PayPalEE :
ERROR -8181: Peer's Certificate has expired.
Returned value is 1, expected result is pass
Using 'faketime' allows us to get deterministic results.
* gnu/packages/gnuzilla.scm (nss)[arguments]: In 'check' phase, run
'all.sh' under 'faketime'.
[native-inputs]: Add LIBFAKETIME.
2018-11-17 19:02:18 +01:00
85b28320d4
gnu: Add libfaketime.
...
* gnu/packages/check.scm (libfaketime): New variable.
2018-11-17 17:40:55 +01:00
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
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
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
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
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
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
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
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
eea7cd7519
gnu: Add cmh.
...
* gnu/packages/algebra.scm (cmh): New variable.
2018-11-16 09:06:31 +01:00
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
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
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
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
2e0f69057a
gnu: bioinformatics: Return #t from all phases and snippets.
...
* gnu/packages/bioinformatics.scm (bamtools, ribotaper, bioawk)
(codingquarry, fraggenescan, minced, pplacer, star, subread, sailfish)
(salmon): Return #t from all phases and snippets, use 'invoke' where
appropriate, and remove vestigal plumbing.
2018-11-14 23:44:18 -05:00
96272e2822
gnu: databases: Return #t from all phases.
...
* gnu/packages/databases.scm (4store, go-gopkg.in-mgo.v2, mongodb)
(sparql-query, tdb, sqlcipher, python-sqlparse, mongo-tools): Return #t from
all phases, use invoke where appropriate, and remove vestigial plumbing.
2018-11-14 23:44:16 -05:00
9f6f726c7f
gnu: compression: Return #t from all phases.
...
* gnu/packages/compression.scm (perl-compress-raw-zlib, java-snappy)
(java-iq80-snappy, pzstd, java-tukaani-xz): Return #t from all phases.
2018-11-14 23:44:14 -05:00
29594404a1
gnu: check: Return #t from all phases.
...
* gnu/packages/check.scm (cmdtest, python-pytest-cov, python-fixtures)
(python-pytest-localserver, python-pytest-flakes)
(python2-coverage-test-runner, python-pylint, python-behave-web-api):
Return #t from all phases, and use invoke where appropriate.
2018-11-14 23:44:12 -05:00
ee527187a6
gnu: audio: Return #t from all phases.
...
* gnu/packages/audio.scm (clalsadrv, jack-2, libsbsms, zita-convolver)
(zita-resampler, zita-alsa-pcmi, gsm, cava): Return #t from all phases.
(ladspa): Use 'modify-phases'. Return #t from all phases.
2018-11-14 23:44:10 -05:00
c6bf07d14a
gnu: xorg: Return #t from all phases.
...
* gnu/packages/xorg.scm (xcompmgr)
* gnu/packages/xdisorg.scm (xdotool, scrot, unclutter, xscreensaver)
(tint2, nxbelld, xautolock): Return #t from all phases.
2018-11-14 23:44:08 -05:00
aa6f87a2b9
gnu: xml: Return #t from all phases.
...
* gnu/packages/xml.scm (python-libxml2, perl-xml-sax, xlsx2csv, libxls)
(java-kxml2): Return #t from all phases.
2018-11-14 23:44:06 -05:00
9dcfd6aac9
gnu: video: Return #t from all phases.
...
* gnu/packages/video.scm (youtube-dl-gui, avidemux, xvid, twitchy, aegisub):
Return #t from all phases, use invoke where appropriate, and remove vestigial
plumbing.
2018-11-14 23:44:04 -05:00
4851af9ebe
gnu: perl: Return #t from all phases.
...
* gnu/packages/gd.scm (perl-gd-securityimage)
* gnu/packages/libevent.scm (perl-ev)
* gnu/packages/markup.scm (perl-text-markdown-discount)
* gnu/packages/perl-check.scm (perl-test2-bundle-extended)
* gnu/packages/perl.scm (perl-digest-md5, perl-encode-hanextra)
(perl-ipc-run, perl-pathtools)
* gnu/packages/photo.scm (perl-image-exiftool): Return #t from all phases.
2018-11-14 23:44:02 -05:00
366c1cbbc6
gnu: networking: Return #t from all phases.
...
* gnu/packages/networking.scm (miredo, tcp-wrappers, librdkafka, ifstatus)
(iodine, httpstat, perl-socket6, perl-netaddr-ip, libproxy, openvswitch)
(libnet, asio): Return #t from all phases.
2018-11-14 23:43:59 -05:00
9922278b25
gnu: linux: Return #t from all phases.
...
* gnu/packages/linux.scm (iproute, ntfs-3g, cpupower, radeontop, tlp):
Return #t from all phases.
2018-11-14 23:43:57 -05:00
fccacffbf4
gnu: image: Return #t from all phases.
...
* gnu/packages/image.scm (libpng-apng, pngcrush, leptonica, zimg)
(perceptualdiff): Return #t from all phases.
2018-11-14 23:43:54 -05:00
cb8ba848d2
gnu: admin: Return #t from all phases.
...
* gnu/packages/admin.scm (daemon-tools, rottlog, wpa-supplicant-minimal)
(wakelan, cpulimit, nmap, sunxi-tools): Return #t from all phases.
2018-11-14 23:43:48 -05:00
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
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
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
21f7d88e7a
gnu: texlive-bin: Fix substitution regexp.
...
This is a followup to commit be200ef316
2018-11-14 23:49:19 +01:00
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
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
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
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
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
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
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
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
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
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
79ee97a144
Merge branch 'master' into core-updates
2018-11-14 21:20:46 +01:00
7d9d521fbc
gnu: aide: Provide libpcre.a and libz.a.
...
* gnu/packages/admin.scm (aide)[inputs]: Add PCRE:STATIC and ZLIB:STATIC.
2018-11-14 21:07:01 +01:00
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
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
7939387da8
gnu: nano: Update to 3.2.
...
* gnu/packages/nano.scm (nano): Update to 3.2.
2018-11-14 21:05:30 +01:00
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
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
ee66a13563
gnu: Add jamm.
...
* gnu/packages/bioinformatics.scm (jamm): New variable.
2018-11-14 15:13:20 +01:00
e4f4a04a51
gnu: Add r-ouch.
...
* gnu/packages/cran.scm (r-ouch): New variable.
2018-11-14 15:13:20 +01:00
10483a64ee
gnu: Add r-activity.
...
* gnu/packages/cran.scm (r-activity): New variable.
2018-11-14 15:13:20 +01:00
3cef715a46
gnu: Add r-circular.
...
* gnu/packages/cran.scm (r-circular): New variable.
2018-11-14 15:13:20 +01:00
08bf097a0b
gnu: Add r-overlap.
...
* gnu/packages/cran.scm (r-overlap): New variable.
2018-11-14 15:13:20 +01:00
acbf23da44
gnu: Add r-acdm.
...
* gnu/packages/cran.scm (r-acdm): New variable.
2018-11-14 15:13:20 +01:00
ffdeda3ce0
gnu: Add r-acd.
...
* gnu/packages/cran.scm (r-acd): New variable.
2018-11-14 15:13:20 +01:00
488dc4e1e2
gnu: Add r-abn.
...
* gnu/packages/cran.scm (r-abn): New variable.
2018-11-14 15:13:20 +01:00
0c92f3734e
gnu: Add r-rjags.
...
* gnu/packages/cran.scm (r-rjags): New variable.
2018-11-14 15:13:20 +01:00
0bca8643a2
gnu: Add jags.
...
* gnu/packages/statistics.scm (jags): New variable.
2018-11-14 15:13:17 +01:00
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
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
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
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
fc7683fa30
gnu: r-org-hs-eg-db: Update to 3.7.0.
