Commit Graph

30375 Commits (9eea4e03028f0aaed9ef4a0d371601fff622ebd4)

Author SHA1 Message Date
Mark H Weaver 257e324791
gnu: icecat: Unbundle graphite2 and harfbuzz.
* gnu/packages/patches/icecat-use-system-graphite2+harfbuzz.patch: New file.
* gnu/packages/patches/icecat-use-system-graphite2.patch,
gnu/packages/patches/icecat-use-system-harfbuzz.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Update accordingly.
* gnu/packages/gnuzilla.scm (icecat)[source]: Add new patch.  Delete
bundled graphite2 and harfbuzz in snippet.
[inputs]: Add graphite2 and harfbuzz.
[arguments]: Add --with-system-{graphite2,harfbuzz} to configure flags.
2018-09-25 19:58:58 -04:00
Marius Bakke 3b97a1779f
services: Add Varnish service.
* gnu/services/web.scm (<varnish-configuration>): New record type.
(%varnish-accounts, %varnish-service-type): New variables.
(varnish-shepherd-service): New procedure.
* gnu/tests/web.scm (%varnish-vcl, %varnish-os): New variables.
(%test-varnish): New test.
* doc/guix.texi (Web Services): Document it.
2018-09-26 00:33:01 +02:00
Marius Bakke 5f33e9063b
gnu: varnish: Use absolute file name of "rm".
* gnu/packages/web.scm (varnish)[arguments]: Rename 'patch-bin-sh-phase to
'use-absolute-file-names and add substitution.
2018-09-26 00:33:01 +02:00
Marius Bakke e789b85841
gnu: Add Node LTS.
* gnu/packages/node.scm (node)[arguments]: Adjust 'patch-files' phase to
ignore missing files.
(node-lts): New public variable.
2018-09-26 00:33:01 +02:00
Marius Bakke 020c4ef18e
gnu: node: Delete expired tests.
* gnu/packages/node.scm (node)[arguments]: Delete tests for which the TLS
certificates have expired.
2018-09-26 00:33:01 +02:00
Marius Bakke a0c9ba1d64
gnu: webkitgtk: Remove obsolete phase.
* gnu/packages/webkit.scm (webkitgtk)[arguments]: Remove #:phases.
(webkitgtk-2.22)[arguments]: Don't reference removed phase.
2018-09-26 00:33:01 +02:00
Marius Bakke 9b1bb75781
gnu: gspell: Update to 1.8.1.
* gnu/packages/gnome.scm (gspell): Update to 1.8.1.
[propagated-inputs]: Change ENCHANT-1.6 to ENCHANT.
2018-09-26 00:33:01 +02:00
Marius Bakke c1d59b3c2a
gnu: enchant: Update to 2.2.3.
* gnu/packages/enchant.scm (enchant): Update to 2.2.3.
[arguments]: Add "--enable-relocatable" to #:configure-flags.
[native-inputs]: Add UNITTEST-CPP.
(enchant-1.6): New public variable.
* gnu/packages/fcitx.scm (fcitx)[inputs]: Change ENCHANT to ENCHANT-1.6.
* gnu/packages/gnome.scm (gspell): Likewise.
* gnu/packages/mate.scm (pluma): Likewise.
* gnu/packages/gtk.scm (gtkspell3)[propagated-inputs]: Likewise.
[inputs]: Remove duplicate ENCHANT.
2018-09-26 00:33:01 +02:00
Marius Bakke 9a59b29411
gnu: enchant: Propagate Glib.
* gnu/packages/enchant.scm (enchant)[inputs]: Move GLIB ...
[propagated-inputs]: ... here.  New field.
2018-09-26 00:33:01 +02:00
Marius Bakke 18ef85b64a
gnu: enchant: Don't build libenchant.a.
* gnu/packages/enchant.scm (enchant)[arguments]: Add #:configure-flags.
2018-09-26 00:33:01 +02:00
Marius Bakke 52b87855ea
gnu: enchant: Update home page.
* gnu/packages/enchant.scm (enchant)[home-page]: Set to URL mentioned on the
legacy home page.
2018-09-26 00:33:00 +02:00
Ludovic Courtès a7a887718a
gnu: diffoscope: Update to 102.
* gnu/packages/package-management.scm (diffoscope): Update to 102.
2018-09-25 18:45:50 +02:00
Ludovic Courtès 35f903778a
gnu: Add guile-next.
* gnu/packages/guile.scm (guile-next): Rewrite to refer to Guile 3.0.
2018-09-25 18:45:50 +02:00
Tobias Geerinckx-Rice 38e1095d82
gnu: python-wsgiproxy2: Update to 0.4.5.
* gnu/packages/python-web.scm (python-wsgiproxy2): Update to 0.4.5.
2018-09-25 11:46:54 +02:00
Tobias Geerinckx-Rice 06e6b17bd7
gnu: python-pexpect: Use INVOKE.
* gnu/packages/python.scm (python-pexpect)[arguments]: Substitute INVOKE
for SYSTEM*.
2018-09-25 11:46:54 +02:00
Tobias Geerinckx-Rice 6d7ca74ba6
gnu: 389-ds-base: Fix build.
* gnu/packages/openldap.scm (389-ds-base)[inputs]: Add openssl.
2018-09-25 11:46:54 +02:00
Tobias Geerinckx-Rice 238d950b79
gnu: python-nose-timer: Update to 0.7.3.
* gnu/packages/check.scm (python-nose-timer): Update to 0.7.3.
2018-09-25 11:46:08 +02:00
Tobias Geerinckx-Rice d6ab1d0ac3
gnu: python-flask-login: Update to 0.4.1.
* gnu/packages/python-web.scm (python-flask-login): Update to 0.4.1.
[arguments]: Run the test suite.
[propagated-inputs]: Add python-flask.
[native-inputs]: Add test dependencies.
2018-09-25 11:46:08 +02:00
Tobias Geerinckx-Rice bbc69023d8
gnu: Add python-semantic-version.
* gnu/packages/python.scm (python-semantic-version)
(python2-semantic-version): New public variables.
2018-09-25 11:46:08 +02:00
Tobias Geerinckx-Rice 79374801d0
gnu: python-flask-login: Don't use unstable tarball.
* gnu/packages/python-web.scm (python-flask-login)[source]:
Use GIT-FETCH and GIT-FILE-NAME.
2018-09-25 11:46:08 +02:00
Ricardo Wurmus 932839ff12
gnu: ibus: Update to 1.5.19.
* gnu/packages/ibus.scm (ibus): Update to 1.5.19.
[arguments]: Add configure flags to disable Python 2 support while building
Python 3 bindings; adjust make flags; add phase prepare-ucd-dir.
[inputs]: Replace python2-pygobject with python-pygobject; replace python-2
with python.
[native-inputs]: Add unicode files.
2018-09-25 11:20:32 +02:00
Ricardo Wurmus f1ea0759f4
gnu: qjackctl: Update to 0.5.4.
* gnu/packages/audio.scm (qjackctl): Update to 0.5.4.
2018-09-25 08:18:51 +02:00
Kei Kebreau 116af86f14
gnu: octave: Add a search path for CURLOPT_CAPATH.
* gnu/packages/maths.scm (octave)[native-search-paths]: New field.
2018-09-24 21:42:12 -04:00
Tobias Geerinckx-Rice a68b451423
gnu: Add gandi.cli.
* gnu/packages/networking.scm (gandi.cli): New public variable.
2018-09-24 18:10:48 +02:00
Tobias Geerinckx-Rice e6dcf9ca5f
gnu: rename: Update to 1.00.
* gnu/packages/admin.scm (rename): Update to 1.00.
[arguments]: Wrap executable to find its own library.
2018-09-24 18:10:48 +02:00
Tobias Geerinckx-Rice 4cb4af797a
gnu: lxterminal: Update to 0.3.2.
* gnu/packages/lxde.scm (lxterminal): Update to 0.3.2.
2018-09-24 18:10:48 +02:00
Tobias Geerinckx-Rice 25ab91c85c
gnu: gloox: Update to 1.0.21.
* gnu/packages/messaging.scm (gloox): Update to 1.0.21.
2018-09-24 18:10:47 +02:00
Tobias Geerinckx-Rice b44a18c8f2
gnu: libmesode: Update to 0.9.2.
* gnu/packages/messaging.scm (libmesode): Update to 0.9.2.
2018-09-24 18:10:47 +02:00
Tobias Geerinckx-Rice c60d5a2528
gnu: libmesode: Don't use unstable tarball.
* gnu/packages/messaging.scm (libmesode)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-09-24 18:10:47 +02:00
Tobias Geerinckx-Rice 8ae540a2c0
gnu: ocaml-ssl: Don't use unstable tarball.
* gnu/packages/ocaml.scm (ocaml-ssl)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-09-24 18:10:46 +02:00
Ricardo Wurmus 000147811b
gnu: eolie: Update to 0.9.37.
* gnu/packages/gnome.scm (eolie): Update to 0.9.37.
[source]: Fetch from gitlab.
[build-system]: Use meson-build-system.
[arguments]: Remove custom phases; set #:glib-or-gtk?.
[native-inputs]: Remove meson-for-build and ninja; add glib:bin.
[inputs]: Add python-pyfxa and python-pycrypto.
2018-09-24 16:21:11 +02:00
Ricardo Wurmus f45bb3cc0f
gnu: Add python-pyfxa.
* gnu/packages/python-web.scm (python-pyfxa): New variable.
2018-09-24 16:20:51 +02:00
Ricardo Wurmus 084e14cc37
gnu: Add python-pybrowserid.
* gnu/packages/python-web.scm (python-pybrowserid): New variable.
2018-09-24 16:20:42 +02:00
Ricardo Wurmus 0750f344ec
gnu: Add python-hawkauthlib.
* gnu/packages/python-web.scm (python-hawkauthlib): New variable.
2018-09-24 16:20:32 +02:00
Ricardo Wurmus d08b325843
gnu: Add python-grequests.
* gnu/packages/python-web.scm (python-grequests): New variable.
2018-09-24 16:20:19 +02:00
Arun Isaac 53c64d7c93
gnu: m17n-lib: Update to 1.8.0.
* gnu/packages/emacs.scm (m17n-lib): Update to 1.8.0.
2018-09-24 17:46:47 +05:30
Arun Isaac 94282358fd
gnu: m17n-db: Update to 1.8.0.
* gnu/packages/emacs.scm (m17n-db): Update to 1.8.0.
2018-09-24 17:46:18 +05:30
Ricardo Wurmus e72702475d
gnu: Add r-bseqsc.
* gnu/packages/bioinformatics.scm (r-bseqsc): New variable.
2018-09-24 13:31:20 +02:00
Ricardo Wurmus 28829c040f
gnu: Add r-cssam.
* gnu/packages/bioinformatics.scm (r-cssam): New variable.
2018-09-24 13:31:20 +02:00
Ricardo Wurmus a434730f2e
gnu: Add r-xbioc.
* gnu/packages/bioinformatics.scm (r-xbioc): New variable.
2018-09-24 13:31:20 +02:00
Pierre Neidhardt 5c8031ff73
gnu: Prefix all Emacs packages with "emacs-".
* gnu/packages/emacs.scm: Prefix all Emacs packages with "emacs-".
This is to enforce consistency and so that `emacs-packages?' can reliably
detect Emacs packages based on the "emacs-" prefix.
2018-09-24 12:56:04 +02:00
Tobias Geerinckx-Rice cd8aa06093
gnu: python-networkx: Use HTTPS home page.
* gnu/packages/python.scm (python-networkx)[home-page]: Use HTTPS.
2018-09-24 00:34:03 +02:00
Tobias Geerinckx-Rice dd29bd4ebc
gnu: python-networkx: Update to 2.2.
* gnu/packages/python.scm (python-networkx): Update to 2.2.
2018-09-24 00:34:02 +02:00
Tobias Geerinckx-Rice 68cbec027e
gnu: python-decorator: Update to 4.3.0.
* gnu/packages/python.scm (python-decorator): Update to 4.3.0.
[arguments]: Run the test suite.
2018-09-24 00:34:02 +02:00
Tobias Geerinckx-Rice 3715e79ec8
gnu: python-marshmallow: Update to 3.0.0b14.
* gnu/packages/python.scm (python-marshmallow): Update to 3.0.0b14.
2018-09-24 00:34:01 +02:00
Tobias Geerinckx-Rice a42b68480b
gnu: libiptcdata: Update to 1.0.5.
* gnu/packages/image.scm (libiptcdata): Update to 1.0.5.
[home-page]: Follow Debian's maintained upstream.
2018-09-24 00:34:01 +02:00
Tobias Geerinckx-Rice c30fd002c8
gnu: virtualgl: Update to 2.6.
* gnu/packages/gl.scm (virtualgl): Update to 2.6.
[inputs]: Add libxtst.
2018-09-24 00:34:01 +02:00
Tobias Geerinckx-Rice 2c36baa56f
gnu: parallel: Update to 20180922.
* gnu/packages/parallel.scm (parallel): Update to 20180922.
2018-09-24 00:34:00 +02:00
Tobias Geerinckx-Rice 2f7ad2a788
gnu: workrave: Use Guix's built-in bootstrap phase.
* gnu/packages/gnome.scm (workrave)[arguments]: Remove
'autoconf' phase.
2018-09-24 00:34:00 +02:00
Tobias Geerinckx-Rice 899e1974a6
gnu: python-gitdb: Update to 2.0.4.
* gnu/packages/version-control.scm (python-gitdb): Update to 2.0.4.
[arguments]: Replace AND with equivalent but more 'accurate' BEGIN.
2018-09-24 00:34:00 +02:00
Tobias Geerinckx-Rice 0604d3cfce
gnu: nano: Update to 3.1.
* gnu/packages/nano.scm (nano): Update to 3.1.
2018-09-24 00:33:59 +02:00
Tobias Geerinckx-Rice 25706b8fc9
gnu: fping: Use HTTPS home page.
* gnu/packages/networking.scm (fping)[home-page]: Use HTTPS.
2018-09-24 00:33:59 +02:00
Tobias Geerinckx-Rice 8fa361ce63
gnu: fping: Update to 4.1.
* gnu/packages/networking.scm (fping): Update to 4.1.
2018-09-24 00:33:59 +02:00
Ludovic Courtès fce2254711
vm: Use "cache=loose" for all 9p mounts.
This significantly improves read throughput when running things like
"guix hash -r ...".

* gnu/system/vm.scm (%linux-vm-file-systems): Add 'flags' for "store".
Add "cache=loose" to every file system.
2018-09-23 23:34:17 +02:00
Ludovic Courtès b5460d95e9
vm: Disable deduplication for 'guix system vm-image'.
* gnu/system/vm.scm (qemu-image): Pass #:deduplicate? #f to
'root-partition-initializer'.
2018-09-23 23:34:17 +02:00
Ludovic Courtès 88600acc93
system: Mention '--skip-checks' in initrd diagnostics.
* gnu/system/mapped-devices.scm (check-device-initrd-modules): Add note
about '--skip-checks'.
2018-09-23 23:34:16 +02:00
Pierre Neidhardt e10bf49668
gnu: Add emacs-synosaurus.
* gnu/packages/emacs.scm (emacs-synosaurus): New variable.
2018-09-23 17:19:56 +02:00
Rutger Helling 94676ded5f
gnu: xpra: Update to 2.3.4.
* gnu/packages/xorg.scm (xpra): Update to 2.3.4.
2018-09-23 13:15:38 +02:00
Mark H Weaver 84b334362e
gnu: eolie: Use webkitgtk-2.22.
* gnu/packages/gnome.scm (eolie)[native-inputs]: Add gcc-7:lib.
[inputs]: Replace webkitgtk with webkitgtk-2.22.
[arguments]: Add "gcc:lib" to the list of libraries to add to
LD_LIBRARY_PATH.  Use invoke.
2018-09-23 04:55:54 -04:00
Mark H Weaver 480d39a600
gnu: epiphany: Use webkitgtk-2.22.
* gnu/packages/gnome.scm (epiphany)[native-inputs]: Add gcc-7.
[inputs]: Replace webkitgtk with webkitgtk-2.22.
2018-09-23 01:25:21 -04:00
Mark H Weaver 844cc6f876
gnu: webkitgtk: Add version 2.22.2.
* gnu/packages/webkit.scm (webkitgtk-2.22): New variable.
2018-09-23 01:25:09 -04:00
Katherine Cox-Buday 21280a8cd8
gnu: Add Go 1.11.
* gnu/packages/golang.scm (go-1.11): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-09-22 14:30:13 -04:00
Mark H Weaver ae71cd8ac9
gnu: icecat: Add fixes from upstream mozilla-esr60 [security fixes].
Includes fixes for CVE-2018-12383 and CVE-2018-12385.

* gnu/packages/patches/icecat-CVE-2018-12383.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/patches/icecat-avoid-bundled-libraries.patch: Adapt to apply
cleanly to IceCat 60.
* gnu/packages/gnuzilla.scm (mozilla-patch): Update to fetch from
mozilla-esr60.
(icecat): Add selected changesets from upstream mozilla-esr60.
2018-09-22 13:48:32 -04:00
Danny Milosavljevic 91294b5361
Revert 'gnu: rust: Remove unused "ar" setting.'.
Some versions of Rust do need it and others complain about it.
For now, revert the removal entirely.

This reverts commit ec944a1de9.
2018-09-22 10:09:47 +02:00
Ben Woodcroft 05fb1e0017
gnu: hmmer: Update to 3.2.1.
* gnu/packages/bioinformatics.scm (hmmer): Update to 3.2.1.
[origin]: Remove patch.
[license]: Change to BSD-3.
[supported-systems]: New field.
* gnu/packages/patches/hmmer-remove-cpu-specificity.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2018-09-22 09:16:47 +10:00
Nicolas Goaziou 78b7b9dbe9
gnu: snap: Update to 4.2.1.4.
* gnu/packages/education.scm (snap): Update to 4.2.1.4.
2018-09-21 22:22:09 +02:00
Nicolas Goaziou a255142af3
gnu: emacs-org: Update to 9.1.14.
* gnu/packages/emacs.scm (emacs-org): Update to 9.1.14.
2018-09-21 21:55:28 +02:00
Tobias Geerinckx-Rice 1302837f6b
gnu: workrave: Update to 1.10.21.
* gnu/packages/gnome.scm (workrave): Update to 1.10.21.
[source]: Use GIT-FILE-NAME.
2018-09-21 20:32:27 +02:00
Tobias Geerinckx-Rice 43726c522f
gnu: emacs-password-store: Update to 1.7.3.
* gnu/packages/emacs.scm (emacs-password-store): Update to 1.7.3.
2018-09-21 20:32:27 +02:00
Tobias Geerinckx-Rice 10fadd1e3d
gnu: filezilla: Update to 3.37.1.
* gnu/packages/ftp.scm (filezilla): Update to 3.37.1.
2018-09-21 19:52:27 +02:00
Tobias Geerinckx-Rice 9a32bdf8a9
gnu: wxwidgets: Update to 3.0.4.
* gnu/packages/wxwidgets.scm (wxwidgets): Update to 3.0.4.
2018-09-21 19:52:26 +02:00
Tobias Geerinckx-Rice 199d72e327
gnu: python-pyparsing: Update to 2.2.1.
* gnu/packages/python.scm (python-pyparsing): Update to 2.2.1.
[source]: Use PYPI-URI.
2018-09-21 19:52:26 +02:00
Danny Milosavljevic ec944a1de9
gnu: rust: Remove unused "ar" setting.
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[configure]: Remove
unused "ar" setting.
2018-09-21 17:59:09 +02:00
pimi 7e27393f82
gnu: Add r-pore.
* gnu/packages/bioinformatics.scm (r-pore): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-21 17:04:37 +02:00
Paul Garlick 45201bf245
gnu: hdf5-parallel-openmpi: Really enable parallel build.
This fix ensures that the H5_HAVE_PARALLEL identifier is correctly set
in the file H5pubconf.h.

* gnu/packages/maths.scm (hdf5-parallel-openmpi)[arguments]: Add
the "--enable-parallel" flag to the list of configure flags.  Remove
the incompatible "--enable-cxx" flag.  Add 'mpi-setup' phase.

Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
2018-09-21 17:04:37 +02:00
Paul Garlick b0d1e60fff
gnu: hdf5: Allow for absence of utility script.
* gnu/packages/maths.scm (hdf5)[arguments]: Add condition to 'split'
phase to check for existence of h5fc script.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-21 17:04:37 +02:00
Danny Milosavljevic 10e066f410
gnu: rust: Remove unused "localstatedir" setting.
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[configure]: Remove
unused "localstatedir" setting.
2018-09-21 15:21:24 +02:00
Tobias Geerinckx-Rice 118a084531
gnu: libfilezilla: Update to 0.13.2.
* gnu/packages/ftp.scm (libfilezilla): Update to 0.13.2.
[source]: Use HTTPS.
2018-09-21 15:04:29 +02:00
Tobias Geerinckx-Rice 41e551b2d3
gnu: python-pyparsing: Update home page.
* gnu/packages/python.scm (python-pyparsing)[home-page]: Update.
2018-09-21 15:03:49 +02:00
Tobias Geerinckx-Rice eacb5dc487
gnu: emacs-mu4e-conversation: Fix typo in description.
* gnu/packages/emacs.scm (emacs-mu4e-conversation)[description]:
Fix 'correspondant' typo.
2018-09-21 15:03:49 +02:00
Tobias Geerinckx-Rice 93ab9a5d76
gnu: kodi: Use INVOKE.
* gnu/packages/kodi.scm (kodi)[arguments]: Substitute INVOKE for SYSTEM*.
2018-09-21 15:03:48 +02:00
Tobias Geerinckx-Rice 2aa137e261
gnu: crossguid: Use INVOKE.
* gnu/packages/kodi.scm (crossguid)[arguments]: Substitute INVOKE for SYSTEM*.
2018-09-21 15:03:48 +02:00
Mark H Weaver e67ad5532f
gnu: icecat: Update to 60.2.0-gnu1 (pre-release).
* gnu/packages/gnuzilla.scm (icecat): Update to 60.2.0-gnu1.
[source]: Download pre-release from alpha.gnu.org.  Remove obsolete patches.
Comment out the code to delete the bundled copies of libevent, cairo,
harfbuzz, and graphite2.
[inputs]: Use the latest ffmpeg.  Comment out libevent, cairo, harfbuzz, and
graphite2.
[native-inputs]: Add rust and cargo.
[arguments]: Remove --enable-gio and --disable-gnomeui.  Add --disable-stylo.
Comment out --with-system-{libevent,harfbuzz,graphite2}, --enable-system-cairo.
Import %cargo-build-system-modules.  Add 'patch-cargo-checksums' phase.
* gnu/packages/patches/icecat-CVE-2018-5157-and-CVE-2018-5158.patch,
gnu/packages/patches/icecat-bug-1413868-pt1.patch: Delete files.
* gnu/local.mk (dist_patch_DATA): Remove them.
2018-09-21 07:16:02 -04:00
Mark H Weaver c5327efb97
gnu: libvpx: Add upstream security fix.
* gnu/packages/patches/libvpx-use-after-free-in-postproc.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/video.scm (libvpx)[source]: Add patch.
2018-09-21 07:15:59 -04:00
Tobias Geerinckx-Rice 6569549dfa
gnu: python-paramiko: Update to 2.4.2 [security fixes].
* gnu/packages/python-crypto.scm (python-paramiko): Update to 2.4.2.
2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice 101ad242be
gnu: python-paramiko: Use HTTPS home page.
* gnu/packages/python-crypto.scm (python-paramiko)[home-page]: Use HTTPS.
2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice a1d6610e84
gnu: python-rencode: Update to 1.0.5.
* gnu/packages/python.scm (python-rencode): Update to 1.0.5.
[arguments]: Add a 'delete-bogus-test' phase.
2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice e36058634d
gnu: python-hdf4: Use INVOKE.
* gnu/packages/python.scm (python-hdf4)[arguments]: Substitute INVOKE
for SYSTEM*.
2018-09-21 13:18:42 +02:00
Tobias Geerinckx-Rice 6f05556ba7
gnu: s6: Update to 2.7.2.1.
* gnu/packages/skarnet.scm (s6): Update to 2.7.2.1.
2018-09-21 13:18:41 +02:00
Tobias Geerinckx-Rice 174988fa05
gnu: perl-xml-compile: Update to 1.60.
* gnu/packages/xml.scm (perl-xml-compile): Update to 1.60.
[propagated-inputs]: Add perl-carp, perl-scalar-list-utils, and
perl-types-serialiser.
2018-09-21 13:18:41 +02:00
Nicolas Goaziou 1df40d3dbf
gnu: emacs-orgalist: Update to 1.9.
* gnu/packages/emacs.scm (emacs-orgalist): Update to 1.9.
2018-09-21 11:52:12 +02:00
Tobias Geerinckx-Rice 3752b683dc
gnu: openscenegraph: Update to 3.6.3.
* gnu/packages/graphics.scm (openscenegraph): Update to 3.6.3.
[source]: Use GIT-FILE-NAME.
[inputs]: Remove unused pth and qtbase.
2018-09-21 10:25:33 +02:00
Tobias Geerinckx-Rice 29ddbc5607
gnu: python-pydot: Update to 1.2.4.
* gnu/packages/graphviz.scm (python-pydot): Update to 1.2.4.
[arguments]: Run the test suite.
[native-inputs]: Add python-chardet.
2018-09-21 10:25:32 +02:00
Tobias Geerinckx-Rice 1779aaa09a
Add 'GNU Guix' comment to all (gnu packages) headers.
* gnu/packages/debian.scm, gnu/packages/syndication.scm: Add comments.
2018-09-21 10:25:32 +02:00
Tobias Geerinckx-Rice 4aa64e3a81
gnu: ubuntu-keyring: Update to 2018.09.18.1.
* gnu/packages/debian.scm (ubuntu-keyring): Update to 2018.09.18.1.
2018-09-21 10:25:32 +02:00
Tobias Geerinckx-Rice eeecbe09cc
gnu: perl-dbd-mysql: Update to 4.048.
* gnu/packages/databases.scm (perl-dbd-mysql): Update to 4.048.
2018-09-21 10:25:31 +02:00
Danny Milosavljevic e0b07ccc1a
gnu: rust: Work around mtime bug in rust build helpers.
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[fix-mtime-bug]:
Delete.
[reset-timestamps-after-changes]: Modify.
(rust-1.24): Don't delete "fix-mtime-bug" since now it doesn't ever
get created.
2018-09-21 01:35:00 +02:00
Danny Milosavljevic 1bfaae25fa
gnu: rust@1.20.0: Fix tests.
* gnu/packages/rust.scm (rust-1.23)[arguments]<#:phases>
[patch-cargo-tests, ignore-glibc-2.27-incompatible-test,fix-mtime-bug]: Move
to...
(rust-1.20): ... here.
2018-09-21 01:31:10 +02:00
Mark H Weaver 83e8b1d794
gnu: linux-libre: Update to 4.18.9.
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.9.
(%linux-libre-hash): Update hash.
2018-09-20 18:04:56 -04:00
Mark H Weaver c57a2a12b1
gnu: linux-libre@4.14: Update to 4.14.71.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.71.
(%linux-libre-4.14-hash): Update hash.
2018-09-20 18:04:48 -04:00
Mark H Weaver 41d6afb266
gnu: linux-libre@4.9: Update to 4.9.128.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.128.
2018-09-20 18:04:42 -04:00
Mark H Weaver c6ede267e6
gnu: linux-libre@4.4: Update to 4.4.157.
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.157.
2018-09-20 18:04:35 -04:00
fis trivial ea2364621a
gnu: qbittorrent: Update to 4.1.3.
* gnu/packages/bittorrent.scm (qbittorrent): Update to 4.1.3.
[inputs]: Use python-wrapper instead of python.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-09-20 15:31:17 -04:00
fis trivial f5c10a94ef
gnu: gprolog: Update to 1.4.5.
* gnu/packages/gprolog.scm (gprolog): Update to 1.4.5.
[source]: Add an alternate source URL.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-09-20 15:27:43 -04:00
Ricardo Wurmus 89ee8a6edf
gnu: rsem: Update to 1.3.1.
* gnu/packages/bioinformatics.scm (rsem): Update to 1.3.1.
[source]: Fetch from git; remove patch; delete bundled samtools.
[arguments]: Pass make flags; adjust phases.
[inputs]: Remove ncurses and samtools-0.1; add htslib-1.3.
* gnu/packages/patches/rsem-makefile.patch: Remove patch.
* gnu/local.mk (dist_patch_DATA): Remove it.
2018-09-20 17:55:26 +02:00
Ricardo Wurmus a235ea4f30
gnu: ghc-pandoc-citeproc: Update to 0.14.3.1.
* gnu/packages/haskell.scm (ghc-pandoc-citeproc): Update to 0.14.3.1.
2018-09-20 17:20:07 +02:00
Ricardo Wurmus e30397dddb
gnu: ghc-xml-conduit: Update to 1.8.0.1.
* gnu/packages/haskell.scm (ghc-xml-conduit): Update to 1.8.0.1.
[inputs]: Add ghc-doctest.
2018-09-20 17:20:02 +02:00
Ricardo Wurmus 391fc11f0e
gnu: python2-scikit-learn: Fix check phase.
* gnu/packages/machine-learning.scm (python2-scikit-learn)[arguments]:
Override check phase to disable broken tests and pass environment variables.
2018-09-20 15:56:59 +02:00
Ricardo Wurmus 26358ac5ab
gnu: Add r-parmigene.
* gnu/packages/cran.scm (r-parmigene): New variable.
2018-09-20 15:56:30 +02:00
Marius Bakke 3e12df7d71
gnu: Add emacs-dired-sidebar.
* gnu/packages/emacs.scm (emacs-dired-sidebar): New public variable.
2018-09-20 13:29:29 +02:00
Marius Bakke 166b2c970e
gnu: eolie: Update home page.
* gnu/packages/gnome.scm (eolie)[home-page]: Set to wiki.gnome.org/Apps/Eolie.
2018-09-20 13:29:29 +02:00
Arun Isaac 9926b8f809
gnu: services: Add iptables service.
* gnu/services/networking.scm (<iptables-configuration>): New record type.
(iptables-service-type): New variable.
* gnu/tests/networking.scm (run-iptables-test): New procedure.
(%test-iptables): New variable.
* doc/guix.texi (Networking Services): Document it.
2018-09-20 13:09:55 +05:30
Tobias Geerinckx-Rice 3e63a83c0f
gnu: u-boot: Use HTTPS home page.
* gnu/packages/bootloaders.scm (u-boot)[home-page]: Use HTTPS.
2018-09-20 04:50:34 +02:00
Tobias Geerinckx-Rice 84c7fbfd6d
gnu: ccid: Update to 1.4.30.
* gnu/packages/security-token.scm (ccid): Update to 1.4.30.
2018-09-20 04:50:34 +02:00
Tobias Geerinckx-Rice 4eb161962f
gnu: opusfile: Update to 0.11.
* gnu/packages/xiph.scm (opusfile): Update to 0.11.
2018-09-20 04:50:33 +02:00
Tobias Geerinckx-Rice e61c2991e4
Use INVOKE in (gnu packages xdisorg).
* gnu/packages/xdisorg.scm (scrot, unclutter, xautolock, nxbelld)
[arguments]: Use INVOKE.
2018-09-20 04:17:04 +02:00
Tobias Geerinckx-Rice 2385ecb224
Use INVOKE in (gnu packages shells).
* gnu/packages/shells.scm (mksh)[arguments]: Use INVOKE...
(scsh)[arguments]: ...and also return #t from all phases.
2018-09-20 04:17:04 +02:00
Tobias Geerinckx-Rice 9923d5a40f
gnu: Use INVOKE & return #t from Ruby package phases.
* gnu/packages/maths.scm (ruby-asciimath)[arguments]: Return #t from
all phases.
* gnu/packages/rails.scm (ruby-debug-inspector)[arguments]: Substitute
INVOKE for SYSTEM*.
* gnu/packages/ruby.scm (ruby-permutation, ruby-blankslate)
(ruby-minitest-pretty-diff, ruby-guard, ruby-rb-inotify, ruby-tins)
(ruby-gem-hadar, ruby-term-ansicolor, ruby-json-pure)
(ruby-activesupport, ruby-redcloth, ruby-netrc, ruby-unf-ext, ruby-yard)
(ruby-turn, ruby-sqlite3, ruby-shoulda-context, ruby-shoulda-matchers)
(ruby-shoulda, ruby-httpclient, ruby-ansi, ruby-bio-commandeer)
(ruby-rubytest, ruby-brass, ruby-qed, ruby-ae, ruby-lemon, ruby-hashery)
(ruby-rc4, ruby-concurrent)[arguments]: Likewise.
2018-09-20 04:17:04 +02:00
Tobias Geerinckx-Rice 4f66ae2899
gnu: ruby-heredoc-unindent: Fix typo in description.
* gnu/packages/ruby.scm (ruby-heredoc-unindent)[description]: Fix typo.
2018-09-20 04:17:03 +02:00
Tobias Geerinckx-Rice 7616d75fd6
Use INVOKE in (gnu packages telephony).
* gnu/packages/telephony.scm (libiax2, mumble)[arguments]: Use INVOKE.
2018-09-20 04:17:03 +02:00
Tobias Geerinckx-Rice e564d33ce8
gnu: gourmet: Use HTTPS home page.
* gnu/packages/nutrition.scm (gourmet)[home-page]: Use HTTPS.
2018-09-20 04:17:03 +02:00
Tobias Geerinckx-Rice 29a000b602
gnu: sg3-utils: Update to 1.44.
* gnu/packages/scsi.scm (sg3-utils): Update to 1.44.
2018-09-20 04:17:02 +02:00
Leo Famulari e266043e67
gnu: shotwell: Update to 0.28.4.
* gnu/packages/gnome.scm (shotwell): Update to 0.28.4.
2018-09-19 17:31:49 -04:00
Leo Famulari 508d5c5fa8
gnu: OpenSC: Update to 0.19.0 [security fixes].
Fixes CVE-2018-{16391,16392,16393,16418,16419,16420,16421,16422,16423,16424,
16425,16426,16427}.