...
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.7.0.
2018-11-13 23:34:39 +01:00
cb9e6ed702
gnu: r-genomationdata: Update to 1.14.0.
...
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.14.0.
2018-11-13 23:34:39 +01:00
13e70f6304
gnu: r-go-db: Update to 3.7.0.
...
* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.7.0.
2018-11-13 23:34:39 +01:00
13a574652b
gnu: r-genomeinfodbdata: Update to 1.2.0.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata): Update to 1.2.0.
2018-11-13 23:34:39 +01:00
3f995aaf21
gnu: spice-vdagent: Fix typo in desktop file.
...
Fixes <https://bugs.gnu.org/33346 >.
* gnu/packages/spice.scm (spice-vdagent)[arguments]: Fix typo in
'patch-spice-vdagent.desktop' phase.
2018-11-13 15:26:30 -05:00
c991806a7d
gnu: ImageMagick: Update to 6.9.10-14.
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* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-14.
2018-11-14 03:09:37 +08:00
d540137509
gnu: libssh: Fetch source over HTTPS.
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* gnu/packages/ssh.scm (libssh)[source]: Use HTTPS URL.
2018-11-13 11:43:35 -05:00
978d59737a
gnu: direnv: Build with Go 1.9.
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* gnu/packages/shellutils.scm (direnv)[native-inputs]: Remove go.
[inputs]: Add go-1.9.
2018-11-13 11:28:23 -05:00
021bf6af18
gnu: Poppler: Fix CVE-2018-19149.
...
* gnu/packages/patches/poppler-CVE-2018-19149.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/pdf.scm (poppler)[replacement]: New field.
(poppler/fixed): New variable.
(poppler-qt4, poppler-qt5): Use package/inherit.
2018-11-13 11:28:23 -05:00
8263b9f71f
gnu: certbot, python-acme: Update to 0.28.0.
...
* gnu/packages/tls.scm (certbot, python-acme): Update to 0.28.0.
2018-11-13 10:10:42 -05:00
3483f82413
gnu: guix: Update to f5a2724.
...
* gnu/packages/package-management.scm (guix): Update to f5a2724
2018-11-13 15:44:25 +01:00
155956449a
gnu: restic: Fix build phase.
...
* gnu/packages/backup.scm (restic)[arguments]: Set "HOME" environment variable
in build phase.
2018-11-13 15:03:15 +03:00
6018683683
gnu: c-toxcore: Fetch sources from git.
...
* gnu/packages/messaging.scm (c-toxcore)[source]: Fetch from git.
2018-11-13 10:51:41 +01:00
7fed5481fe
gnu: wine-staging: Update to 3.20.
...
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 3.20.
* gnu/packages/wine.scm (wine-staging): Update to 3.20.
2018-11-13 10:24:42 +01:00
0dd60c1c9b
gnu: php: Update to 7.2.12.
...
* gnu/packages/php.scm (php): Update to 7.2.12.
2018-11-12 23:57:42 +01:00
e740a90228
gnu: youtube-dl: Update to 2018.11.07.
...
* gnu/packages/video.scm (youtube-dl): Update to 2018.11.07.
2018-11-12 22:09:12 +05:30
53bcee9ea7
gnu: vifm: Update to 0.10.
...
* gnu/packages/vim.scm (vifm): Update to 0.10.
2018-11-12 12:37:00 +02:00
5c4758415d
gnu: go-github-com-aarzilli-golua: Fix for go-1.11.
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* gnu/packages/golang.scm (go-github-com-aarzilli-golua)[arguments]: Fix for go-1.11.
[native-inputs]: Remove lua.
[propagated-inputs]: Add lua.
2018-11-12 10:31:23 +01:00
46a4ae2212
gnu: go-github-com-wtolson-go-taglib: Fix tests and build for go-1.11.
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* gnu/packages/golang.scm (go-github-com-wtolson-go-taglib)[arguments]: Fix tests for go-1.11.
[native-inputs]: Remove pkg-config and taglib.
[propagated-inputs]: Add pkg-config and taglib.
2018-11-12 10:30:10 +01:00
66fa8f0f77
gnu: go-gopkg.in-asn1-ber.v1: Fix tests for go-1.11.
...
* gnu/packages/syncthing.scm (go-gopkg.in-asn1-ber.v1): Fix tests for go-1.11.
2018-11-12 10:29:43 +01:00
d4780c8238
gnu: go-github-com-audriusbutkevicius-cli: Fix tests for go-1.11.
...
* gnu/packages/syncthing.scm (go-github-com-audriusbutkevicius-cli): Fix tests for go-1.11.
2018-11-12 10:29:37 +01:00
46a37b5966
gnu: go-github-com-prometheus-common-expfmt: Fix tests for go-1.11.
...
* gnu/packages/syncthing.scm (go-github-com-prometheus-common-expfmt): Fix tests for go-1.11.
2018-11-12 10:29:31 +01:00
9a65a05201
gnu: go: Update default to 1.11.
...
* gnu/packages/golang.scm (go): Update default to 1.11.
2018-11-12 10:28:46 +01:00
5f9b38ba34
gnu: r-s4vectors: Update to 0.20.1.
...
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.20.1.
2018-11-11 23:13:48 +01:00
06910a8689
gnu: r-rcmdcheck: Update to 1.3.2.
...
* gnu/packages/cran.scm (r-rcmdcheck): Update to 1.3.2.
2018-11-11 23:13:48 +01:00
2a4c5877a9
gnu: r-ggpubr: Update to 0.1.9.
...
* gnu/packages/cran.scm (r-ggpubr): Update to 0.1.9.
2018-11-11 23:13:48 +01:00
441cf11de1
gnu: r-dplyr: Update to 0.7.8.
...
* gnu/packages/statistics.scm (r-dplyr): Update to 0.7.8.
2018-11-11 23:13:48 +01:00
41d2c26e67
gnu: r-rcpparmadillo: Update to 0.9.200.4.0.
...
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.200.4.0.
2018-11-11 23:13:48 +01:00
23dd886a95
gnu: r-rtsne: Update to 0.15.
...
* gnu/packages/statistics.scm (r-rtsne): Update to 0.15.
2018-11-11 23:13:48 +01:00
7865c8c460
gnu: r-lme4: Update to 1.1-19.
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* gnu/packages/statistics.scm (r-lme4): Update to 1.1-19.
2018-11-11 23:13:48 +01:00
a509b18087
gnu: webkitgtk@2.22: Adjust to documentation output.
...
This is a follow-up to commit 0ead0b4d2c
2018-11-11 22:47:06 +01:00
aaf0e47f6d
gnu: libtoxcore: Update to 0.0.0-2.bf69b54.
...
* gnu/packages/messaging.scm (libtoxcore): Update to 0.0.0-2.bf69b54.
[native-inputs]: Add check.
2018-11-11 20:51:51 +01:00
e874f34d3f
gnu: mumi: Update to 0.0.0-2.bfd96ce7.
...
* gnu/packages/mail.scm (mumi): Update to 0.0.0-2.bfd96ce7.
2018-11-11 20:51:51 +01:00
ec35067631
gnu: PostgreSQL: Update to 10.6 [fixes CVE-2018-16850].
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* gnu/packages/databases.scm (postgresql): Update to 10.6.
2018-11-11 14:10:03 -05:00
8c5749f1b5
gnu: python-cffi: Fix test failure on i686.
...
* gnu/packages/patches/python-cffi-x87-stack-clean.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
* gnu/packages/libffi.scm (python-cffi)[source](patches): Add it.
2018-11-11 17:18:05 +01:00
0ead0b4d2c
gnu: webkitgtk: Include documentation.
...
* gnu/packages/webkit.scm (webkitgtk): Include documentation.
2018-11-11 16:44:46 +01:00
50ee7e93fc
gnu: gtk-doc: Use local docbook-xsl.
...
* gnu/packages/gtk.scm (gtk-doc): Use local docbook-xsl.
2018-11-11 16:41:45 +01:00
89c7894805
gnu: faust-2: Update to 2.5.23.
...
* gnu/packages/audio.scm (faust-2): Update to 2.5.23.
[native-inputs]: Replace llvm-with-rtti with llvm-3.8-with-rtti.
* gnu/packages/llvm.scm (llvm-with-rtti): Rename this variable...
(llvm-3.8-with-rtti): ...to this variable; inherit from llvm-3.8.
2018-11-11 16:19:59 +01:00
37a350ecce
gnu: gajim: Move python-docutils from inputs to native-inputs.
...
* gnu/packages/messaging.scm (gajim): Move python-docutils from inputs to
native-inputs.
2018-11-11 16:00:08 +01:00
60c5b44489
gnu: gajim: Get the second 'wrap-program' phase to return #t.
...
* gnu/packages/messaging.scm (gajim)[arguments]: Get the second 'wrap-program'
phase to return #t.
2018-11-11 16:00:00 +01:00
992a496503
gnu: gajim: Update to 1.1.0.
...
* gnu/packages/messaging.scm (gajim): Update to 1.1.0.
[arguments]: Set #:test-target to "test_nogui". Remove the
'remove-test-resolver' and 'start-xserver' phases.
[inputs]: Remove python-pyasn1. Add python-cssutils, python-keyring and
python-precis-i18n.
2018-11-11 15:59:07 +01:00
a311f42e1b
gnu: python-nbxmpp: Update to 0.6.8.
...
* gnu/packages/messaging.scm (python-nbxmpp): Update to 0.6.8.
2018-11-11 15:59:03 +01:00
4ad3786b7b
gnu: Add python-precis-i18n.
...
* gnu/packages/messaging.scm (python-precis-i18n): New variable.
2018-11-11 15:58:50 +01:00
902068b436
gnu: tiled: Fetch sources from git.
...
* gnu/packages/game-development.scm (tiled)[source]: Fetch from git.
2018-11-11 13:18:27 +01:00
9066424778
gnu: privoxy: Remove custom bootstrap phase.
...
* gnu/packages/tor.scm (privoxy)[arguments]: Remove autoconf phase.
2018-11-11 13:10:56 +01:00
2b61cd37b4
gnu: cifs-utils: Remove autoreconf phase.
...
* gnu/packages/samba.scm (cifs-utils)[arguments]: Remove autoreconf phase.
2018-11-11 13:08:56 +01:00
cd1f661e82
gnu: libiax2: Fetch sources from git.
...
* gnu/packages/telephony.scm (libiax2)[source]: Fetch from git.
2018-11-11 13:06:31 +01:00
5a103bb84e
gnu: libiax2: Remove custom bootstrap phase.
...
* gnu/packages/telephony.scm (libiax2)[arguments]: Remove.
2018-11-11 13:04:08 +01:00
6f3dd09f8d
gnu: libharu: Remove custom bootstrap phase.
...
* gnu/packages/pdf.scm (libharu)[arguments]: Remove autogen phase.
2018-11-11 13:00:53 +01:00
2b2ab39cfc
gnu: libharu: Fetch sources from git.
...
* gnu/packages/pdf.scm (libharu)[source]: Fetch from git.
2018-11-11 13:00:35 +01:00
bc74e9e4cd
gnu: scsh: Remove custom bootstrap phase.
...
* gnu/packages/shells.scm (scsh)[arguments]: Remove autoreconf phase.
2018-11-11 12:56:22 +01:00
e5ff963a6d
gnu: xdelta: Remove custom bootstrap phase.
...
* gnu/packages/compression.scm (xdelta)[arguments]: Remove autoconf phase.
2018-11-11 12:52:46 +01:00
0633c77b1b
gnu: xdelta: Fetch sources from git.
...
* gnu/packages/compression.scm (xdelta)[source]: Fetch from git.
2018-11-11 12:52:30 +01:00
112fcafbae
gnu: libtar: Remove custom bootstrap phase.
...
* gnu/packages/compression.scm (libtar)[arguments]: Remove autoconf phase.
2018-11-11 12:47:51 +01:00
3478945948
gnu: minizip: Remove custom bootstrap phase.
...
* gnu/packages/compression.scm (minizip)[arguments]: Remove autoreconf phase.
2018-11-11 12:45:52 +01:00
4078beab93
gnu: inotify-tools: Remove custom bootstrap phase.
...
* gnu/packages/linux.scm (inotify-tools)[arguments]: Remove.
2018-11-11 12:36:35 +01:00
88f9fea723
gnu: inotify-tools: Fetch sources from git.
...
* gnu/packages/linux.scm (inotify-tools)[source]: Fetch from git.
2018-11-11 12:36:15 +01:00
2286107f60
gnu: par2cmdline: Remove custom bootstrap phase.
...
* gnu/packages/backup.scm (par2cmdline)[arguments]: Remove.
2018-11-11 12:31:35 +01:00
5cdbdc2b13
gnu: par2cmdline: Fetch sources from git.
...
* gnu/packages/backup.scm (par2cmdline)[source]: Fetch from git.
2018-11-11 12:31:18 +01:00
2fef54fd64
gnu: hpcguix-web: Do not re-bootstrap.
...
* gnu/packages/web.scm (hpcguix-web)[arguments]: Do not run autoreconf after
the bootstrap phase; remove "autoconf" phase to "set-variables"; end phase
with #T.
2018-11-11 12:27:01 +01:00
cbb6a15056
gnu: schismtracker: Remove custom bootstrap phase.
...
* gnu/packages/music.scm (schismtracker)[arguments]: Remove autoconf phase.
2018-11-11 12:19:23 +01:00
8865973848
gnu: lilypond: Use INVOKE.
...
* gnu/packages/music.scm (lilypond)[arguments]: Use INVOKE and return #T
unconditionally.
2018-11-11 12:15:03 +01:00
3b9e9415fa
gnu: schismtracker: Fetch sources from git.
...
* gnu/packages/music.scm (schismtracker)[source]: Fetch from git.
2018-11-11 12:07:21 +01:00
234a1825b2
gnu: clyrics: Fetch sources from git.
...
* gnu/packages/music.scm (clyrics)[source]: Fetch from git.
[native-inputs]: Remove.
[arguments]: Adjust builder.
2018-11-11 12:01:25 +01:00
3a0592ae31
gnu: lmms: Fetch sources from git.
...
* gnu/packages/music.scm (lmms)[source]: Fetch from git.
2018-11-11 12:00:55 +01:00
caa39e56f7
gnu: milkytracker: Fetch sources from git.
...
* gnu/packages/music.scm (milkytracker)[source]: Fetch from git.
2018-11-11 11:44:24 +01:00
08bc7f2665
gnu: dotconf: Fetch sources from git.
...
* gnu/packages/textutils.scm (dotconf)[source]: Fetch from git.
2018-11-11 11:37:01 +01:00
7a52d0e075
gnu: dotconf: Remove custom bootstrap phase.
...
* gnu/packages/textutils.scm (dotconf)[arguments]: Remove autoreconf phase.
2018-11-11 11:36:39 +01:00
d68a15806b
gnu: libgtextutils: Remove custom bootstrap phase.
...
* gnu/packages/textutils.scm (libgtextutils)[arguments]: Remove.
2018-11-11 11:34:55 +01:00
fab455840e
gnu: libtoxcore: Remove custom bootstrap phase.