* gnu/packages/security-token.scm (opensc): Update to 0.19.0.
2018-09-19 15:08:00 -04:00
Andy Patterson 1d98b44ea6
gnu: sbcl-slynk: Fix the build.
* gnu/packages/lisp.scm (sbcl-slynk-boot0): Update to commit
cbf84c36c4eca8b032e3fd16177a7bc02df3ec4c.
[origin]<snippet>: Replace slynk/util references with the built system name
slynk-util. Remove compile-time invocations of slynk-require.
(sbcl-slynk-util): Inherit from sbcl-slynk-boot0.
[inputs]: Add sbcl-slynk-boot0.
[arguments]: Set an appropriate asd-file and asd-system-name.
(sbcl-slynk-arglists)[arguments]: Set an appropriate asdf-system-name.
(sbcl-slynk-fancy-inspector)[arguments]: Likewise.
(sbcl-slynk-package-fu)[arguments]: Likewise.
(sbcl-slynk-mrepl)[arguments]: Likewise.
(sbcl-slynk-trace-dialog)[arguments]: Likewise.
(sbcl-slynk-profiler)[arguments]: Likewise.
(sbcl-slynk-indentation)[arguments]: Likewise.
(sbcl-slynk-retro)[arguments]: Likewise.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-19 18:25:28 +02:00
Ludovic Courtès 241358dc94
services: networking: Remove unbound variable reference in 'stop'.
* gnu/services/base.scm (static-networking-shepherd-service): Remove
spurious ":" in 'stop' method inadvertently introduced in commit
c9436025a9.
2018-09-19 18:25:28 +02:00
Ludovic Courtès 7fd3082522
services: udev: Simplify 'start' method.
* gnu/services/base.scm (udev-shepherd-service)[start](find): Remove.
(udev): Hardwire the eudev file name.
Use 'fork+exec-command' instead of 'primitive-fork' and 'exec-command'.
2018-09-19 18:25:27 +02:00
Marius Bakke 4d679255da
gnu: glm: Update to 0.9.9.2.
* gnu/packages/maths.scm (glm): Update to 0.9.9.2.
2018-09-19 15:20:21 +02:00
Marius Bakke f6ae59c2e0
gnu: feh: Update to 2.28.
* gnu/packages/image-viewers.scm (feh): Update to 2.28.
2018-09-19 15:20:21 +02:00
Marius Bakke f03c4ec649
gnu: arpack-ng: Update to 3.6.3.
* gnu/packages/maths.scm (arpack-ng): Update to 3.6.3.
2018-09-19 15:20:21 +02:00
Marius Bakke 622ef2b90a
gnu: arpack-ng: Don't use unstable tarball.
* gnu/packages/maths.scm (arpack-ng)[source]: Use GIT-FETCH.
2018-09-19 15:20:21 +02:00
Marius Bakke c5c1e410cf
gnu: Reinstate xf86-video-ast.
* gnu/packages/patches/xf86-video-ast-remove-mibstore.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
* gnu/packages/xorg.scm (xf86-video-ast): New public variable.
2018-09-19 15:20:21 +02:00
Danny Milosavljevic 6c1a658414
gnu: rust@1.19.0: Install libtest.
* gnu/packages/rust.scm (rust-1.19)[arguments]<#:phases>[build]: Build
libtest.
2018-09-19 14:41:01 +02:00
Danny Milosavljevic 4a90fcf9e7
gnu: mrustc: Enable tests.
* gnu/packages/rust.scm (mrustc)[arguments]: Add #:test-target.
<#:phases>[install]: Don't install test output.
2018-09-19 14:41:01 +02:00
Pierre Neidhardt 1cfcb841ed
gnu: git-credential-netrc: Add Git.pm to PERL5LIB.
* gnu/packages/version-control.scm (git)[credential-netrc]: Add Git.pm to PERL5LIB.
2018-09-19 09:07:12 +02:00
Ludovic Courtès 0058888c7e
gnu: Add guile-debbugs.
* gnu/packages/guile.scm (guile-debbugs): New variable.
2018-09-18 23:23:44 +02:00
Leo Famulari 32b3611375
gnu: Go 1.10: Update to 1.10.4.
* gnu/packages/golang.scm (go-1.10): Update to 1.10.4.
2018-09-18 15:30:03 -04:00
Tobias Geerinckx-Rice 56c180750c
gnu: busybox: Update to 1.29.3.
* gnu/packages/busybox.scm (busybox): Update to 1.29.3.
2018-09-18 14:18:43 +02:00
Tobias Geerinckx-Rice d99051715a
gnu: xorriso: Update to 1.5.0.
* gnu/packages/cdrom.scm (xorriso): Update to 1.5.0.
2018-09-18 13:50:32 +02:00
Tobias Geerinckx-Rice 8190578fa0
gnu: libisofs: Update to 1.5.0.
* gnu/packages/cdrom.scm (libisofs): Update to 1.5.0.
2018-09-18 13:50:32 +02:00
Tobias Geerinckx-Rice 4999f45ea9
gnu: libburn: Update to 1.5.0.
* gnu/packages/cdrom.scm (libburn): Update to 1.5.0.
2018-09-18 13:50:32 +02:00
Tobias Geerinckx-Rice 487cf5aaf6
gnu: rc: Simplify.
* gnu/packages/shells.scm (rc)[source]: Replace magic commit ID with the
tagged release. Use GIT-FILE-NAME.
[arguments]: Remove 'autoreconf' phase (relying on Guix's built-in
'bootstrap' phase instead) and adjust the ordering of 'patch-trip.rc'
accordingly.
2018-09-18 13:50:09 +02:00
Tobias Geerinckx-Rice 7c0ed27a8b
gnu: ncmpc: Update to 0.30.
* gnu/packages/mpd.scm (ncmpc): Update to 0.30.
[arguments]: Add 'expand-C++-include-path' phase.
[inputs]: Add gcc-8.
2018-09-18 13:50:09 +02:00
Tobias Geerinckx-Rice 8ecd843df5
gnu: exfat-utils: Update to 1.3.0.
* gnu/packages/mtools.scm (exfat-utils): Update to 1.3.0.
2018-09-18 13:50:09 +02:00
Tobias Geerinckx-Rice b22c44f1ea
gnu: cinnamon-desktop: Use Guix's built-in bootstrap phase.
* gnu/packages/cinnamon.scm (cinnamon-desktop)[arguments]: Remove
'autoconf' phase. Add 'skip-premature-configure' phase.
2018-09-18 13:49:23 +02:00
Tobias Geerinckx-Rice 0edc232be9
gnu: gourmet: Use INVOKE.
* gnu/packages/nutrition.scm (gourmet)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-09-18 13:49:23 +02:00
Ludovic Courtès 56c240ba8c
gnu: Add confusion-mdl.
* gnu/packages/lisp.scm (confusion-mdl): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-17 23:19:45 +02:00
Tobias Geerinckx-Rice d68aa41573
gnu: enlightenment: Update to 0.22.4.
* gnu/packages/enlightenment.scm (enlightenment): Update to 0.22.4.
2018-09-17 12:50:21 +02:00
Tobias Geerinckx-Rice ee127549a3
gnu: efl: Update to 1.21.1.
* gnu/packages/enlightenment.scm (efl): Update to 1.21.1.
2018-09-17 12:50:21 +02:00
Tobias Geerinckx-Rice f6a4d57e06
gnu: foo2zjs: Update to 20180910.
* gnu/packages/cups.scm (foo2zjs): Update to 20180910.
2018-09-17 12:50:21 +02:00
Tobias Geerinckx-Rice a09a21190f
gnu: libiptcdata: Mark up description.
* gnu/packages/image.scm (libiptcdata)[description]: Use @dfn{}.
2018-09-17 12:50:20 +02:00
Tobias Geerinckx-Rice 99d386a71f
gnu: powwow: Update to 1.2.18.
* gnu/packages/games.scm (powwow): Update to 1.2.18.
2018-09-17 12:50:20 +02:00
Tobias Geerinckx-Rice 36aff81aa3
gnu: powwow: Use HTTPS home page.
* gnu/packages/games.scm (powwow)[home-page]: Use HTTPS.
2018-09-17 12:50:20 +02:00
Tobias Geerinckx-Rice 956bcc8ed2
gnu: python-dirsync: Update to 2.2.3.
* gnu/packages/python.scm (python-dirsync): Update to 2.2.3.
[native-inputs]: Remove unzip.
2018-09-17 12:50:20 +02:00
Leo Famulari 4fed15fba3
gnu: mbedtls-apache: Update to 2.7.6.
* gnu/packages/tls.scm (mbedtls-apache): Update to 2.7.6.
2018-09-17 01:14:15 -04:00
Mark H Weaver ad99df3990
gnu: linux-libre: Update to 4.18.8.
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.8.
(%linux-libre-hash): Update hash.
2018-09-16 19:13:42 -04:00
Mark H Weaver c333c8b6f1
gnu: linux-libre@4.14: Update to 4.14.70.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.70.
(%linux-libre-4.14-hash): Update hash.
2018-09-16 19:12:53 -04:00
Mark H Weaver bf9d141a65
gnu: linux-libre@4.9: Update to 4.9.127.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.127.
2018-09-16 19:12:10 -04:00
Mark H Weaver b55d75f133
gnu: linux-libre@4.4: Update to 4.4.156.
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.156.
2018-09-16 19:11:33 -04:00
Tobias Geerinckx-Rice 31fdfc0cdd
gnu: dmidecode: Update to 3.2.
* gnu/packages/admin.scm (dmidecode): Update to 3.2.
2018-09-16 23:44:46 +02:00
Ben Woodcroft 5edef88b88
gnu: Add ruby-multi-test.
* gnu/packages/ruby.scm (ruby-multi-test): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2018-09-16 18:29:45 +01:00
Ben Woodcroft 1b6f5475a1
gnu: Enable tests for ruby-multi-json.
* gnu/packages/ruby.scm (ruby-multi-json)[version]: Update to 1.13.1.
[source]: Switch to GitHub, so that the tests can be run.
[arguments]: Enable running the tests, and add a patch to fix an issue running
the tests.
[native-inputs]: Add native-inputs required for running the tests.
[home-page]: Use HTTPS.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2018-09-16 18:29:45 +01:00
Ben Woodcroft ed4b6b1840
gnu: Add ruby-oj.
* gnu/packages/ruby.scm (ruby-oj): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2018-09-16 18:29:45 +01:00
Ben Woodcroft 2db0f9c82d
gnu: Add ruby-yajl-ruby.
* gnu/packages/ruby.scm (ruby-yajl-ruby): New variable.

Signed-off-by: Christopher Baines <mail@cbaines.net>
2018-09-16 18:29:45 +01:00
Roel Janssen cbb1b16865
admin: python-pyudev: Add dependency on python-six.
* gnu/packages/admin.scm (python-pyudev): Add dependency on python-six.
2018-09-15 21:26:50 +02:00
Julien Lepiller 636579210f
gnu: php: Update to 7.2.10.
* gnu/packages/php.scm (php): Update to 7.2.10.
2018-09-15 21:06:08 +02:00
Rutger Helling e8079dd9e4
gnu: wine-staging: Update to 3.16.
* gnu/packages/wine.scm (wine-staging): Update to 3.16.
2018-09-15 15:09:01 +02:00
Rutger Helling b947c614df
gnu: wine-staging-patchset-data: Update to 3.16.
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 3.16.
2018-09-15 15:09:01 +02:00
Rutger Helling 85a349787b
gnu: wine: Update to 3.0.3.
* gnu/packages/wine.scm (wine): Update to 3.0.3.
2018-09-15 15:09:00 +02:00
Tobias Geerinckx-Rice 4be83af427
gnu: gambit-c: Update to 4.9.0.
The tests makefile still contains the offending lines, but I was unable
to reproduce the failure across 3 different machines.