...
* gnu/packages/messaging.scm (libtoxcore)[arguments]: Remove autoconf phase.
2018-11-11 11:33:39 +01:00
867d9de690
gnu: openocd: Use INVOKE.
...
* gnu/packages/embedded.scm (openocd)[arguments]: Use INVOKE and return #T
unconditionally.
2018-11-11 11:32:12 +01:00
4cd6ab1b1f
gnu: libjaylink: Remove custom bootstrap phase.
...
* gnu/packages/embedded.scm (libjaylink)[arguments]: Remove.
2018-11-11 11:23:39 +01:00
a69cc70dea
gnu: lrdf: Replace bootstrap phase.
...
* gnu/packages/rdf.scm (lrdf)[arguments]: Remove autoreconf phase; replace
bootstrap phase instead.
2018-11-11 11:22:22 +01:00
d212ed2f00
gnu: lrdf: Fetch sources from git.
...
* gnu/packages/rdf.scm (lrdf)[source]: Fetch from git.
2018-11-11 11:21:55 +01:00
2bdca67351
gnu: python-yapf: Update to 0.24.0.
...
* gnu/packages/python.scm (python-yapf): Update to 0.24.0.
2018-11-11 11:54:32 +02:00
22d04ceda0
gnu: python-rq: Update to 0.12.0.
...
* gnu/packages/databases.scm (python-rq): Update to 0.12.0.
2018-11-11 11:54:28 +02:00
2cabd29323
gnu: guildhall: Remove custom bootstrap phase.
...
* gnu/packages/guile.scm (guildhall)[arguments]: Remove autogen phase.
2018-11-11 10:38:00 +01:00
34da5c394b
gnu: guile-dsv: Remove custom bootstrap phase.
...
* gnu/packages/guile.scm (guile-dsv)[arguments]: Remove autoreconf phase.
2018-11-11 10:22:45 +01:00
5ad728e04c
gnu: opendht: Remove custom bootstrap phase.
...
* gnu/packages/crypto.scm (opendht)[arguments]: Remove autoconf phase.
2018-11-11 10:21:02 +01:00
974056c05e
gnu: opendht: Fetch sources from git.
...
* gnu/packages/crypto.scm (opendht)[source]: Fetch from git.
2018-11-11 10:20:36 +01:00
a49b5322c5
gnu: lxsession: Remove custom bootstrap phase.
...
* gnu/packages/lxde.scm (lxsession)[arguments]: Remove autoreconf phase and
end rm-stamp phase with #T.
2018-11-11 10:16:43 +01:00
261e421459
gnu: python-pyclipper: Enable tests.
...
* gnu/packages/python.scm (python-pyclipper)[arguments]: Enable tests.
[native-inputs]: Add python-pytest, python-pytest-runner,
python-unittest2.
2018-11-11 11:13:56 +02:00
8189ce6f05
gnu: python-pyclipper: Update to 1.1.0post1.
...
* gnu/packages/python.scm (python-pyclipper): Update to 1.1.0post1.
[source]: Add snippet to remove cythonized source files.
[arguments]: Add custom phase to generate cythonized files.
[native-inputs]: Add python-cython.
[description]: Update clipper library version.
2018-11-11 11:13:56 +02:00
95176544d5
gnu: python-paste: Update to 3.0.4.
...
* gnu/packages/python-web.scm (python-paste): Update to 3.0.4.
[source]: Remove patch, add snippet to remove one test.
[native-inputs]: Add python-pytest, python-pytest-runner.
* gnu/packages/patches/python-paste-remove-website-test.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2018-11-11 11:13:56 +02:00
5ac2b2717f
gnu: python-networkx2: Remove variable.
...
* gnu/packages/python.scm (python-networkx2): Remove variable.
* gnu/packages/patches/python-networkx2-reproducible-build.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2018-11-11 11:13:55 +02:00
c92d056a8b
gnu: python-alembic: Update to 1.0.2.
...
* gnu/packages/databases.scm (python-alembic, python2-alembic): Update
to 1.0.2.
2018-11-11 11:13:53 +02:00
f1f1cebdd3
gnu: mdbtools: Fetch sources from git.
...
* gnu/packages/databases.scm (mdbtools)[source]: Fetch from git.
2018-11-11 10:09:54 +01:00
f626b71923
gnu: mdbtools: Remove custom bootstrap phase.
...
* gnu/packages/databases.scm (mdbtools)[arguments]: Remove.
2018-11-11 10:05:56 +01:00
1410e178bb
gnu: pianobar: Fetch sources from git.
...
* gnu/packages/music.scm (pianobar)[source]: Fetch from git.
2018-11-11 10:03:06 +01:00
487e3f5a80
gnu: ibus-rime: Fetch sources from git.
...
* gnu/packages/ibus.scm (ibus-rime)[source]: Fetch from git.
2018-11-11 10:03:06 +01:00
863742856c
gnu: librime: Fetch sources from git.
...
* gnu/packages/ibus.scm (librime)[source]: Fetch from git.
2018-11-11 10:03:06 +01:00
28b24e9975
gnu: bitshuffle: Don't use '-march=native'.
...
* gnu/packages/compression.scm (bitshuffle)[arguments]: Add custom phase
to substitute out the '-march=native' compilation flag.
2018-11-11 08:57:16 +02:00
01029e2043
gnu: bitshuffle: Update to 0.3.5.
...
* gnu/packages/compression.scm (bitshuffle): Update to 0.3.5.
[source]: Add snippet to remove cythonized source files.
2018-11-11 08:57:16 +02:00
5528b8e788
gnu: tvtime: Fix building with glibc@2.28.
...
* gnu/packages/tvtime.scm (tvtime)[arguments]: Add custom phase to add
missing import.
2018-11-11 08:57:13 +02:00
cab70d4c2a
gnu: perl-autovivification: Update to 0.18.
...
* gnu/packages/perl.scm (perl-autovivification): Update to 0.18.
2018-11-11 08:21:59 +02:00
717d29e25b
gnu: icecat: Add more fixes from mozilla-esr60.
...
* gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes
from the upstream mozilla-esr60 source repository.
2018-11-10 20:29:19 -05:00
3b14494616
gnu: icecat: Update to 60.3.0-gnu1.
...
* gnu/packages/gnuzilla.scm (icecat): Update to 60.3.0-gnu1.
[source]: Switch back to the normal source URI. Remove patches that
are no longer applicable.
* gnu/packages/patches/icecat-CVE-2018-12383.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2018-11-10 20:28:32 -05:00
e22842f5ca
gnu: linux-libre@4.14: Update to 4.14.80.
...
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.80.
(%linux-libre-4.14-hash): Update hash.
2018-11-10 20:23:57 -05:00
62168a5558
gnu: linux-libre@4.9: Update to 4.9.136.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.136.
2018-11-10 20:23:15 -05:00
fc43d6d4d9
gnu: linux-libre@4.4: Update to 4.4.163.
...
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.163.
2018-11-10 20:22:30 -05:00
4cbbb16045
gnu: nxbelld: Remove custom bootstrap phase.
...
* gnu/packages/xdisorg.scm (nxbelld)[arguments]: Remove autoreconf phase.
2018-11-10 23:42:54 +01:00
f116e1fcae
gnu: wmclock: Remove custom bootstrap phase.
...
* gnu/packages/gnustep.scm (wmclock)[arguments]: Remove.
2018-11-10 23:42:54 +01:00
e17f867c62
gnu: wmbattery: Remove custom bootstrap phase.
...
* gnu/packages/gnustep.scm (wmbattery)[arguments]: Remove autoconf phase.
2018-11-10 23:42:54 +01:00
7db147ec45
gnu: rtmidi: Remove custom bootstrap phase.
...
* gnu/packages/audio.scm (rtmidi)[arguments]: Remove autoconf phase.
2018-11-10 23:42:54 +01:00
cdb4048d72
gnu: portaudio: Remove custom bootstrap phase.
...
* gnu/packages/audio.scm (portaudio)[arguments]: Remove autoreconf phase.
2018-11-10 23:42:54 +01:00
78e3d554d1
gnu: Add emacs-ivy-rich.
...
* gnu/packages/emacs.scm (emacs-ivy-rich): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-10 23:33:47 +01:00
d5b23d2b7d
gnu: Add ibus-rime.
...
* gnu/packages/ibus.scm (ibus-rime): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-10 23:33:47 +01:00
1329f095bb
gnu: Add rime-data.
...
* gnu/packages/ibus.scm (rime-data): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-10 23:33:47 +01:00
78209a165b
gnu: Add librime.
...
* gnu/packages/ibus.scm (librime): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-10 23:33:47 +01:00
2f968763c3
gnu: ibus: Indent code properly.
...
* gnu/packages/ibus.scm (ibus, ibus-libpinyin): Indent code properly.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-10 23:33:47 +01:00
1a0363cf07
gnu: Add opencc.
...
* gnu/packages/textutils.scm (opencc): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-10 23:33:46 +01:00
9d466489cd
gnu: Add marisa.
...
* gnu/packages/datastructures.scm (marisa): New variable.
Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-11-10 23:33:46 +01:00
30288ae57e
gnu: mdadm: Update to 4.1.
...
* gnu/packages/linux.scm (mdadm): Update to 4.1.
2018-11-10 23:33:46 +01:00
37ebc19cfb
gnu: msgpack: Remove custom bootstrap phase.
...
* gnu/packages/serialization.scm (msgpack)[arguments]: Remove.
2018-11-10 23:30:52 +01:00
bed4eb373e
gnu: gxtuner: Fetch sources from git.
...
* gnu/packages/music.scm (gxtuner)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
a7fde1a86d
gnu: cava: Fetch sources from git.
...
* gnu/packages/audio.scm (cava)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
c2a2d364df
gnu: cli-visualizer: Fetch sources from git.
...
* gnu/packages/audio.scm (cli-visualizer)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
b249ff5d37
gnu: dcadec: Fetch sources from git.
...
* gnu/packages/audio.scm (dcadec)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
4289a306b7
gnu: cuetools: Fetch sources from git.
...
* gnu/packages/audio.scm (cuetools)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
8e5995e397
gnu: xjackfreak: Fetch sources from git.
...
* gnu/packages/audio.scm (xjackfreak)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
458baefb40
gnu: rsound: Fetch sources from git.
...
* gnu/packages/audio.scm (rsound)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
eca7729301
gnu: rtmidi: Fetch sources from git.
...
* gnu/packages/audio.scm (rtmidi)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
0b8db03504
gnu: infamous-plugins: Fetch sources from git.
...
* gnu/packages/audio.scm (infamous-plugins)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
2ae2395422
gnu: swh-plugins-lv2: Fetch sources from git.
...
* gnu/packages/audio.scm (swh-plugins-lv2)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
917dc89672
gnu: csound: Fetch sources from git.
...
* gnu/packages/audio.scm (csound)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
b255365cd1
gnu: lvtk: Fetch sources from git.
...
* gnu/packages/audio.scm (lvtk)[source]: Fetch from git.
2018-11-10 23:29:26 +01:00
78eff85770
gnu: ams-lv2: Fetch sources from git.
...
* gnu/packages/music.scm (ams-lv2)[source]: Fetch from git.
2018-11-10 23:29:25 +01:00
57906fad59
gnu: portmidi-for-extempore: Fetch sources from git.
...
* gnu/packages/music.scm (portmidi-for-extempore)[source]: Fetch from git.
2018-11-10 23:29:25 +01:00
ca364e7a3c
gnu: jalv-select: Fetch sources from git.
...
* gnu/packages/music.scm (jalv-select)[source]: Fetch from git.
[arguments]: Add phase make-manpages-writable.
2018-11-10 23:29:25 +01:00
79b8341292
gnu: emacs-circe: Update to 2.10.
...
* gnu/packages/emacs.scm (emacs-circe): Update to 2.10.
2018-11-10 23:27:05 +01:00
74c903edab
Add missing license import.
...
* gnu/packages/mail.scm: Import agpl3+.
2018-11-10 22:37:07 +01:00
e3a4703174
gnu: Add mumi.
...
* gnu/packages/mail.scm (mumi): New variable.
2018-11-10 22:36:13 +01:00
2d900b0464
gnu: Add guile-debbugs-next.
...
* gnu/packages/guile.scm (guile-debbugs-next): New variable.
2018-11-10 22:36:13 +01:00
7453785624
gnu: Add guile-email.
...
* gnu/packages/guile.scm (guile-email): New variable.
2018-11-10 22:36:13 +01:00
95906eee18
gnu: guile-ics: Remove custom bootstrap phase.
...
* gnu/packages/guile.scm (guile-ics)[arguments]: Remove.
2018-11-10 22:36:13 +01:00
1a392ee7ae
gnu: nfs-utils: Fix building with glibc@2.28.
...
* gnu/packages/nfs.scm (nfs-utils)[arguments]: Add custom phase to fix
building with glibc@2.28 .
2018-11-10 22:36:33 +02:00
c1ab159085
gnu: perl-autovivification: Update to 0.18.
...
* gnu/packages/perl.scm (perl-autovivification): Update to 0.18.
2018-11-10 22:36:33 +02:00
e8b9aaf0b1
mtd-utils: Update to 2.0.2.
...
* gnu/packages/linux.scm (mtd-utils): Update to 2.0.2.
[arguments]: Remove 'test-target, 'make-flags. Re-enable 'configure
phase. Add 'configure-flag for the unit-tests.
[native-inputs]: Add cmocka, pkg-config.
2018-11-10 20:54:34 +02:00
1de2937283
gnu: idutils: Fix building with glibc@2.28.
...
* gnu/packages/idutils.scm (idutils)[source]: Add snippet to patch
bundled gnulib for glibc@2.28 .
2018-11-10 20:18:37 +02:00
211db9caf7
gnu: sharutils: Remove false comment.
...
This is a follow-up to b50d58b344
2018-11-10 20:18:37 +02:00
9829e0699b
gnu: lbzip2: Remove false comment.
...
This is a follow-up to f268b744b8
2018-11-10 20:18:34 +02:00
f268b744b8
gnu: lbzip2: Fix building with glibc@2.28.
...
* gnu/packages/compression.scm (lbzip2)[source]: Add snippet to patch
bundled gnulib for glibc@2.28 .
2018-11-10 20:07:56 +02:00
efe0a4a2a7
gnu: dvd+rw-tools: Use invoke.
...
* gnu/packages/cdrom.scm (dvd+rw-tools): Use 'invoke'.
2018-11-10 19:59:30 +02:00
2529c8381f
gnu: dvd+rw-tools: Fix building with glibc@2.28.
...
* gnu/packages/cdrom.scm (dvd+rw-tools)[arguments]: Add custom phase to
add missing import.
2018-11-10 19:59:27 +02:00
8754ea483d
gnu: f2fs-tools: Update to 1.11.0.
...
* gnu/packages/linux.scm (f2fs-tools): Update to 1.11.0.
2018-11-10 19:29:17 +02:00
005ec8d09c
gnu: f2fs-tools: Update to 1.11.0.
...
* gnu/packages/linux.scm (f2fs-tools): Update to 1.11.0.