* gnu/packages/scheme.scm (gambit-c): Update to 4.9.0.
[arguments]: Remove 'fix-tests' phase.
2018-09-15 12:15:28 +02:00
Tobias Geerinckx-Rice 4e9832dd38
gnu: gambit-c: Update home page.
* gnu/packages/scheme.scm (gambit-c)[home-page]: Update.
2018-09-15 12:15:05 +02:00
Maxim Cournoyer 511f3be695
gnu: Add python-user-agents.
* gnu/packages/python.scm (python-user-agents, python2-user-agents): New
variables.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-09-15 12:19:06 +08:00
Maxim Cournoyer 2ee67781ff
gnu: Add python-ua-parser.
* gnu/packages/python.scm (python-ua-parser, python2-ua-parser): New variables.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-09-15 12:19:06 +08:00
Maxim Cournoyer 935d5ceb9b
gnu: Add python-pycountry.
* gnu/packages/python.scm (python-pycountry, python2-pycountry): New variables.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-09-15 12:19:06 +08:00
Tobias Geerinckx-Rice 021b42f5e7
gnu: zsh: Update to 5.6.2.
* gnu/packages/shells.scm (zsh): Update to 5.6.2.
2018-09-15 05:17:51 +02:00
Tobias Geerinckx-Rice 81fb037f5a
gnu: libetpan: Use HTTPS home page.
* gnu/packages/mail.scm (libetpan)[home-page]: Use HTTPS.
2018-09-15 05:17:50 +02:00
Tobias Geerinckx-Rice 483be9bda6
gnu: ocaml-ounit: Update to 2.0.8.
* gnu/packages/ocaml.scm (ocaml-ounit): Update to 2.0.8.
2018-09-15 05:17:50 +02:00
Tobias Geerinckx-Rice 3319817174
gnu: pybind11: Update to 2.2.4.
* gnu/packages/python.scm (pybind11): Update to 2.2.4.
2018-09-15 05:17:50 +02:00
Tobias Geerinckx-Rice 5c34d97187
gnu: pybind11: Don't use unstable tarball.
* gnu/packages/python.scm (pybind11)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-09-15 05:17:50 +02:00
Maxim Cournoyer 61853b7447
gnu: libjpeg: Improve description.
* gnu/packages/image.scm (libjpeg)[description]: Add the list of the programs
it provides.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-09-15 10:49:50 +08:00
Tobias Geerinckx-Rice 25bc6370a4
gnu: snakemake: Update to 5.2.4.
* gnu/packages/python.scm (snakemake): Update to 5.2.4.
[propagated-inputs]: Add python-gitpython.
2018-09-15 03:38:31 +02:00
Tobias Geerinckx-Rice bbe2a94799
gnu: libsigrokdecode: Update to 0.5.2.
* gnu/packages/electronics.scm (libsigrokdecode): Update to 0.5.2.
2018-09-15 03:38:31 +02:00
Tobias Geerinckx-Rice 9f1b186afc
gnu: libetpan: Update to 1.9.1.
* gnu/packages/mail.scm (libetpan): Update to 1.9.1.
2018-09-15 03:38:31 +02:00
Tobias Geerinckx-Rice aae96f8fac
gnu: libetpan: Don't use unstable tarball.
* gnu/packages/mail.scm (libetpan)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-09-15 03:38:31 +02:00
Tobias Geerinckx-Rice f9fe94c1f6
gnu: emacs-magit-popup: Don't use unstable tarball.
* gnu/packages/emacs.scm (emacs-magit-popup)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-09-15 03:38:30 +02:00
Tobias Geerinckx-Rice e1bf455cee
gnu: emacs-magit-popup: Update to 2.12.4.
* gnu/packages/emacs.scm (emacs-magit-popup): Update to 2.12.4.
2018-09-15 03:38:30 +02:00
Tobias Geerinckx-Rice 49c941b43b
gnu: libmwaw: Update to 0.3.14.
* gnu/packages/libreoffice.scm (libmwaw): Update to 0.3.14.
2018-09-15 03:38:30 +02:00
Tobias Geerinckx-Rice 002d73a01f
gnu: libwps: Update to 0.4.10.
* gnu/packages/libreoffice.scm (libwps): Update to 0.4.10.
2018-09-15 03:38:30 +02:00
Tobias Geerinckx-Rice c924fe38dc
gnu: umoci: Update to 0.4.2.
* gnu/packages/virtualization.scm (umoci): Update to 0.4.2.
2018-09-15 03:36:36 +02:00
Tobias Geerinckx-Rice 56f3b85bd3
gnu: python-iso8601: Update to 0.1.12.
* gnu/packages/time.scm (python-iso8601): Update to 0.1.12.
2018-09-15 03:36:36 +02:00
Tobias Geerinckx-Rice ed017a78be
gnu: coq: Update to 8.8.1.
* gnu/packages/ocaml.scm (coq): Update to 8.8.1.
2018-09-15 03:36:36 +02:00
Tobias Geerinckx-Rice 1d7cc6841e
gnu: coq: INVOKE.
* gnu/packages/ocaml.scm (coq)[arguments]: Substitute INVOKE for
SYSTEM*.
2018-09-15 03:36:35 +02:00
Leo Famulari 9e9e5d5a26
gnu: OpenSSL 1.1: Update to 1.1.1.
* gnu/packages/tls.scm (openssl-next): Update to 1.1.1.
[arguments]: Patch a `/usr/bin/env` invocation in the 'config' script.
Adjust the documentation output.
* gnu/packages/patches/openssl-1.1.0-c-rehash-in.patch: Rename and ...
* gnu/packages/patches/openssl-1.1-c-rehash-in.patch: ... adjust patch.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
2018-09-14 16:51:49 -04:00
Danny Milosavljevic e830c9d0b0
gnu: Rename "banana-pi" to "bananapi".
* gnu/bootloader/u-boot.scm (u-boot-banana-pi-m2-ultra-bootloader): Rename
to...
(u-boot-bananapi-m2-ultra-bootloader): ...this.
* gnu/packages/bootloaders.scm (u-boot-banana-pi-m2-ultra): Rename to...
(u-boot-bananapi-m2-ultra): ...this.
* gnu/system/install.scm (banana-pi-m2-ultra-installation-os): Rename to...
(bananapi-m2-ultra-installation-os): ...this.
2018-09-14 21:31:24 +02:00
Ricardo Wurmus 7a20877a18
gnu: python-llvmlite: Remove obsolete patch.
* gnu/packages/llvm.scm (python-llvmlite)[inputs]: Remove patch that is
obsolete since the upgrade to LLVM 6.0.1.
2018-09-14 15:12:03 +02:00
Eric Brown daa6036fda
gnu: Add openblas-ilp64.
* gnu/packages/maths.scm (openblas-ilp64): New variable.

Co-authored-by: Ludovic Courtès <ludovic.courtes@inria.fr>
2018-09-14 11:23:07 +02:00
Ricardo Wurmus 1dd153b3aa
gnu: Add python-hic2cool.
* gnu/packages/bioinformatics.scm (python-hic2cool): New variable.
2018-09-14 09:15:49 +02:00
pimi 03c95f0414
gnu: Add r-abps.
* gnu/packages/cran.scm (r-abps): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-14 07:46:19 +02:00
pimi 016cabf7be
gnu: Add r-abodoutlier.
* gnu/packages/cran.scm (r-abodoutlier): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-14 07:46:19 +02:00
Danny Milosavljevic 317b139c5d
gnu: rust: Update to 1.27.2.
* gnu/packages/rust.scm (rust): Update to 1.27.2.
2018-09-13 22:37:55 +02:00
pimi b6afe7b7f5
gnu: Add r-abnormality.
* gnu/packages/cran.scm (r-abnormality): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 22:16:01 +02:00
Tobias Geerinckx-Rice f0314f65df
gnu: Add perl-devel-checklib.
* gnu/packages/perl.scm (perl-devel-checklib): New public variable.
2018-09-13 19:53:08 +02:00
Tobias Geerinckx-Rice 7ec4f648e5
gnu: sg3_utils: Mark up description.
* gnu/packages/scsi.scm (sg3_utils)[description]: Use @dfn{}.
Wrap commands in @command{} rather than @code{}, and @itemize them.
2018-09-13 19:53:08 +02:00
Tobias Geerinckx-Rice 581b6f5e96
gnu: sudo: Update to 1.8.25p1.
* gnu/packages/admin.scm (sudo): Update to 1.8.25p1.
2018-09-13 19:53:07 +02:00
Tobias Geerinckx-Rice 0b0b43ed7a
gnu: youtube-viewer: Update to 3.4.1.
* gnu/packages/video.scm (youtube-viewer): Update to 3.4.1.
2018-09-13 19:53:07 +02:00
Tobias Geerinckx-Rice 6be445785a
gnu: youtube-viewer: Don't use unstable tarball.
* gnu/packages/video.scm (youtube-viewer)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-09-13 19:53:07 +02:00
Leo Famulari 7d1cc61293
Revert "gnu: libinput: Update to 1.12.0."
Libinput-minimal has a lot of dependent packages, and this isn't reported by
`guix refresh --list-dependent`. We'll save this commit for another time.

This reverts commit 38dc3d6f17.
2018-09-13 13:28:10 -04:00
pimi ebb3cdb1ea
gnu: Add r-abjutils.
* gnu/packages/cran.scm (r-abjutils): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 19:18:47 +02:00
pimi 1efcd0f1ea
gnu: Add r-abhgenotyper.
* gnu/packages/cran.scm (r-abhgenotyper): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 19:13:43 +02:00
Manuel Graf ae72b8f55b
gnu: Add ClusterShell.
* gnu/packages/ssh.scm (clustershell): New variable.

Co-authored-by: Ludovic Courtès <ludovic.courtes@inria.fr>
2018-09-13 19:12:25 +02:00
Leo Famulari 38dc3d6f17
gnu: libinput: Update to 1.12.0.
* gnu/packages/freedesktop.scm (libinput): Update to 1.12.0.
2018-09-13 13:08:24 -04:00
pimi ef26400b66
gnu: Add r-abf2.
gnu/packages/cran.scm (r-abf2): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 19:05:35 +02:00
Efraim Flashner f21967a44b
gnu: retroarch: Fix building on armhf-linux.
* gnu/packages/emulators.scm (retroarch)[arguments]: Add custom flags
when building for armhf-linux.
2018-09-13 18:40:32 +03:00
Efraim Flashner fade67ab75
gnu: retroarch: Use shared zlib.
* gnu/packages/emulators.scm (retroarch)[arguments]: In custom
'configure phase, use our zlib instead of vendor's zlib.
2018-09-13 18:40:30 +03:00
Danny Milosavljevic 060366f6b3
gnu: rust@1.23.0: Inherit outputs.
* gnu/packages/rust.scm (rust-1.23)[outputs]: Inherit.
2018-09-13 17:19:04 +02:00
Danny Milosavljevic b78fe27b31
gnu: rust@1.25.0: Disable pedantic test.
* gnu/packages/rust.scm (rust-1.25)[arguments]<#:phases>
[disable-nil-enum-test]: New phase.
2018-09-13 17:17:15 +02:00
Danny Milosavljevic 6fe73b487b
gnu: rust: Accept more detailed gdb responses.
* gnu/packages/patches/rust-1.25-accept-more-detailed-gdb-lines.patch: New
file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/rust.scm (rust-1.25): Use it.
(rust-1.26): Use it.
(rust): Use it.
2018-09-13 17:17:15 +02:00
pimi 3cadd3ce93
gnu: Add r-abe.
gnu/packages/cran.scm (r-abe): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 15:21:40 +02:00
pimi d1ca3d7297
gnu: Add r-svdialogs.
gnu/packages/cran.scm (r-svdialogs): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-13 15:07:45 +02:00
宋文武 26700caed9
gnu: racket: Fix incompatibility with libedit.
The former patching made racket detecting libedit as the old 2.11 version,
which leads to failure:
<https://lists.gnu.org/archive/html/help-guix/2018-09/msg00027.html>.

* gnu/packages/scheme.scm (racket)[arguments]: Patch the 'ffi-lib' call of
libedit using 'PLT_READLINE_LIB'.
2018-09-13 20:20:41 +08:00
Danny Milosavljevic 73dc7834de
gnu: rust@1.20.0: Replace "default-ar" by "ar".
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[configure]: Replace
"default-ar" by "ar".
2018-09-13 10:10:49 +02:00
Danny Milosavljevic 1ab3e1dd98
gnu: Add rust@1.22.1.
* gnu/packages/rust.scm (rust-1.22): New variable.
2018-09-13 10:10:49 +02:00
Danny Milosavljevic 05ebff92bd
gnu: Add rust@1.21.0.
* gnu/packages/rust.scm (rust-1.21): New variable.
2018-09-13 10:10:49 +02:00
Danny Milosavljevic e69b1a7c6e
gnu: rust-bootstrap: Clean up comments.
* gnu/packages/rust.scm (rust-bootstrap): Clean up comments.
2018-09-13 10:10:49 +02:00
Danny Milosavljevic bfdc0e4d45
gnu: rust: Move "cc" from rust-bootstrap to rust proper.
* gnu/packages/rust.scm (rust-bootstrap)[arguments]<#:phases>[install]:
Delete "cc".
(rust-1.23)[arguments]<#:phases>: Delete "provide-cc" deletion.
2018-09-13 10:10:49 +02:00
Danny Milosavljevic 333c0ca966
gnu: rust@1.23.0: Use rust@1.20.0 as template.
* gnu/packages/rust.scm (rust-1.23)[inherit]: Use rust-1.20.
[arguments]<#:phases>: Delete "patch-cargo-tomls" phase deletion.
Add "provide-cc" phase deletion.
Add "configure-archiver" phase deletion.
[configure]: Inherit phase.
[reset-timestamps-after-changes]: Inherit phase.
[build]: Inherit phase.
[check]: Inherit phase.
[install]: Inherit phase.
[wrap-rustc]: Inherit phase.
2018-09-13 10:10:48 +02:00
Maxim Cournoyer f309671c28
gnu: Add emacs-org-reveal.
* gnu/packages/emacs.scm (emacs-org-reveal): New variable.
2018-09-12 22:48:04 -04:00
Maxim Cournoyer 82baeea297
gnu: Add emacs-elpy.
* gnu/packages/emacs.scm (emacs-elpy): New variable.
2018-09-12 22:16:25 -04:00
Maxim Cournoyer dcc31d7f41
gnu: Add emacs-highlight-indentation.
* gnu/packages/emacs.scm (emacs-highlight-indentation): New variable.
2018-09-12 22:16:25 -04:00
Maxim Cournoyer 87e9fb5753
gnu: Add emacs-pyvenv.
* gnu/packages/emacs.scm (emacs-pyvenv): New variable.
2018-09-12 22:16:24 -04:00
Maxim Cournoyer 2c6ff3a2bc
gnu: Add emacs-find-file-in-project.
* gnu/packages/emacs.scm (emacs-find-file-in-project): New variable.
2018-09-12 22:16:24 -04:00
Maxim Cournoyer 563f151bd4
gnu: Add emacs-mocker.
* gnu/packages/emacs.scm (emacs-mocker): New variable.
2018-09-12 22:16:24 -04:00
Maxim Cournoyer aaf10fa7d8
gnu: Add emacs-el-x.
* gnu/packages/emacs.scm (emacs-el-x): New variable.
2018-09-12 22:16:23 -04:00
Maxim Cournoyer 8795ce8673
gnu: Add python-black.
* gnu/packages/python.scm (python-black): New variable.
2018-09-12 22:16:23 -04:00
Maxim Cournoyer 7e846d07e8
gnu: Add python-toml.
* gnu/packages/python.scm (python-toml): New variables.
2018-09-12 22:16:23 -04:00
Maxim Cournoyer 4bd8f4f302
gnu: python-jedi: Update to 0.12.1.
* gnu/packages/python.scm (python-jedi): Update to 0.12.1.
[propagated-inputs]: Move python-parso here, as it is required at run time.
2018-09-12 22:16:18 -04:00
Danny Milosavljevic 614cfd5c54
gnu: Add rust@1.20.0.
* gnu/packages/rust.scm (rust-1.20): New variable.
2018-09-13 00:25:01 +02:00
Danny Milosavljevic 3763e7716c
gnu: rust@1.19.0: Remove superfluous install-file call.
* gnu/packages/rust.scm (rust-1.19)[arguments]<#:phases>[build]: Remove
superfluous install-file call.
2018-09-12 23:17:42 +02:00
Danny Milosavljevic 5a3fcf5b44
gnu: rust@1.19.0: Install rustdoc.
* gnu/packages/rust.scm (rust-1.19)[arguments]<#:phases>[install]: Install
rustdoc.
2018-09-12 23:17:42 +02:00
Danny Milosavljevic 0bcd1bc778
gnu: rust@1.19.0: Use match-lambda directly.
Follow-up to 3159ef7c99.

* gnu/packages/rust.scm (rust-1.19)[arguments]<#:phases>[build]: Use
match-lambda directly.
2018-09-12 23:17:42 +02:00
Nils Gillmann f006237c54
gnu: gnurl: Update to 7.61.1.
* gnu/packages/gnunet.scm (gnurl): Update to 7.61.1.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-09-12 16:02:39 -04:00
Leo Famulari ff9008d8de
gnu: Zsh: Remove workaround required for Zsh 5.6.
This is a followup to commit 5a5d3e3563.

* gnu/packages/shells.scm (zsh)[arguments]: Remove substitutions in 'patch-test'
phase.
2018-09-12 15:21:42 -04:00
Pierre Neidhardt 4fa7f29f2a
gnu: emacs-hl-todo: Update to 1.9.0.
* gnu/packages/emacs.scm (emacs-hl-todo): Update to 1.9.0.
2018-09-12 19:51:26 +02:00
Ricardo Wurmus 4a89bdd196
gnu: python-scikit-learn: Update to 0.19.2.
* gnu/packages/machine-learning.scm (python-scikit-learn): Update to 0.19.2.
[source]: Fetch from git.
[arguments]: Run tests before installation; replace "check" phase, add
"build-ext" phase; delete "reset-gzip-timestamps" phase.
[native-inputs]: Add python-pytest and python-pandas; remove python-nose.
2018-09-12 19:35:02 +02:00
Pierre Neidhardt b002809f84
gnu: Add emacs-blimp.
* gnu/packages/emacs.scm (emacs-blimp): New variable.
2018-09-12 19:34:17 +02:00
Pierre Neidhardt 320105eadb
gnu: Add emacs-org-web-tools.
* gnu/packages/emacs.scm (emacs-org-web-tools): New variable.
2018-09-12 19:34:17 +02:00
Pierre Neidhardt 9c208f38f2
gnu: Add emacs-youtube-dl.
* gnu/packages/emacs.scm (emacs-youtube-dl): New variable.
2018-09-12 19:34:14 +02:00
Tobias Geerinckx-Rice acd4da3f29
gnu: libfilezilla: Update to 0.13.1.
* gnu/packages/ftp.scm (libfilezilla): Update to 0.13.1.
2018-09-12 16:44:08 +02:00
Tobias Geerinckx-Rice bec13d872d
gnu: sg3-utils: Update to 1.43.
* gnu/packages/scsi.scm (sg3-utils): Update to 1.43.
[license]: Add bsd-2.
2018-09-12 16:44:08 +02:00
Tobias Geerinckx-Rice 0f304ba73e
gnu: syslinux: Use HTTPS home page.
* gnu/packages/bootloaders.scm (syslinux)[home-page]: Use HTTPS.
2018-09-12 16:09:38 +02:00
Tobias Geerinckx-Rice 60d8db74c6
gnu: syslinux: Use INVOKE.
* gnu/packages/bootloaders.scm (syslinux)[arguments]: Substitute INVOKE
for SYSTEM*.
2018-09-12 16:09:38 +02:00
Tobias Geerinckx-Rice 5a5d3e3563
gnu: zsh: Update to 5.6.1.
* gnu/packages/shells.scm (zsh): Update to 5.6.1.
2018-09-12 16:09:38 +02:00
Tobias Geerinckx-Rice 4dbef67102
gnu: zsh: Use HTTPS.
* gnu/packages/shells.scm (zsh)[source, home-page]: Use HTTPS.
2018-09-12 16:09:37 +02:00
Tobias Geerinckx-Rice c8749b0250
gnu: Add perl-mock-config.
* gnu/packages/perl-check.scm (perl-mock-config): New public variable.
2018-09-12 16:09:37 +02:00
Efraim Flashner b2c8d31ff6
gnu: perl-moosex-getopt: Update to 0.73.
* gnu/packages/perl.scm (perl-moosex-getopt): Update to 0.73.
[native-inputs]: Add perl-module-build-tiny, perl-path-tiny,
perl-test-needs.
2018-09-12 10:28:47 +03:00
Eric Bavier 50b3b83143
netsurf: Register patch.
Follow-up to f9e140a243.

* gnu/local.mk (dist_patch_DATA): Add netsurf-message-timestamp.patch.
2018-09-11 20:29:04 -05:00
Eric Bavier bbe46a4af5
mpi: Factorize openmpi setup build phase.
* gnu/packages/mpi.scm (%openmpi-setup): New variable.
* gnu/packages/maths.scm (scalapack, slepc-openmpi, mumps-openmpi)
(superlu-dist, p4est, petsc-openmpi, hypre-openmpi, elemental)
(sundials-openmpi, arpack-ng-openmpi)[arguments]: Use it in #:phases.
2018-09-11 20:29:04 -05:00
Eric Bavier 5882078e8c
font-fantasque-sans: Upgrade to 1.7.2.
* gnu/packages/fonts.scm (font-fantasque-sans): Upgrade to 1.7.2.
[native-inputs]: Add zip.
[arguments]: Add 'xrange->range phase for python3 compatibility.  Adjust
install phase to work with newly generated font variants.
2018-09-11 20:29:03 -05:00
Pierre Neidhardt 2b0820bf0d
gnu: emacs-helm: Update to 3.0.
* gnu/packages/emacs.scm (emacs-helm): Update to 3.0.
2018-09-11 23:53:35 +02:00
Pierre Neidhardt ee0d184502
gnu: Add emacs-hackernews.
* gnu/packages/emacs.scm (emacs-hackernews): New variable.
2018-09-11 23:53:35 +02:00
Pierre Neidhardt bd8f74dfbe
gnu: emacs-evil-collection: Update to 20180911.
* gnu/packages/emacs.scm (emacs-evil-collection): Update to 20180911.
2018-09-11 23:53:35 +02:00
Pierre Neidhardt ac9e307740
gnu: emacs-magit-todos: Update to 1.1.
* gnu/packages/emacs.scm (emacs-magit-todos): Update to 1.1.
2018-09-11 23:53:35 +02:00
Pierre Neidhardt 475e16578f
gnu: emacs-helm-system-packages: Update to 1.10.1.
* gnu/packages/emacs.scm (emacs-helm-system-packages): Update to 1.10.1.
2018-09-11 23:53:35 +02:00
Jan Nieuwenhuizen 4a67079f71
gnu: mes: Oops, use mirror://gnu download url.
* gnu/packages/mes.scm (mes): Oops, use mirror://gnu download url.
2018-09-11 22:34:02 +02:00
Tobias Geerinckx-Rice a855117c59
gnu: snakemake: Update home page.
* gnu/packages/python.scm (snakemake)[home-page]: Update.
2018-09-11 21:12:43 +02:00
Tobias Geerinckx-Rice 9b83c15afe
gnu: snakemake: Update to 5.2.2.
* gnu/packages/python.scm (snakemake): Update to 5.2.2.
2018-09-11 21:03:08 +02:00
Tobias Geerinckx-Rice a93de1ae9e
gnu: obnam: Add deprecation warning.
* gnu/packages/backup.scm (obnam)[synopsis, description]: Note its
retirement.
2018-09-11 21:03:07 +02:00
Tobias Geerinckx-Rice cd1e138cc6
gnu: unbound: Update to 1.8.0.
* gnu/packages/dns.scm (unbound): Update to 1.8.0.
2018-09-11 21:03:07 +02:00
Tobias Geerinckx-Rice 702a87f2d1
gnu: perl-dbd-mysql: Update to 4.047.
* gnu/packages/databases.scm (perl-dbd-mysql): Update to 4.047.
[arguments]: Add 'skip-library-detection' phase.
2018-09-11 21:03:07 +02:00
Jonathan Brielmaier 52b0a352c3
gnu: libreoffice: Update to 6.1.0.3.
* gnu/packages/libreoffice.scm (libreoffice): Update to 6.1.0.3.
[source]: Correct indenting.
[inputs]: Add libnumbertext and python-lxml.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:30 +02:00
Jonathan Brielmaier aeba7d4650
gnu: Add libnumbertext.
* gnu/packages/libreoffice.scm (libnumbertext): New public variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:30 +02:00
Paul Garlick aa82260bc0
gnu: arpack-ng-openmpi: Fix build.
* gnu/packages/maths.scm (arpack-ng-openmpi)[arguments]: Add
'set-test-environment phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:29 +02:00
Tim Gesthuizen d2fe71b04d
gnu: Add emacs-irony-mode.
* gnu/packages/emacs.scm (emacs-irony-mode): New variable.
(emacs-irony-mode-server): New variable.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 17:46:28 +02:00
Ludovic Courtès 8539eb5c46
gnu: jupyter-guile-kernel: Add dependencies to the search path.
This allows:

  guix environment --ad-hoc jupyter jupyter-guile-kernel \
    -- jupyter notebook

to work out-of-the-box.

* gnu/packages/guile.scm (jupyter-guile-kernel)[arguments]: In
'install-kernel' phase, add '-L' and '-C' flags to 'kernel.json'.
[propagated-inputs]: Remove.
[inputs]: Add GUILE-JSON and GUILE-SIMPLE-ZMQ.
2018-09-11 17:46:28 +02:00
Ludovic Courtès 828fa94d7a
gnu: guile-simple-zmq, jupyter-guile-kernel: Update to 5bb66a0 and a7db924.
* gnu/packages/guile.scm (guile-simple-zmq): Update to 5bb66a0.
(jupyter-guile-kernel): Update to a7db924.
2018-09-11 17:46:28 +02:00
Mădălin Ionel Patrașcu 01af264dcb
gnu: Add r-svgui.
* gnu/packages/cran.scm (r-svgui): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-11 17:27:10 +02:00
Marius Bakke f6b7ccc9f9
gnu: spice: Update to 0.14.1 [fixes CVE-2018-10873].
* gnu/packages/spice.scm (spice): Update to 0.14.1.
[source](uri): Update to new "spice-server" subdirectory.
[native-inputs]: Add GLIB-NETWORKING and GSETTINGS-DESKTOP-SCHEMAS.
[arguments]: Remove configure-flag which is now off even when celt is
available.  Add phase to set $SSL_CERT_FILE.
2018-09-11 14:12:53 +02:00
Marius Bakke 41a659d2ec
gnu: usbredir: Update to 0.8.0.
* gnu/packages/spice.scm (usbredir): Update to 0.8.0.
[source]: Use URL-FETCH.
[native-inputs]: Remove AUTOCONF, AUTOMAKE and LIBTOOL.
[arguments]: Remove.
2018-09-11 14:12:53 +02:00
Leo Famulari b4ff75b507
gnu: syncthing: Update to 0.14.50.
* gnu/packages/syncthing.scm (syncthing): Update to 0.14.50.
2018-09-11 03:24:46 -04:00
Leo Famulari e76709f71f
gnu: go-github-com-syncthing-notify: Update to 0.0.0-2.b76b458.
* gnu/packages/syncthing.scm (go-github-com-syncthing-notify): Update to
0.0.0-2.b76b458.
2018-09-11 03:24:42 -04:00
Leo Famulari 091ef8c97e
gnu: VLC: Update to 3.0.4.
* gnu/packages/video.scm (vlc): Update to 3.0.4.
2018-09-10 19:24:51 -04:00
Leo Famulari 5d9c28f117
gnu: git: Update to 2.19.0.
* gnu/packages/version-control.scm (git): Update to 2.19.0.
(cgit)[inputs]: Use the source of Git 2.18.0.
2018-09-10 19:02:45 -04:00
pimi cbb0edd1be
gnu: Add r-abd.
* gnu/packages/cran.scm (r-abd): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 00:14:58 +02:00
pimi 6c6ce2d088
gnu: Add r-mosaic.
* gnu/packages/cran.scm (r-mosaic): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 00:14:58 +02:00
pimi 2f195b6f23
gnu: Add r-mosaicdata.
* gnu/packages/cran.scm (r-mosaicdata): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-11 00:14:58 +02:00
Ricardo Wurmus d54145c38a
gnu: guitarix: Update to 0.37.3.
* gnu/packages/audio.scm (guitarix): Update to 0.37.3.
[inputs]: Add curl.
2018-09-10 23:58:14 +02:00
Thorsten Wilms 029de52fe9
gnu: guitarix-lv2: Use correct configure flag.
* gnu/packages/audio.scm (guitarix-lv2)[arguments]: Change configure flag.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-10 23:58:14 +02:00
Tobias Geerinckx-Rice 2740549754
gnu: kakoune: Use HTTPS home page.
* gnu/packages/text-editors.scm (kakoune)[home-page]: Use HTTPS.
2018-09-10 22:54:36 +02:00
Tobias Geerinckx-Rice b38827096f
gnu: mcrl2: Use HTTPS home page.
* gnu/packages/maths.scm (mcrl2)[home-page]: Use HTTPS.
2018-09-10 22:54:36 +02:00
Tobias Geerinckx-Rice 4105f13bb5
gnu: tor: Update to 0.3.4.8.
* gnu/packages/tor.scm (tor): Update to 0.3.4.8.
2018-09-10 22:54:35 +02:00
Tobias Geerinckx-Rice 695775b138
gnu: kakoune: Update to 2018.09.04.
* gnu/packages/text-editors.scm (kakoune): Update to 2018.09.04.
2018-09-10 22:15:20 +02:00
Tobias Geerinckx-Rice 4b41568fa5
gnu: python-binaryornot: Update to 0.4.4.
* gnu/packages/python.scm (python-binaryornot): Update to 0.4.4.
2018-09-10 22:15:20 +02:00
Tobias Geerinckx-Rice 86788cb0c9
gnu: python-parse: Update to 1.8.4.
* gnu/packages/python.scm (python-parse): Update to 1.8.4.
2018-09-10 22:15:20 +02:00
Tobias Geerinckx-Rice c0ea7f5ff4
gnu: python-parse: Mark up description.
* gnu/packages/python.scm (python-parse)[description]: Use @code{}.
2018-09-10 22:15:20 +02:00
Tobias Geerinckx-Rice cc12ac58a2
gnu: python-jedi: Update to 0.12.1.
* gnu/packages/python.scm (python-jedi): Update to 0.12.1.
[synopsis, description]: Adjust to expanded functionality.
2018-09-10 22:15:19 +02:00
Tobias Geerinckx-Rice 7a6eaf5ca9
gnu: python-parso: Update to 0.3.1.
* gnu/packages/python.scm (python-parso): Update to 0.3.1.
2018-09-10 22:15:19 +02:00
Tobias Geerinckx-Rice d56eee862b
gnu: qtractor: Update to 0.9.2.
* gnu/packages/music.scm (qtractor): Update to 0.9.2.
[arguments]: Remove obsolete Qt 5.11 workaround.
2018-09-10 22:15:19 +02:00
Leo Famulari 875d068176
Adjust all users of (gnu packages ldc) to use (gnu packages dlang).
This is a followup to commit 98d6543f86.

* gnu/packages/bioinformatics.scm, guix/build-system/dub.scm: Adjust
accordingly.
2018-09-10 15:44:32 -04:00
Marius Bakke c5e4b4cc8f
gnu: Add libabigail.
* gnu/packages/elf.scm (libabigail): New public variable.
2018-09-10 20:27:42 +02:00
Marius Bakke fc449407fe
gnu: python-debian: Update home page.
* gnu/packages/python.scm (python-debian)[home-page]: Set to source
repository.
2018-09-10 20:27:42 +02:00
Marius Bakke 418ec0adc9
gnu: python-libarchive-c: Update to 2.8.
* gnu/packages/python.scm (python-libarchive-c): Update to 2.8.
[arguments]: Replace 'check' phase.
[native-inputs]: Add PYTHON-MOCK and PYTHON-PYTEST.
2018-09-10 20:27:42 +02:00
Marius Bakke ba0052e8ae
gnu: python-tlsh: Update to 3.4.5.
* gnu/packages/python.scm (python-tlsh): Update to 3.4.5.
2018-09-10 20:27:42 +02:00
Marius Bakke 8fe059bf6c
gnu: python-cryptography: Update to 2.3.1.
* gnu/packages/python-crypto.scm (python-cryptography-vectors,
python-cryptography): Update to 2.3.1.
2018-09-10 20:27:42 +02:00
Tobias Geerinckx-Rice 2424d5e56c
gnu: cloc: Update source hash.
The upstream tarball was modified in place. The only changes are:

  --- /gnu/store/5v39h6zjs33hj5dm2yggz5qk0mva00bs-cloc-1.78.tar.gz
  +++ /gnu/store/pm5ghks76vv6awv3969yvi7qxqfnfs1l-cloc-1.78.tar.gz
  ├── filetype from file(1)
  │ @@ -1 +1 @@
  │ -gzip compressed data, last modified: Fri Sep  7 18:22:49 2018, from Unix
  │ +gzip compressed data, last modified: Sat Sep  8 14:09:43 2018, from Unix
  │   --- 5v39h6zjs33hj5dm2yggz5qk0mva00bs-cloc-1.78.tar
  ├── +++ pm5ghks76vv6awv3969yvi7qxqfnfs1l-cloc-1.78.tar
  │ ├── file list
  │ │ @@ -1,13 +1,13 @@
  │ │  -rwxrwxr-x 0 al (1000) al (1000) 545021 2018-09-07 18:21:22 cloc-1.78/cloc
  │ │  -rwxrwxr-x 0 al (1000) al (1000)   1818 2018-09-07 18:21:22 cloc-1.78/sqlite_formatter
  │ │ -drwxrwxr-x 0 al (1000) al (1000)      0 2018-09-07 18:21:22 cloc-1.78/Unix/
  │ │ --rwxrwxr-x 0 al (1000) al (1000) 498571 2018-09-07 18:21:22 cloc-1.78/Unix/cloc
  │ │ +drwxrwxr-x 0 al (1000) al (1000)      0 2018-09-08 14:09:23 cloc-1.78/Unix/
  │ │ +-rwxrwxr-x 0 al (1000) al (1000) 498537 2018-09-08 14:09:22 cloc-1.78/Unix/cloc
  │ │  -rwxrwxr-x 0 al (1000) al (1000)  32382 2018-09-07 18:21:22 cloc-1.78/Unix/t/00_C.t
  │ │  -rwxrwxr-x 0 al (1000) al (1000)  12614 2018-09-07 18:21:22 cloc-1.78/Unix/t/01_opts.t
  │ │  -rw-rw-r-- 0 al (1000) al (1000)    862 2018-09-07 18:21:22 cloc-1.78/Unix/README
  │ ├── cloc-1.78/Unix/cloc
  │ │ @@ -1,8 +1,7 @@
  │ │ -#!/usr/local/perl/5.28.0/bin/perl
  │ │  #!/usr/bin/env perl