2018-11-10 19:29:05 +02:00
03a415365a
gnu: r-ensembldb: Update to 2.6.1.
...
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.1.
2018-11-09 19:41:54 +01:00
88514b9124
gnu: r-biostrings: Update to 2.50.1.
...
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.50.1.
2018-11-09 19:41:53 +01:00
77bea84ba1
gnu: r-biocviews: Update to 1.50.5.
...
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.50.5.
2018-11-09 19:41:53 +01:00
317f5a5a91
gnu: r-sn: Update to 1.5-3.
...
* gnu/packages/statistics.scm (r-sn): Update to 1.5-3.
2018-11-09 19:41:53 +01:00
5174f06b0c
gnu: r-rgooglemaps: Update to 1.4.3.
...
* gnu/packages/geo.scm (r-rgooglemaps): Update to 1.4.3.
2018-11-09 19:41:53 +01:00
492ec49890
gnu: r-tmb: Update to 1.7.15.
...
* gnu/packages/cran.scm (r-tmb): Update to 1.7.15.
2018-11-09 19:41:53 +01:00
fccb24501a
gnu: r-jomo: Update to 2.6-5.
...
* gnu/packages/cran.scm (r-jomo): Update to 2.6-5.
[propagated-inputs]: Add r-mass.
2018-11-09 19:41:50 +01:00
f87a18e660
gnu: r-rcpp: Update to 1.0.0.
...
* gnu/packages/cran.scm (r-rcpp): Update to 1.0.0.
[native-inputs]: Add r-knitr.
2018-11-09 19:01:42 +01:00
06bc7b82f7
gnu: Add r-arm.
...
* gnu/packages/cran.scm (r-arm): New variable.
2018-11-09 18:04:37 +01:00
cf383cf08f
gnu: Add r-feature.
...
* gnu/packages/cran.scm (r-feature): New variable.
2018-11-09 18:04:37 +01:00
da256afb9e
gnu: Add r-ks.
...
* gnu/packages/cran.scm (r-ks): New variable.
2018-11-09 18:04:37 +01:00
4106e6ad87
gnu: Add r-misc3d.
...
* gnu/packages/cran.scm (r-misc3d): New variable.
2018-11-09 18:04:36 +01:00
213e72a18d
gnu: Add r-multicool.
...
* gnu/packages/cran.scm (r-multicool): New variable.
2018-11-09 18:04:36 +01:00
f338e4807f
gnu: Add r-rgl.
...
* gnu/packages/cran.scm (r-rgl): New variable.
2018-11-09 18:04:36 +01:00
a961ae469c
gnu: Add r-destiny.
...
* gnu/packages/bioconductor.scm (r-destiny): New variable.
2018-11-09 17:15:31 +01:00
64461ba20a
Merge branch 'master' into core-updates
2018-11-09 17:02:08 +01:00
ff939ef4d5
gnu: Add r-h5.
...
* gnu/packages/cran.scm (r-h5): New variable.
2018-11-09 16:57:13 +01:00
3a4c6288c8
gnu: Add r-aggregation.
...
* gnu/packages/cran.scm (r-aggregation): New variable.
2018-11-09 16:57:13 +01:00
8a587c89af
gnu: Add r-savr.
...
* gnu/packages/bioconductor.scm (r-savr): New variable.
2018-11-09 16:45:21 +01:00
cee9ab244f
gnu: r-with-tests: Update to 3.5.1.
...
* gnu/packages/statistics.scm (r-with-tests): Update to 3.5.1.
2018-11-09 14:07:26 +01:00
2eaaadb4d6
gnu: r-with-tests: Use INVOKE.
...
* gnu/packages/statistics.scm (r-with-tests)[arguments]: Use INVOKE and
return #T unconditionally.
2018-11-09 14:07:22 +01:00
ddd925f608
gnu: Add emacs-gtk-look.
...
* gnu/packages/emacs.scm (emacs-gtk-look): New variable.
2018-11-09 11:55:08 +01:00
2cce23bfb8
gnu: Add xmlrpc-c.
...
* gnu/packages/xml.scm (xmlrpc-c): New variable.
2018-11-09 11:55:08 +01:00
97f33b05ec
gnu: guile-newt: Update to revision 1.
...
* gnu/packages/guile.scm (guile-newt): Update to revision 1.
2018-11-09 19:39:14 +09:00
1b12b572a5
gnu: powertabeditor: Fetch sources from git.
...
* gnu/packages/music.scm (powertabeditor)[source]: Fetch from git.
2018-11-09 08:37:53 +01:00
b1b82aed5d
gnu: powertabeditor: Use INVOKE.
...
* gnu/packages/music.scm (powertabeditor)[arguments]: Use INVOKE and return #T
unconditionally.
2018-11-09 08:37:53 +01:00
e4b62e229e
gnu: wxmaxima: Update to 18.10.1.
...
* gnu/packages/maths.scm (wxmaxima): Update to 18.10.1.
[source]: Update URL and remove patch.
* gnu/packages/patches/wxmaxima-do-not-use-old-gnuplot-parameters.patch: Remove
file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
2018-11-09 01:09:06 -05:00
41d2b7f50b
gnu: PostgreSQL 9: Update to 9.6.11 [fixes CVE-2018-16850].
...
* gnu/packages/databases.scm (postgresql-9.6): Update to 9.6.11.
2018-11-08 13:42:56 -05:00
2705780f3f
gnu: Add emacs-clang-format.
...
* gnu/packages/emacs.scm (emacs-clang-format): New variable.
2018-11-08 13:08:26 +01:00
e3407254d5
gnu: kodi: Update to 18.0b5.
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* gnu/packages/kodi.scm (kodi): Update to 18.0b5.
[source]: Update snippet.
[inputs]: Add flatbuffers, fstrcmp.
(crossguid): Update to commit fef89a4174a7bf8cd99fa9154864ce9e8e3bf989.
(libdvdnav/kodi, libdvdread/kodi): Update to 6.0.0-Leia-Alpha-3.
(libdvdcss/kodi): Update to 1.4.2-Leia-Beta-5.
2018-11-08 12:01:24 +02:00
988b78ba28
gnu: Add fstrcmp.
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* gnu/packages/kodi.scm (fstrcmp): New variable.
2018-11-08 12:01:20 +02:00
9870b9f7f8
gnu: python-ilinkedlist: Update to 0.3.1.
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* gnu/packages/python.scm (python-ilinkedlist): Update to 0.3.1.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-08 10:24:26 +01:00
195e081b43
gnu: Add python-pyelftools.
...
* gnu/packages/python.scm (python-pyelftools):
New public variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-11-08 10:24:22 +01:00
69cb939ee7
gnu: libmusicbrainz: Use INVOKE.
...
* gnu/packages/music.scm (libmusicbrainz)[arguments]: Use INVOKE and return #T
unconditionally.
2018-11-08 10:17:15 +01:00
9ab90ead36
gnu: pd: Remove custom autoconf phase.
...
* gnu/packages/music.scm (pd)[arguments]: Remove custom autoconf phase.
2018-11-08 10:14:08 +01:00
4e82946888
gnu: cmus: Fetch sources from git.
...
* gnu/packages/music.scm (cmus)[source]: Fetch from git.
2018-11-08 10:10:06 +01:00
ec618c2005
gnu: cmus: Use INVOKE.
...
* gnu/packages/music.scm (cmus)[arguments]: Use INVOKE and return #T
unconditionally.
2018-11-08 10:09:32 +01:00
9c30cba431
gnu: pcc: Use INVOKE.
...
* gnu/packages/c.scm (pcc)[arguments]: Use INVOKE and return #T
unconditionally.