* gnu/packages/code.scm (cloc)[source]: Update sha256 hash.
2018-09-10 20:20:00 +02:00
Leo Famulari 254844f22d
gnu: nano: Update to 3.0.
* gnu/packages/nano.scm (nano): Update to 3.0.
2018-09-10 13:54:29 -04:00
Mark H Weaver eb07a6f898
gnu: linux-libre: Update to 4.18.7.
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.7.
(%linux-libre-hash): Update hash.
2018-09-10 13:25:54 -04:00
Mark H Weaver c727ed05ac
gnu: linux-libre@4.14: Update to 4.14.69.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.69.
(%linux-libre-4.14-hash): Update hash.
2018-09-10 13:24:01 -04:00
Mark H Weaver 176999f18e
gnu: linux-libre@4.9: Update to 4.9.126.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.126.
2018-09-10 13:23:20 -04:00
Mark H Weaver d7e9bd15fa
gnu: linux-libre@4.4: Update to 4.4.155.
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.155.
2018-09-10 13:22:35 -04:00
Tobias Geerinckx-Rice 98184e566c
gnu: gnome-mpv: Update to 0.15.
* gnu/packages/video.scm (gnome-mpv): Update to 0.15.
2018-09-10 18:22:00 +02:00
Tobias Geerinckx-Rice 37a2ea118d
gnu: fortify-headers: Update to 1.0.
* gnu/packages/suckless.scm (fortify-headers): Update to 1.0.
2018-09-10 18:22:00 +02:00
Tobias Geerinckx-Rice 7c8b1bf664
gnu: python-genshi: Update to 0.7.1.
* gnu/packages/python-web.scm (python-genshi): Update to 0.7.1.
[source]: Use GIT-FETCH and GIT-FILE-NAME. Remove patches.
* gnu/packages/patches/python-genshi-add-support-for-python-3.4-AST.patch,
gnu/packages/patches/python-genshi-buildable-on-python-2.7.patch,
gnu/packages/patches/python-genshi-disable-speedups-on-python-3.3.patch,
gnu/packages/patches/python-genshi-fix-tests-on-python-3.5.patch,
gnu/packages/patches/python-genshi-isstring-helper.patch,
gnu/packages/patches/python-genshi-stripping-of-unsafe-script-tags.patch:
Delete files.
* gnu/local.mk (dist_patch_DATA): Remove them.
2018-09-10 18:21:59 +02:00
Tobias Geerinckx-Rice 83397e0786
gnu: python-sockjs-tornado: Update to 1.0.5.
* gnu/packages/python-web.scm (python-sockjs-tornado): Update to 1.0.5.
2018-09-10 18:21:59 +02:00
Tobias Geerinckx-Rice 1f7fe26f83
gnu: python-sockjs-tornado: Edit synopsis & description.
* gnu/packages/python-web.scm (python-sockjs-tornado)[synopsis]
[description]: Pick nits.
2018-09-10 18:21:59 +02:00
Pjotr Prins 98d6543f86
gnu: Rename ldc.scm to dlang.scm.
* gnu/packages/ldc.scm: Rename to...
* gnu/packages/dlang.scm: ... this.
* gnu/local.mk (GNU_SYSTEM_MODULES): Adjust accordingly.
2018-09-10 17:47:52 +02:00
Pjotr Prins 633e8aab69
gnu: ldc: Update to 1.10.0.
* gnu/packages/ldc.scm (ldc): Update to 1.10.0.
[native-inputs]: Switch to LLVM and CLANG.
(ldc-bootstrap)[synopsis, description]: Tweak.
* gnu/packages/patches/ldc-disable-phobos-tests.patch: New file.
* gnu/packages/patches/ldc-1.7.0-disable-phobos-tests.patch: Remove.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-10 17:47:52 +02:00
Benjamin Slade f80d6ea251
gnu: Add hstr.
* gnu/packages/shellutils.scm (hstr): New variable.
2018-09-10 17:47:52 +02:00
Alex Kost 8a8662d286
gnu: emacs-guix: Update to 0.5.
* gnu/packages/emacs.scm (emacs-guix): Update to 0.5.
[propagated-inputs]: Add 'guile-gcrypt'.
[arguments]: Adjust #:configure-flags accordingly.
2018-09-10 18:38:32 +03:00
Alex Kost fdf68c232d
gnu: emacs-build-farm: Update to 0.2.1.
* gnu/packages/emacs.scm (emacs-build-farm): Update to 0.2.1.
Change source from gitlab to notabug.
2018-09-10 18:38:32 +03:00
Alex Kost 5d78cf0b6c
gnu: emacs-bui: Update to 1.2.0.
* gnu/packages/emacs.scm (emacs-bui): Update to 1.2.0.
Change source from github to notabug.
2018-09-10 18:38:32 +03:00
Ricardo Wurmus 5bfa7510d1
gnu: Add python-pygenometracks.
* gnu/packages/bioinformatics.scm (python-pygenometracks): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 1189c7f1b0
gnu: Add python-hicexplorer.
* gnu/packages/bioinformatics.scm (python-hicexplorer): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 5bb9e0af8d
gnu: Add python-cooler.
* gnu/packages/bioinformatics.scm (python-cooler): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 80f4db91b1
gnu: Add python-pyfaidx.
* gnu/packages/bioinformatics.scm (python-pyfaidx): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 1f41f01c14
gnu: Add python-pypairix.
* gnu/packages/bioinformatics.scm (python-pypairix): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus a9d496b353
gnu: Add python-intervaltree.
* gnu/packages/bioinformatics.scm (python-intervaltree): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus a6a7156aa9
gnu: Add python-dask.
* gnu/packages/python.scm (python-dask): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 035989c403
gnu: Add python-partd.
* gnu/packages/python.scm (python-partd): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus c27a9d8a88
gnu: Add python-blosc.
* gnu/packages/python.scm (python-blosc): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus b2b8226244
gnu: Add python-locket.
* gnu/packages/python.scm (python-locket): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 930ba31d20
gnu: Add python-cloudpickle.
* gnu/packages/python.scm (python-cloudpickle): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 3d352cb9cf
gnu: Add python-sortedcontainers.
* gnu/packages/python.scm (python-sortedcontainers): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 098cb1e9c4
gnu: Add python-cytoolz.
* gnu/packages/python.scm (python-cytoolz): New variable.
2018-09-10 16:50:26 +02:00
Ricardo Wurmus 7cd51cd28e
gnu: Add python-toolz.
* gnu/packages/python.scm (python-toolz): New variable.
2018-09-10 16:50:25 +02:00
Ricardo Wurmus 943a4cb601
gnu: Add python-multiprocess.
* gnu/packages/python.scm (python-multiprocess): New variable.
2018-09-10 16:50:25 +02:00
Ricardo Wurmus fc62567251
gnu: Add python-dill.
* gnu/packages/python.scm (python-dill): New variable.
2018-09-10 16:50:25 +02:00
Tobias Geerinckx-Rice 82d5c7c6de
gnu: python-typing: Update to 3.6.6.
* gnu/packages/python.scm (python-typing): Update to 3.6.6.
2018-09-10 15:29:13 +02:00
Tobias Geerinckx-Rice 419aa05e1b
gnu: tinyproxy: Update to 1.10.0.
* gnu/packages/web.scm (tinyproxy): Update to 1.10.0.
[native-inputs]: Remove asciidoc.
2018-09-10 15:29:12 +02:00
Tobias Geerinckx-Rice f6c8a97a04
gnu: spectrwm: Update to 3.2.0.
* gnu/packages/wm.scm (spectrwm): Update to 3.2.0.
[arguments]: Remove 'fix-freetype-include' phase.
2018-09-10 15:29:12 +02:00
Mădălin Ionel Patrașcu 57d70dbabc
gnu: Add yad.
* gnu/packages/gtk.scm (yad): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2018-09-10 14:45:15 +02:00
Ludovic Courtès 94b3b6041d
gnu: hpcguix-web: Update to 53e09ea.
* gnu/packages/web.scm (hpcguix-web): Update to 53e09ea.
2018-09-10 12:18:14 +02:00
Ludovic Courtès 81317071fb
services: hpcguix-web: Produce a log file and rotate it.
* gnu/services/web.scm (%hpcguix-web-log-file)
(%hpcguix-web-log-rotations): New variables.
(hpcguix-web-shepherd-service): Pass #:log-file.
(hpcguix-web-service-type): Extend ROTTLOG-SERVICE-TYPE.
2018-09-10 12:12:52 +02:00
Ludovic Courtès 19de8273ee
services: tailon: Move to (gnu services web).
This allows (gnu services admin) to remain deeper in the module graph
and to be used by (gnu services web).

* gnu/services/admin.scm (<tailon-configuration-file>)
(tailon-configuration-files-string)
(tailon-configuration-file-compiler, <tailon-configuration>)
(tailon-shepherd-service, %tailon-accounts)
(tailon-service-type): Move to...
* gnu/services/web.scm: ... here.
* gnu/tests/admin.scm: Remove.  Move test to...
* gnu/tests/web.scm (%tailon-os)
(run-tailon-test, %test-tailon): ... here.
2018-09-10 12:12:50 +02:00
Alex Vong d930374014
gnu: youtube-dl: Update to 2018.08.04.
* gnu/packages/video.scm (youtube-dl): Update to 2018.08.04.
2018-09-10 11:31:34 +02:00
Leo Famulari de15ff1a6c
gnu: Add asignify.
* gnu/packages/crypto.scm (asignify): New variable.
2018-09-09 20:05:47 -04:00
Leo Famulari d4bd2453ec
gnu: certbot: Update to 0.27.1.
* gnu/packages/tls.scm (python-acme): Update to 0.27.1.
[arguments]: Use invoke.
(certbot): Update to 0.27.1.
[native-inputs]: Use python-sphinx-1.6.
2018-09-09 18:52:04 -04:00
Leo Famulari ced98c7e89
gnu: libgd: Fix CVE-2018-{5711,1000222}.
* gnu/packages/patches/gd-CVE-2018-1000222.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/gd.scm (gd/fixed): New variable.
* gnu/packages/php.scm (gd-for-php)[source]: Use 'gd-CVE-2018-1000222.patch'.
2018-09-09 18:13:19 -04:00
Ricardo Wurmus 45350539aa
gnu: r-chron: Update to 2.3-53.
* gnu/packages/statistics.scm (r-chron): Update to 2.3-53.
2018-09-09 22:26:02 +02:00
Ricardo Wurmus ab50580a9d
gnu: r-annotationhub: Update to 2.12.1.
* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.12.1.
2018-09-09 22:26:02 +02:00
Ricardo Wurmus 35c076e619
gnu: r-chippeakanno: Update to 3.14.2.
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.2.
2018-09-09 22:26:02 +02:00
Roel Janssen c36d972531
gnu: Update texmaker to 5.0.2.
* gnu/packages/tex.scm (texmaker): Update to 5.0.2.
2018-09-09 21:59:08 +02:00
Marius Bakke 0084744b3a
gnu: ghostscript: Update replacement to 9.24 [security fixes].
The following CVEs are fixed with this release: CVE-2018-15908,
CVE-2018-15909, CVE-2018-15910, CVE-2018-15911, CVE-2018-16509,
CVE-2018-16510, CVE-2018-16511, CVE-2018-16513, CVE-2018-16539,
CVE-2018-16540, CVE-2018-16541, CVE-2018-16542, CVE-2018-16543.

* gnu/packages/patches/ghostscript-CVE-2018-10194.patch: Delete file.
* gnu/packages/patches/ghostscript-CVE-2018-16509.patch,
gnu/packages/patches/ghostscript-bug-699708.patch: New files.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
* gnu/packages/ghostscript.scm (ghostscript/fixed): Update to 9.24.
[source](patches): Remove 'ghostscript-CVE-2018-10194.patch' and
'ghostscript-runpath.patch'.  Add 'ghostscript-CVE-2018-16509.patch' and
'ghostscript-bug-699708.patch'.
[arguments]: Add LDFLAGS to #:configure-flags, and a phase to create output
directory.
2018-09-09 16:43:11 +02:00
Marius Bakke 910a20e2b8
gnu: jbig2dec: Replace with 0.15 [security fixes].
* gnu/packages/image.scm (jbig2dec-0.15): New public variable.
(jbig2dec)[replacement]: New field.
2018-09-09 16:43:11 +02:00
Marius Bakke a617fd55df
gnu: OpenBLAS: Update source URI.
* gnu/packages/maths.scm (openblas)[source](uri): Use the more stable
SourceForge mirror.
2018-09-09 16:43:11 +02:00
Marius Bakke 1448fa2547
gnu: openal: Update to 1.19.0.
* gnu/packages/audio.scm (openal): Update to 1.19.0.
2018-09-09 16:43:11 +02:00
Marius Bakke e9c1492f66
gnu: glm: Update to 0.9.9.1.
* gnu/packages/maths.scm (glm): Update to 0.9.9.1.
2018-09-09 16:43:10 +02:00
Marius Bakke 91b3a6d4db
gnu: msmtp: Remove unneeded input.
* gnu/packages/mail.scm (msmtp)[inputs]: Remove LIBIDN, which is only required
when using OpenSSL (or GnuTLS sans IDN support).
2018-09-09 16:43:10 +02:00
Marius Bakke 37f9cfae43
gnu: msmtp: Update to 1.8.0.
* gnu/packages/mail.scm (msmtp): Update to 1.8.0.
2018-09-09 16:43:10 +02:00
Marius Bakke 249846bfde
gnu: libsoup: Update to 2.64.0.
* gnu/packages/gnome.scm (libsoup): Update to 2.64.0.
[inputs]: Add LIBPSL.
2018-09-09 16:43:10 +02:00
Marius Bakke 617cf5de92
gnu: mpfr: Update home page.
* gnu/packages/multiprecision.scm (mpfr)[home-page]: Use HTTPS.
2018-09-09 16:43:10 +02:00
Marius Bakke 81bf0fd0d4
gnu: julia: Update objconv input.
* gnu/packages/julia.scm (julia)[inputs]: Update the hash of "objconv", which
does not have a stable URL.  Add a file name and use HTTPS while at it.
2018-09-09 16:43:10 +02:00
Tobias Geerinckx-Rice b64e67ad40
gnu: cloc: Update to 1.78.
* gnu/packages/code.scm (cloc): Update to 1.78.
[source]: Update URI.
2018-09-09 15:01:55 +02:00
Tobias Geerinckx-Rice c2311644a5
gnu: signify: Update to 24.
* gnu/packages/crypto.scm (signify): Update to 24.
2018-09-09 15:01:54 +02:00
Tobias Geerinckx-Rice bb105673b8
gnu: musl: Update to 1.1.20.
* gnu/packages/musl.scm (musl): Update to 1.1.20.
2018-09-09 15:01:54 +02:00
Tobias Geerinckx-Rice bb5e06a35e
gnu: perl-pegex: Update to 0.67.
* gnu/packages/perl.scm (perl-pegex): Update to 0.67.
2018-09-09 15:01:54 +02:00
Tobias Geerinckx-Rice 9ad80992d0
gnu: perl-config-autoconf: Update to 0.317.
* gnu/packages/perl.scm (perl-config-autoconf): Update to 0.317.
2018-09-09 15:01:53 +02:00
Tobias Geerinckx-Rice 15dbc911f6
gnu: perl-extutils-installpaths: Update to 0.012.
* gnu/packages/perl.scm (perl-extutils-installpaths): Update to 0.012.
2018-09-09 15:01:53 +02:00
Tobias Geerinckx-Rice 4e77b75e11
gnu: perl-extutils-helpers: Update to 0.026.
* gnu/packages/perl.scm (perl-extutils-helpers): Update to 0.026.
2018-09-09 15:01:53 +02:00
Tobias Geerinckx-Rice 748e6e1271
gnu: perl-getopt-long-descriptive: Update to 0.103.
* gnu/packages/perl.scm (perl-getopt-long-descriptive): Update to 0.103.
2018-09-09 15:01:53 +02:00
Tobias Geerinckx-Rice 04fc0b9489
gnu: perl-namespace-clean: Update to 0.27.
* gnu/packages/perl.scm (perl-namespace-clean): Update to 0.27.
2018-09-09 15:01:52 +02:00
Tobias Geerinckx-Rice 49e63e3884
gnu: perl-datetime: Update to 1.50.
* gnu/packages/perl.scm (perl-datetime): Update to 1.50.
2018-09-09 15:01:52 +02:00
Tobias Geerinckx-Rice 2d32a6572d
gnu: perl-params-validate: Update to 1.29.
* gnu/packages/perl.scm (perl-params-validate): Update to 1.29.
2018-09-09 15:01:52 +02:00
Tobias Geerinckx-Rice a0fad0374e
gnu: links: Update to 2.17.
* gnu/packages/web-browsers.scm (links): Update to 2.17.
2018-09-09 15:01:52 +02:00
Tobias Geerinckx-Rice b9114ccbad
gnu: aircrack-ng: Update to 1.3.
* gnu/packages/networking.scm (aircrack-ng): Update to 1.3.
[native-inputs]: Add autoconf, automake, libtool, and which.
[inputs]: Add libpcap.
[arguments]: Use conventional --options in #:configure-flags.
Restore ‘configure’ phase. Add ‘patch-evalrev’ and customise ‘bootstrap’
phases. Simplify ‘absolutize-tools’ phase.
2018-09-09 14:50:34 +02:00
Tobias Geerinckx-Rice 6930ea33c9
gnu: aircrack-ng: Use HTTPS.
* gnu/packages/networking.scm (aircrack-ng)[source, home-page]: Use HTTPS.
2018-09-09 14:50:34 +02:00
宋文武 d7f99b3b76
gnu: perl: Improve description.
Fixes <https://bug.gnu.org/32650>.