2018-11-08 10:08:09 +01:00
a1e83a9856
gnu: pplacer-scripts: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (pplacer-scripts)[arguments]: Use INVOKE and
return #T unconditionally.
2018-11-08 10:06:35 +01:00
ce49fdcce9
gnu: roary: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (roary)[arguments]: Use INVOKE and return #T
unconditionally.
2018-11-08 09:58:05 +01:00
a9542937c8
gnu: seek: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (seek)[arguments]: Use INVOKE and return #T
unconditionally; patch "gen_tools_am" shebang in "bootstrap" phase.
2018-11-08 09:54:22 +01:00
9f527c9199
gnu: sailfish: Use INVOKE.
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* gnu/packages/bioinformatics.scm (sailfish)[arguments]: Use INVOKE instead of
SYSTEM*.
2018-11-08 09:52:46 +01:00
86c6928ea3
gnu: vsearch: Update to 2.9.1.
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* gnu/packages/bioinformatics.scm (vsearch): Update to 2.9.1.
* gnu/packages/patches/vsearch-unbundle-cityhash.patch: Update.
2018-11-08 09:46:42 +01:00
15c9609482
gnu: sra-tools: Update to 2.9.3.
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* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.9.3.
[arguments]: Remove build phase patch-away-glibc-conflict.
2018-11-08 09:46:05 +01:00
b17333414f
gnu: plink-ng: Fetch sources from git.
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* gnu/packages/bioinformatics.scm (plink-ng)[source]: Fetch from git.
2018-11-08 09:30:59 +01:00
87408854ec
gnu: ncbi-vdb: Update to 2.9.3.
...
* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.9.3.
2018-11-08 09:30:16 +01:00
8d3eaa9262
gnu: ngs-sdk: Update to 2.9.3.
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* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 2.9.3.
2018-11-08 09:29:58 +01:00
3da3cedf76
gnu: ngs-sdk: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (ngs-sdk)[arguments]: Use INVOKE and
return #T unconditionally.
2018-11-08 09:15:05 +01:00
e78e54d029
gnu: emboss: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (emboss)[arguments]: Use INVOKE and
return #T unconditionally.
2018-11-08 09:14:09 +01:00
8b685c4720
gnu: taxtastic: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (taxtastic)[arguments]: Use INVOKE and
return #T unconditionally.
2018-11-08 09:13:35 +01:00
2e2d88539c
gnu: sra-tools: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (sra-tools)[arguments]: Use INVOKE and
return #T unconditionally.
2018-11-08 09:12:43 +01:00
179416467f
gnu: muscle: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (muscle)[arguments]: Use INVOKE and
return #T unconditionally.
2018-11-08 09:11:38 +01:00
0881d62f25
gnu: newick-utils: Remove custom autoconf phase.
...
* gnu/packages/bioinformatics.scm (newick-utils)[arguments]: Remove.
2018-11-08 09:10:58 +01:00
e35dce0170
gnu: mash: Remove custom autoconf phase.
...
* gnu/packages/bioinformatics.scm (mash)[arguments]: Remove autoconf phase.
2018-11-08 09:10:20 +01:00
31c41a8cfe
gnu: vsearch: Remove custom autogen phase.
...
* gnu/packages/bioinformatics.scm (vsearch)[arguments]: Remove.
2018-11-08 09:04:34 +01:00
c527d36f02
gnu: java-picard-1.113: Use INVOKE.
...
* gnu/packages/bioinformatics.scm (java-picard-1.113)[arguments]: Use INVOKE
and return #T unconditionally.
2018-11-08 09:02:34 +01:00
e438c96558
gnu: fraggenescan: Use INVOKE.
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* gnu/packages/bioinformatics.scm (fraggenescan)[arguments]: Use INVOKE in
build phases and return #T unconditionally.
2018-11-08 08:58:46 +01:00
c098c49b3e
gnu: sailfish: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (sailfish)[source]: Fetch from git.
2018-11-08 08:53:54 +01:00
4031e7f1ec
gnu: ngs-sdk: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (ngs-sdk)[source]: Fetch from git.
2018-11-08 08:53:53 +01:00
6a7d9ee39f
gnu: ncbi-vdb: Use INVOKE and end phases on #T.
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* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Use INVOKE and
unconditionally end phases with #T.
2018-11-08 08:53:53 +01:00
3398dfb764
gnu: ncbi-vdb: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (ncbi-vdb)[source]: Fetch from git.
[arguments]: Add phase to make checkout writable.
2018-11-08 08:53:53 +01:00
e0f1aa2d2b
gnu: tadbit: Fetch sources from git.
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* gnu/packages/bioinformatics.scm (tadbit)[source]: Fetch from git.
[version]: Use "2.0.0" instead of "2.0".
2018-11-08 08:53:50 +01:00
ed33049cdc
gnu: pspp: Update to 1.2.0.
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* gnu/packages/statistics.scm (pspp): Update to 1.2.0.
[inputs]: Add spread-sheet-widget.
[native-inputs]: Add autoconf, python-2, and texinfo.
2018-11-07 17:46:25 -05:00
e2f36385d3
gnu: Add spread-sheet-widget.
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* gnu/packages/gtk.scm (spread-sheet-widget): New public variable.
2018-11-07 17:46:25 -05:00
f3f34b132c
gnu: filevercmp: Fetch sources from git.
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* gnu/packages/bioinformatics.scm (filevercmp)[source]: Fetch from git.
[arguments]: Add #T to the end of the install phase.
2018-11-07 23:17:36 +01:00
3b888065da
gnu: ritornello: Update to 2.0.1.
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* gnu/packages/bioinformatics.scm (ritornello): Update to 2.0.1.
[arguments]: Adjust file patching.
2018-11-07 23:17:36 +01:00
7145f4e519
gnu: ritornello: Fetch sources from git.
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* gnu/packages/bioinformatics.scm (ritornello)[source]: Fetch from git.
2018-11-07 23:17:35 +01:00
e0a8fc85dd
gnu: snap-aligner: Fetch sources from git.
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* gnu/packages/bioinformatics.scm (snap-aligner)[source]: Fetch from git.
[arguments]: Use INVOKE.
2018-11-07 23:17:35 +01:00
6236524409
gnu: sortmerna: Fetch sources from git.
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* gnu/packages/bioinformatics.scm (sortmerna)[source]: Fetch from git.
2018-11-07 23:17:35 +01:00
273df99d7d
gnu: vsearch: Fetch source from git.
...
* gnu/packages/bioinformatics.scm (vsearch)[source]: Fetch from git.
2018-11-07 23:17:35 +01:00
67caa4b773
gnu: preseq: Update to 2.0.3.
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* gnu/packages/bioinformatics.scm (preseq): Update to 2.0.3.
2018-11-07 23:17:35 +01:00
37e285be43
gnu: preseq: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (preseq)[source]: Fetch from git.
2018-11-07 23:17:35 +01:00
63f3255e13
gnu: seqtk: Update to 1.3.
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* gnu/packages/bioinformatics.scm (seqtk): Update to 1.3.
[source]: Remove outdated snippet.
[arguments]: Use INVOKE and return #T unconditionally.
2018-11-07 23:17:35 +01:00
019fcdf20a
gnu: seqtk: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (seqtk)[source]: Fetch from git.
2018-11-07 23:17:34 +01:00
b9d0c3564b
gnu: raxml: Update to 8.2.12.
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* gnu/packages/bioinformatics.scm (raxml): Update to 8.2.12.
2018-11-07 23:17:34 +01:00
d9ba126d17
gnu: python2-biom-format: Fix build.
...
This is a follow-up to commit 239716fb0b
2018-11-07 23:17:34 +01:00
4715d4af17
gnu: raxml: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (raxml)[source]: Fetch from git.
2018-11-07 23:17:34 +01:00
5e242b02c3
gnu: pyicoteo: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (pyicoteo)[source]: Fetch from git.
2018-11-07 23:17:34 +01:00
b44b1f08f6
gnu: hplip: Remove bundled non-free blobs.
...
This fixes <https://bugs.gnu.org/32184 >.
* gnu/packages/cups.scm (hplip)[source]: Add patch. Update snippet to
remove non-free code and binary blobs.
* gnu/packages/patches/hplip-remove-imageprocessor.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
2018-11-07 23:16:02 +02:00
2b773a9273
gnu: sra-tools: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (sra-tools)[source]: Fetch from git.
2018-11-07 21:41:56 +01:00
55698df260
gnu: libgff: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (libgff)[source]: Fetch from git.
2018-11-07 21:41:56 +01:00
4257c10ad2
gnu: kentutils: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (kentutils)[source]: Fetch from git.
[arguments]: Add phase "fix-permissions".
2018-11-07 21:41:55 +01:00
1a20bcadf3
gnu: r-seqgl: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (r-seqgl)[source]: Fetch from git.
2018-11-07 21:41:55 +01:00
a2b9d6a8d0
gnu: pplacer: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (pplacer)[source]: Fetch from git.
[arguments]: Make files writable; use INVOKE.
2018-11-07 21:41:55 +01:00
6052264b56
gnu: minced: Update to 0.3.2.
...
* gnu/packages/bioinformatics.scm (minced): Update to 0.3.2.
2018-11-07 21:41:55 +01:00
9d94ca0ebf
gnu: minced: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (minced)[source]: Fetch from git.
2018-11-07 21:41:55 +01:00
b58d9e4aa2
gnu: metabat: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (metabat)[source]: Fetch from git.
2018-11-07 21:41:55 +01:00
5c1f35e71b
gnu: mash: Update to 2.1.
...
* gnu/packages/bioinformatics.scm (mash): Update to 2.1.
2018-11-07 21:41:55 +01:00
497fc04d8f
gnu: mash: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (mash)[source]: Fetch from git.
2018-11-07 21:41:55 +01:00
55174e668f
Merge branch 'master' into core-updates
2018-11-07 21:09:57 +01:00
b31e156161
gnu: fio: Update to 3.11.
...
* gnu/packages/benchmark.scm (fio): Update to 3.11.
[source]: Use bz2 compressed tarball.
2018-11-07 21:09:00 +01:00
1badc85068
gnu: ceph: Update to 13.2.2.
...
* gnu/packages/patches/ceph-skip-unittest_blockdev.patch: Adjust for 13.2.2.
* gnu/packages/patches/ceph-rocksdb-compat.patch: Delete file.
* gnu/packages/patches/ceph-detect-rocksdb.patch,
gnu/packages/patches/ceph-volume-respect-PATH.patch: New files.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/storage.scm (ceph): Update to 13.2.2.
[source]: Don't remove src/dpdk, which has been moved to src/spdk/dpdk and
is purged elsewhere. Drop bundled rapidjson. Adjust patch list.
[arguments]: Add "-DWITH_MGR_DASHBOARD_FRONTEND=OFF" and "-DWITH_SPDK=OFF" to
#:configure-flags. Drop obsolete "-DWITH_EMBEDDED". Add workaround for
<https://bugs.gnu.org/30756 >. Remove obsolete test substitution. Rework
'wrap-python-script' to be less verbose and wrap more scripts.
[native-inputs]: Add GCC-7.
[inputs]: Add OATH-TOOLKIT, RAPIDJSON and PYTHON2-SIX.
2018-11-07 21:01:12 +01:00
2dc28391f3
gnu: kaiju: Update to 1.6.3.
...
* gnu/packages/bioinformatics.scm (kaiju): Update to 1.6.3.
2018-11-07 20:47:22 +01:00
6fe323bf2e
gnu: kaiju: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (kaiju)[source]: Fetch from git.
[arguments]: Remove redundant installation step.
2018-11-07 20:46:36 +01:00
f0731591a5
gnu: idr: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (idr)[source]: Fetch from git.
2018-11-07 20:41:58 +01:00
b8a6230df3
gnu: java-htsjdk: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (java-htsjdk)[source]: Fetch from git.
2018-11-07 20:36:07 +01:00
57be690d91
gnu: hisat2: Use versioned source URL.
...
* gnu/packages/bioinformatics.scm (hisat2)[source]: Use versioned URL.
2018-11-07 20:32:29 +01:00
c8f02c1dcb
gnu: grit: Update to 2.0.5.
...
* gnu/packages/bioinformatics.scm (grit): Update to 2.0.5.
[arguments]: Simplify.
2018-11-07 20:30:44 +01:00
8d75adbf03
gnu: grit: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (grit)[source]: Fetch from git.
2018-11-07 20:27:10 +01:00
152bebd9e0
gnu: gemma: Update to 0.98.
...
* gnu/local.mk (dist_patch_DATA): Remove patch.
* gnu/packages/patches/gemma-intel-compat.patch: Remove file.
* gnu/packages/bioinformatics.scm (gemma): Update to 0.98.
[source]: Remove patch.
[inputs]: Add eigen, gfortran:lib, and openblas.
[arguments]: Add phase "find-eigen".
2018-11-07 20:26:46 +01:00
b113f39019
gnu: gemma: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (gemma)[source]: Fetch from git.
2018-11-07 20:26:45 +01:00
f09e8abc5e
gnu: clementine: Build with sqlite-with-column-metadata.
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* gnu/packages/music.scm (clementine)[inputs]: Use sqlite-with-column-metadata.
Signed-off-by: Leo Famulari <leo@famulari.name>
2018-11-07 14:25:07 -05:00
91b71cfbba
gnu: fxtract: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (fxtract)[source]: Fetch from git.
2018-11-07 19:55:50 +01:00
7ca49ab57a
gnu: ribodiff: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (ribodiff)[source]: Fetch from git.
2018-11-07 19:48:21 +01:00
239716fb0b
gnu: python-biom-format: Update to 2.1.7.
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* gnu/packages/bioinformatics.scm (python-biom-format): Update to 2.1.7.
[arguments]: Add phases "use-cython", "disable-broken-test", and
"make-files-writable".
[propagated-inputs]: Add python-flake8.
[native-inputs]: Add python-cython, python-pytest, and python-pytest-cov.
2018-11-07 19:47:07 +01:00
007a81d5cf
gnu: python-biom-format: Fetch source from git.
...
* gnu/packages/bioinformatics.scm (python-biom-format)[source]: Fetch from
git.
2018-11-07 19:10:36 +01:00
383cb7b8e6
gnu: bioawk: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (bioawk)[source]: Fetch from git.
2018-11-07 19:06:30 +01:00
20ee3e8b76
gnu: bedtools-2.18: Fetch sources from stable URL.
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* gnu/packages/bioinformatics.scm (bedtools-2.18)[source]: Use stable release
tarball instead of generated tag tarball.
2018-11-07 18:52:46 +01:00
8e58319c45
gnu: bamtools: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (bamtools)[source]: Fetch from git.
2018-11-07 18:44:30 +01:00
21335fdbec
gnu: ngless: Install links to required tools.
...
* gnu/packages/bioinformatics.scm (ngless)[arguments]: Install links to tools.
[inputs]: Add prodigal, bwa, samtools, and minimap2.
2018-11-07 17:19:53 +01:00
fff67cc8a7
gnu: prodigal: Fetch sources from git.
...
* gnu/packages/bioinformatics.scm (prodigal)[source]: Fetch from git.
2018-11-07 17:19:53 +01:00
Marius Bakke