* gnu/packages/perl.scm (perl)[description]: Use description from 'perlintro'.
2018-09-09 19:11:52 +08:00
Ludovic Courtès 4ab6a2f23d
tests: base: Add Guile-Gcrypt & co. to the search path.
Fixes a regression introduced in
ca71942445, whereby (gcrypt hash) would
not be found in the system under test, leading to a failure of the
"/run/current-system is a GC root" test.

* gnu/tests/base.scm (run-basic-test)[guix&co]: New variable.
[test]: Add all of GUIX&CO to %LOAD-PATH.
2018-09-08 23:02:01 +02:00
Ludovic Courtès e80c725db7
services: nginx: 'stop' returns #f.
Previously we'd return #t, which the Shepherd would consider a failure
to stop the service.

* gnu/services/web.scm (nginx-shepherd-service): In 'nginx-action',
return #f when stopping the service.
2018-09-08 23:02:00 +02:00
Ludovic Courtès 985975ae80
services: nginx: Don't read PID file when passed a custom config file.
Fixes <https://bugs.gnu.org/32665>.

* gnu/services/web.scm (nginx-shepherd-service): Check whether FILE is
true and don't read the PID file if it is; use 'read-pid-file' instead
of a potentially endless loop.
2018-09-08 23:02:00 +02:00
Jan Nieuwenhuizen c665774a1c
gnu: mes: Update to 0.17.1.
* gnu/packages/patches/mes-nyacc-0.86.0.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/mes.scm (mes): Update to 0.17.1, depend on latest Nyacc 0.86.0.
(nyacc-for-mes): Remove.
2018-09-08 20:36:30 +02:00
Jan Nieuwenhuizen 445ecce923
gnu: nyacc: Update to 0.86.0.
* gnu/packages/patches/nyacc-binary-literals.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/mes.scm (nyacc): Update to 0.86.0, add patch.
2018-09-08 20:36:30 +02:00
Benjamin Slade 39b5d8fd9d
gnu: Add frotz, frotz-dumb-terminal, and frotz-sdl.
* gnu/packages/games.scm (frotz, frotz-dumb-terminal, frotz-sdl): New
variables.

Signed-off-by: Kei Kebreau <kkebreau@posteo.net>
2018-09-08 13:41:10 -04:00
Mark H Weaver 090e3768e8
gnu: linux-libre: Update to 4.18.6.
* gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.6.
(%linux-libre-hash): Update hash.
2018-09-07 21:05:14 -04:00
Mark H Weaver 4be8fdd3cc
gnu: linux-libre@4.14: Update to 4.14.68.
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.68.
(%linux-libre-4.14-hash): Update hash.
2018-09-07 21:03:03 -04:00
Mark H Weaver ddb419ce04
gnu: linux-libre@4.9: Update to 4.9.125.
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.125.
2018-09-07 21:02:30 -04:00
Mark H Weaver 48d17ba1d3
gnu: linux-libre@4.4: Update to 4.4.154.
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.154.
2018-09-07 21:01:48 -04:00
Ludovic Courtès 9b6c435564
services: 'instantiate-missing-services' reaches fixed point.
Fixes a bug whereby services indirectly depended on would not be
automatically instantiated.

* gnu/services.scm (instantiate-missing-services): Loop back when the
length of ADJUSTED is greater than that of INSTANCES.
* tests/services.scm ("instantiate-missing-services, indirect"): New test.
2018-09-07 23:00:39 +02:00
Ludovic Courtès 9f1f200c04
gnu: diffoscope: Update to 100.
* gnu/packages/package-management.scm (diffoscope): Update to 100.
2018-09-07 17:59:16 +02:00
Ludovic Courtès afdd1555c4
gnu: indent: Add version 2.2.12.
* gnu/packages/code.scm (indent-2.2.12): New variable.
2018-09-07 17:57:04 +02:00
Ludovic Courtès 6b4f99102c
gnu: gdb: Update to 8.2.
* gnu/packages/gdb.scm (gdb): Update to 8.2.
2018-09-07 17:55:55 +02:00
Ludovic Courtès 15214828a5
gnu: guile-json: Update to 1.2.0.
* gnu/packages/guile.scm (guile-json): Update to 1.2.0.
[license]: Change to GPL3+.
2018-09-07 17:55:51 +02:00
pimi 214452ffd3
gnu: Add r-ggformula.
* gnu/packages/cran.scm (r-ggformula): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
pimi c61f7bc543
gnu: Add r-mosaiccore.
* gnu/packages/cran.scm (r-mosaiccore): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
pimi 77b33e0ede
gnu: Add r-ggstance.
gnu/packages/cran.scm (r-ggstance): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
pimi 12da2a5e58
gnu: Add r-abctools.
* gnu/packages/cran.scm (r-abctools): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
pimi cadc10a513
gnu: Add r-abcrf.
* gnu/packages/cran.scm (r-abcrf): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
pimi 40c10917bc
gnu: Add r-abcp2.
* gnu/packages/cran.scm (r-abcp2): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
Alex Branham 12498b59e7
gnu: emacs-ess: Update to 17.11.
* gnu/packages/emacs.scm (emacs-ess): Update to 17.11
[url]: Use github for https
[snippet]: update julia-mode substitution, only build info doc, bypass failing test
[propagated-inputs]: Add emacs-julia-mode
[description]: Mention that ESS supports Julia and JAGS (which replaces OpenBUGS)
[arguments]: Remove 'set-home' phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-07 11:40:06 +02:00
Ludovic Courtès 1540075c79
vm: Make UUID computation really deterministic.
Fixes <https://bugs.gnu.org/32652>.

* gnu/system/vm.scm (operating-system-uuid)[service-name,
file-system-digest]: New procedures.
Map these over services and file systems and hash the result.
* tests/guix-system.sh: Add test.
2018-09-07 11:40:05 +02:00
Tobias Geerinckx-Rice 0012e0dd56
gnu: knot: Update to 2.7.2.
* gnu/packages/dns.scm (knot): Update to 2.7.2.
2018-09-07 03:01:40 +02:00
Leo Famulari 91cc2a38de
gnu: Wireshark: Update to 2.6.3 [fixes CVE-2018-{14994,16056,16057,16058}].
* gnu/packages/networking.scm (wireshark): Update to 2.6.3.
2018-09-06 17:05:42 -04:00
Leo Famulari 1e066f0706
gnu: curl: Update replacement to 7.61.1 [fixes CVE-2018-14618].
* gnu/packages/curl.scm (curl)[replacement]: Update to 7.61.1.
(curl-7.61.0): Replace variable with ...
(curl-7.61.1): ... new variable.
2018-09-06 17:02:52 -04:00
Kei Kebreau 21f5f351fb
gnu: libgme: Update to 0.6.2.
* gnu/packages/music.scm (libgme): Update to 0.6.2.
[native-inputs]: Add gcc-4.9.
2018-09-06 11:01:52 -04:00
Ludovic Courtès 7df945656c
services: hpcguix-web: Set SSL_CERT_DIR.
Previously Git pulls over HTTPS would fail with:

  guix/git.scm:132:7: In procedure update-cached-checkout:
  Throw to key `git-error' with args `(#<<git-error> code: -17 message: "the SSL certificate is invalid" class: 16>)'.

* gnu/services/web.scm (hpcguix-web-shepherd-service): Pass
"SSL_CERT_DIR=/etc/ssl/certs".
* doc/guix.texi (Web Services): Mention certificates.
2018-09-06 13:49:06 +02:00
Eric Brown f66be84d08
gnu: gfortran, gcc-objc, gcc-objc++: Add version 8.
* gnu/packages/gcc.scm (gfortran-8, gcc-objc-8, gcc-objc++-8): New
variables.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-06 11:12:40 +02:00
Ludovic Courtès b290a631a0
gnu: guile-present: Install .go files to libdir.
* gnu/packages/plotutils.scm (guile-present)[source](modules, snippet):
Remove.
2018-09-06 10:49:42 +02:00
Ludovic Courtès 89874fd156
gnu: guile-charting: Install .go files to libdir.
* gnu/packages/plotutils.scm (guile-charting)[source](modules, snippet):
Remove.
2018-09-06 10:48:44 +02:00
Ludovic Courtès b3ca2d8883
gnu: hpcguix-web: Update to 9ff40fc.
* gnu/packages/web.scm (hpcguix-web): Update to 9ff40fc.
[arguments]: In 'wrap-program' phase, add guile-gcrypt, guile-git, and
guile-bytestructures to DEPS.
2018-09-06 10:46:07 +02:00
Ludovic Courtès 96d6c41dfa
gnu: guile-commonmark: Install .go files to libdir.
* gnu/packages/guile.scm (guile-commonmark)[source](snippet): Change the
"modir = " and "godir = " line separately, allowing .go files to be
installed to $(libdir).
2018-09-06 10:43:01 +02:00
Ricardo Wurmus d53aeeafcc
Add missing use-modules clause.
This is a follow-up to commit 5dfe491290.
Sorry!

* gnu/packages/bioinformatics.scm, gnu/packages/graph.scm: Use (gnu packages
bioconductor).
2018-09-06 04:53:32 +02:00
Tobias Geerinckx-Rice 79b283e433
gnu: ccache: Update to 3.4.3.
* gnu/packages/ccache.scm (ccache): Update to 3.4.3.
[arguments]: Remove obsolete 'munge-failing-test' phase.
2018-09-06 02:33:47 +02:00
Tobias Geerinckx-Rice d83477adf9
gnu: font-fira-code: Update to 1.205.
* gnu/packages/fonts.scm (font-fira-code): Update to 1.205.
2018-09-06 02:33:47 +02:00
Tobias Geerinckx-Rice a5c70c2e0e
gnu: libmpdclient: Update to 2.15.
* gnu/packages/mpd.scm (libmpdclient): Update to 2.15.
2018-09-06 02:33:47 +02:00
Ricardo Wurmus 00a43cb81c
gnu: pigx-scrnaseq: Use latest version of Pandoc.
* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
Ricardo Wurmus c2b4f81e51
gnu: pigx-bsseq: Use latest version of Pandoc.
* gnu/packages/bioinformatics.scm (pigx-bsseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
Ricardo Wurmus 7cd40c8c5d
gnu: pigx-chipseq: Use latest version of Pandoc.
* gnu/packages/bioinformatics.scm (pigx-chipseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
Ricardo Wurmus ca248f1db9
gnu: pigx-rnaseq: Use latest version of Pandoc.
* gnu/packages/bioinformatics.scm (pigx-rnaseq)[inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc", and
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:09 +02:00
Ricardo Wurmus dff5640a59
gnu: r-rcas: Use standard version of ghc-pandoc-citeproc.
* gnu/packages/bioinformatics.scm (r-rcas)[native-inputs]: Replace
"ghc-pandoc-citeproc-with-pandoc-1" with "ghc-pandoc-citeproc".
2018-09-05 20:03:09 +02:00
Ricardo Wurmus f33a4748b7
gnu: r-modelmetrics: Update to 1.2.0.
* gnu/packages/statistics.scm (r-modelmetrics): Update to 1.2.0.
[propagated-inputs]: Add r-data-table.
2018-09-05 20:03:09 +02:00
Ricardo Wurmus 0d279d607a
gnu: r-robustbase: Update to 0.93-2.
* gnu/packages/statistics.scm (r-robustbase): Update to 0.93-2.
2018-09-05 20:03:09 +02:00
Ricardo Wurmus 8e499d756a
gnu: r-rann: Update to 2.6.
* gnu/packages/statistics.scm (r-rann): Update to 2.6.
2018-09-05 20:03:09 +02:00
Ricardo Wurmus 314e8e763f
gnu: r-ggthemes: Update to 4.0.1.
* gnu/packages/statistics.scm (r-ggthemes): Update to 4.0.1.
[propagated-inputs]: Remove r-assertthat and r-colorspace; add r-purrr,
r-stringr, and r-tibble.
2018-09-05 20:03:09 +02:00
Ricardo Wurmus e5db6890ad
gnu: r-ztable: Update to 0.2.0.
* gnu/packages/statistics.scm (r-ztable): Update to 0.2.0.
[propagated-inputs]: Add r-flextable, r-magrittr, r-moonbook, r-officer,
r-rcolorbrewer, r-scales, and r-stringr.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus f0519c8fae
gnu: r-zoo: Update to 1.8-3.
* gnu/packages/statistics.scm (r-zoo): Update to 1.8-3.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus 8da236a377
gnu: r-gtools: Update to 3.8.1.
* gnu/packages/statistics.scm (r-gtools): Update to 3.8.1.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus c28d8d8db0
gnu: r-kernlab: Update to 0.9-27.
* gnu/packages/machine-learning.scm (r-kernlab): Update to 0.9-27.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus c0608f815c
gnu: r-adaptivesparsity: Update to 1.6.
* gnu/packages/machine-learning.scm (r-adaptivesparsity): Update to 1.6.
[propagated-inputs]: Add r-mass and r-matrix.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus a207bca2ad
gnu: r-codedepends: Move from cran to bioconductor.
* gnu/packages/cran.scm (r-codedepends): Move from here...
* gnu/packages/bioconductor.scm (r-codedepends): ...to here.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus 5dfe491290
gnu: r-graph: Move from bioinformatics to bioconductor.
* gnu/packages/bioinformatics.scm (r-graph): Move from here...
* gnu/packages/bioconductor.scm (r-graph): ...to here.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus caaec88651
gnu: r-ggpubr: Update to 0.1.8.
* gnu/packages/cran.scm (r-ggpubr): Update to 0.1.8.
[propagated-inputs]: Add r-glue and r-polynom.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus a9b02ddd73
gnu: r-codedepends: Update to 0.6.5.
* gnu/packages/cran.scm (r-codedepends): Update to 0.6.5.
[propagated-inputs]: Add r-graph.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus 2e6909baf0
gnu: r-later: Update to 0.7.4.
* gnu/packages/cran.scm (r-later): Update to 0.7.4.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus 12132229b0
gnu: r-maptools: Update to 0.9-3.
* gnu/packages/cran.scm (r-maptools): Update to 0.9-3.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus 7a96c4e0a0
gnu: r-fnn: Update to 1.1.2.1.
* gnu/packages/cran.scm (r-fnn): Update to 1.1.2.1.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus 19950821d7
gnu: r-heatmaply: Update to 0.15.2.
* gnu/packages/cran.scm (r-heatmaply): Update to 0.15.2.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus 1fe9919a57
gnu: r-tsa: Update to 1.2.
* gnu/packages/cran.scm (r-tsa): Update to 1.2.
[propagated-inputs]: Remove r-tseries.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus be5642eb69
gnu: r-statnet-common: Update to 4.1.4.
* gnu/packages/cran.scm (r-statnet-common): Update to 4.1.4.
2018-09-05 20:03:08 +02:00
Ricardo Wurmus e32368c130
gnu: r-metap: Update to 1.0.
* gnu/packages/cran.scm (r-metap): Update to 1.0.
[propagated-inputs]: Add r-rdpack.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus d97d98e142
gnu: r-tinytex: Update to 0.8.
* gnu/packages/cran.scm (r-tinytex): Update to 0.8.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus 6f5b157e3d
gnu: r-pillar: Update to 1.3.0.
* gnu/packages/cran.scm (r-pillar): Update to 1.3.0.
[propagated-inputs]: Add r-fansi.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus 69bf449bf1
gnu: r-xts: Update to 0.11-0.
* gnu/packages/cran.scm (r-xts): Update to 0.11-0.
[native-inputs]: Remove.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus 1b3b2a72ee
gnu: r-mice: Update to 3.3.0.
* gnu/packages/cran.scm (r-mice): Update to 3.3.0.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus a7265593d3
gnu: r-pan: Update to 1.6.
* gnu/packages/cran.scm (r-pan): Update to 1.6.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus e7630cc931
gnu: r-jomo: Update to 2.6-4.
* gnu/packages/cran.scm (r-jomo): Update to 2.6-4.
[propagated-inputs]: Add r-ordinal.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus b8f6e2f82a
gnu: Add r-ordinal.
* gnu/packages/cran.scm (r-ordinal): New variable.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus dc66835226
gnu: Add r-ucminf.
* gnu/packages/cran.scm (r-ucminf): New variable.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus 45c156bf81
gnu: r-broom: Update to 0.5.0.
* gnu/packages/cran.scm (r-broom): Update to 0.5.0.
[propagated-inputs]: Add r-backports, r-dplyr, r-purrr, and r-tibble; remove
r-plyr and r-psych.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus 2d2b95d151
gnu: r-ipred: Update to 0.9-7.
* gnu/packages/cran.scm (r-ipred): Update to 0.9-7.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus c73752cac5
gnu: r-pls: Update to 2.7-0.
* gnu/packages/cran.scm (r-pls): Update to 2.7-0.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus b00e8ae771
gnu: r-glue: Update to 1.3.0.
* gnu/packages/cran.scm (r-glue): Update to 1.3.0.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus b72de5b3f6
gnu: r-callr: Update to 3.0.0.
* gnu/packages/cran.scm (r-callr): Update to 3.0.0.
[propagated-inputs]: Add r-base64enc.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus e3c1e93e35
gnu: r-reprex: Update to 0.2.0.
* gnu/packages/cran.scm (r-reprex): Update to 0.2.0.
[propagated-inputs]: Add r-clipr, r-rlang, and r-withr.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus 2cdd9d4f83
gnu: r-reticulate: Update to 1.10.
* gnu/packages/cran.scm (r-reticulate): Update to 1.10.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus cb96d81be4
gnu: r-doby: Update to 4.6-2.
* gnu/packages/cran.scm (r-doby): Update to 4.6-2.
2018-09-05 20:03:07 +02:00
Ricardo Wurmus 589bd1c426
gnu: Add r-flextable.
* gnu/packages/cran.scm (r-flextable): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus 78f2c08c0b
gnu: r-rmarkdown: Use latest version of Pandoc.
* gnu/packages/statistics.scm (r-rmarkdown)[propagated-inputs]: Replace
"ghc-pandoc-1" with "ghc-pandoc".
2018-09-05 20:03:06 +02:00
Ricardo Wurmus f9f4578ba0
Revert "gnu: ghc-tasty: Update to 1.1.0.3."
This reverts commit 3ad6b89090.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus 90708323a1
Revert "gnu: ghc-base-compat: Update to 0.10.4."
This reverts commit 0fa2c552fc.

We may not upgrade base-compat at this point because we haven't upgraded the
default GHC yet.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus 0fd7d59dc3
gnu: Add r-moonbook.
* gnu/packages/cran.scm (r-moonbook): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus aaed237d1b
gnu: Add r-nortest.
* gnu/packages/cran.scm (r-nortest): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus 1f560b9cdb
gnu: Add r-sjmisc.
* gnu/packages/cran.scm (r-sjmisc): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus cfc0631433
gnu: Add r-sjlabelled.
* gnu/packages/cran.scm (r-sjlabelled): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus de059e4bd3
gnu: Add r-prediction.
* gnu/packages/cran.scm (r-prediction): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus bfee9ce88f
gnu: Add r-snakecase.
* gnu/packages/cran.scm (r-snakecase): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus c183fa2688
gnu: Add r-officer.
* gnu/packages/cran.scm (r-officer): New variable.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus 5dbe7aa920
gnu: r-googlesheets: Update to 0.3.0.
* gnu/packages/statistics.scm (r-googlesheets): Update to 0.3.0.
[propagated-inputs]: Add r-tibble.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus 88cb7aa9e7
gnu: r-plotly: Update to 4.8.0.
* gnu/packages/statistics.scm (r-plotly): Update to 4.8.0.
[propagated-inputs]: Add r-promises and r-rlang.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus 195eec737c
gnu: r-matrixstats: Update to 0.54.0.
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.54.0.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus e2a2c3378e
gnu: r-r-rsp: Update to 0.43.0.
* gnu/packages/statistics.scm (r-r-rsp): Update to 0.43.0.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus eefa7c7f3d
gnu: r-r-utils: Update to 2.7.0.
* gnu/packages/statistics.scm (r-r-utils): Update to 2.7.0.
2018-09-05 20:03:06 +02:00
Ricardo Wurmus e926159eb3
gnu: r-e1071: Update to 1.7-0.
* gnu/packages/statistics.scm (r-e1071): Update to 1.7-0.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 2aafa73a94
gnu: r-xml: Update to 3.98-1.16.
* gnu/packages/statistics.scm (r-xml): Update to 3.98-1.16.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 41f6685388
gnu: r-rcpparmadillo: Update to 0.9.100.5.0.
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.100.5.0.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 19cb93be55
gnu: r-git2r: Update to 0.23.0.
* gnu/packages/statistics.scm (r-git2r): Update to 0.23.0.
[native-inputs]: Add pkg-config.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 2848c52c5e
gnu: r-roxygen2: Update to 6.1.0.
* gnu/packages/statistics.scm (r-roxygen2): Update to 6.1.0.
[propagated-inputs]: Add r-pkgload and r-purrr.
[native-inputs]: Add r-knitr.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 9b7e8df85b
gnu: r-ade4: Update to 1.7-13.
* gnu/packages/statistics.scm (r-ade4): Update to 1.7-13.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 7f38b31ecb
gnu: r-xtable: Update to 1.8-3.
* gnu/packages/statistics.scm (r-xtable): Update to 1.8-3.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 6b02569f1d
gnu: r-dbplyr: Update to 1.2.2.
* gnu/packages/statistics.scm (r-dbplyr): Update to 1.2.2.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 3299bc1c5e
gnu: r-yaml: Update to 2.2.0.
* gnu/packages/statistics.scm (r-yaml): Update to 2.2.0.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 2a96a093ec
gnu: r-evaluate: Update to 0.11.
* gnu/packages/statistics.scm (r-evaluate): Update to 0.11.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 3bf390279d
gnu: r-scales: Update to 1.0.0.
* gnu/packages/statistics.scm (r-scales): Update to 1.0.0.
[propagated-inputs]: Remove r-dichromat and r-plyr.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 97c81cc174
gnu: r-stringi: Update to 1.2.4.
* gnu/packages/statistics.scm (r-stringi): Update to 1.2.4.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus e362be8e89
gnu: Add r-pkgload.
* gnu/packages/cran.scm (r-pkgload): New variable.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 4f8247b54b
gnu: Add r-pkgbuild.
* gnu/packages/cran.scm (r-pkgbuild): New variable.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 1ec1989f80
gnu: r-httpuv: Update to 1.4.5.
* gnu/packages/web.scm (r-httpuv): Update to 1.4.5.
[native-inputs]: Add pkg-config.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus f077174178
gnu: r-scran: Update to 1.8.4.
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.8.4.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus 8e44ff0c0d
gnu: r-scater: Update to 1.8.4.
* gnu/packages/bioinformatics.scm (r-scater): Update to 1.8.4.
2018-09-05 20:03:05 +02:00
Ricardo Wurmus e69c07e61a
gnu: r-hdf5array: Update to 1.8.1.
* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.8.1.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 16527f1cbc
gnu: r-ggbio: Update to 1.28.5.
* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.28.5.
[propagated-inputs]: Add r-rlang.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 70daf9362b
gnu: r-biovizbase: Update to 1.28.2.
* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.28.2.
[propagated-inputs]: Add r-rlang.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus ff7c7d62f4
gnu: r-keggrest: Update to 1.20.1.
* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.20.1.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 3c55304688
gnu: r-edaseq: Update to 2.14.1.
* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.14.1.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus eb251fe524
gnu: r-igraph: Update to 1.2.2.
* gnu/packages/graph.scm (r-igraph): Update to 1.2.2.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus c273bcdfce
gnu: r-diffusionmap: Update to 1.1-0.1.
* gnu/packages/graph.scm (r-diffusionmap): Update to 1.1-0.1.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 6f6aef80e3
gnu: r-seurat: Update to 2.3.4.
* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.4.
[source]: Remove snippet.
[arguments]: Remove.
[native-inputs]: Remove.
[propagated-inputs]: Remove r-caret, r-diffusionmap, r-fnn, r-gdata, r-ranger,
r-stringr, r-tclust, and rvgam; add r-httr.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 07bd90ce90
gnu: r-msnbase: Update to 2.6.3.
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.6.3.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 4ee8c37cca
gnu: r-maldiquant: Update to 1.18.
* gnu/packages/bioinformatics.scm (r-maldiquant): Update to 1.18.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 48b21f8b6b
gnu: r-seqminer: Update to 6.1.
* gnu/packages/bioinformatics.scm (r-seqminer): Update to 6.1.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus ad2ed8d01f
gnu: r-genomicfeatures: Update to 1.32.2.
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.32.2.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus f2e79823c6
gnu: r-rtracklayer: Update to 1.40.6.
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.40.6.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus aea1b6fb8a
gnu: r-delayedarray: Update to 0.6.5.
* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.6.5.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 3e61c2a8b1
gnu: r-rsamtools: Update to 1.32.3.
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 1.32.3.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus a02340058c
gnu: r-biocparallel: Update to 1.14.2.
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.14.2.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 1d56c79f86
gnu: r-genomicranges: Update to 1.32.6.
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.32.6.
2018-09-05 20:03:04 +02:00
Ricardo Wurmus 688cb08527
gnu: r-limma: Update to 3.36.3.
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.36.3.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 33a103a543
gnu: r-variantannotation: Update to 1.26.1.
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.26.1.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 1adf4596a6
gnu: r-edger: Update to 3.22.3.
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.22.3.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 5728d9c6c0
gnu: r-iranges: Update to 2.14.11.
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.14.11.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 3c04375614
gnu: r-biocviews: Update to 1.48.3.
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.48.3.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus ce0e762bf9
gnu: r-annotationforge: Update to 1.22.2.
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.22.2.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 65050163e0
gnu: r-chippeakanno: Update to 3.14.1.
* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.1.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 88e4ed55d6
gnu: Add r-clipr.
* gnu/packages/cran.scm (r-clipr): New variable.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 6a8469755c
gnu: Add r-rdpack.
* gnu/packages/cran.scm (r-rdpack): New variable.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus dd954dd743
gnu: Add r-gbrd.
* gnu/packages/cran.scm (r-gbrd): New variable.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 53718658d2
gnu: Add r-polynom.
* gnu/packages/cran.scm (r-polynom): New variable.
2018-09-05 20:03:03 +02:00
Ricardo Wurmus 356230da4a
gnu: Add r-fansi.
* gnu/packages/cran.scm (r-fansi): New variable.
2018-09-05 20:03:03 +02:00
Ludovic Courtès 3b0153bd82
gnu: guix-daemon: Add dependency on Guile-Gcrypt.
This is a followup to 53166aec98, which
made Guile-Gcrypt a hard dependency.

* gnu/packages/package-management.scm (guix-daemon)[inputs]: Add
GUILE-GCRYPT.
2018-09-05 15:48:04 +02:00
Ludovic Courtès 7903f00a74
gnu: cuirass: Add dependency on Guile-Gcrypt.
This is a followup to 53166aec98, which
added a hard dependency of Guix on Guile-Gcrypt.

* gnu/packages/ci.scm (cuirass)[inputs]: Add GUILE-GCRYPT.
[arguments]: In 'wrap-program' phase, use 'string-join' to compute
'mods'.  Define 'objs' for use in GUILE_LOAD_COMPILED_PATH, and take
objects from lib/guile/X.Y/site-ccache.
2018-09-05 15:35:54 +02:00
Ludovic Courtès 5e3082df1c
gnu: guile-fibers: Install .go files to "…/site-ccache".
* gnu/packages/guile.scm (guile-fibers)[arguments]: New field.
2018-09-05 15:35:54 +02:00
Eric Bavier 3f5e6ccf9b
slepc: Upgrade to 3.9.2.
* gnu/packages/maths.scm (slepc): Upgrade to 3.9.2.
2018-09-05 08:10:38 -05:00
Eric Bavier c15be1280e
petsc: Upgrade to 3.9.3.
* gnu/packages/maths.scm (petsc): Upgrade to 3.9.3.
[arguments]: Remove unnecessary configure flags.
2018-09-05 08:10:37 -05:00
Eric Bavier a3a99e27bb
petsc: Move example code to "examples" output.
* gnu/packages/maths.scm (petsc)[arguments]: New 'move-examples' phase.
2018-09-05 08:10:37 -05:00
Eric Bavier b26e4f26ff
gnu: Add SUNDIALS.
* gnu/packages/maths.scm (sundials, sundials-openmpi): New variables.
2018-09-05 08:10:31 -05:00
Alex Vong 296f091b48
gnu: packages: mp3: Use HTTPS where possible.
* gnu/packages/mp3.scm (libmad)[home-page]: Use HTTPS.
(libid3tag)[home-page]: Likewise.
(mp3info)[source, home-page]: Likewise.
(mpg123)[source]: Likewise.
(libmpcdec)[source, home-page]: Likewise.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-09-05 20:56:55 +08:00
Alex Vong 998100e6e8
gnu: eyed3: Update home page.
* gnu/packages/mp3.scm (eyed3)[home-page]: Update to redirected HTTPS URL.

Signed-off-by: 宋文武 <iyzsong@member.fsf.org>
2018-09-05 20:56:55 +08:00
Ludovic Courtès 53166aec98
gnu: guix: Update to 3d43017.
* gnu/packages/package-management.scm (guix): Update to 3d43017.
2018-09-05 14:31:48 +02:00
Ludovic Courtès 185948b8a8
gnu: xorg: Fix typo.
* gnu/packages/xorg.scm: Fix typo in Benjamin's email address.
2018-09-05 13:57:43 +02:00
Ricardo Wurmus 4fd2622df8
gnu: python-tables: Update to 3.4.4.
* gnu/packages/python.scm (python-tables): Update to 3.4.4.
2018-09-05 12:01:23 +02:00
Ricardo Wurmus 8afdeb8751
gnu: python-pybigwig: Update to 0.3.12.
* gnu/packages/bioinformatics.scm (python-pybigwig): Update to 0.3.12.
[propagated-inputs]: Add python-numpy.
2018-09-05 12:01:23 +02:00
Ricardo Wurmus 0d7974c376
gnu: libbigwig: Update to 0.4.2.
* gnu/packages/bioinformatics.scm (libbigwig): Update to 0.4.2.
[source]: Fetch from git.
[arguments]: Disable tests; remove build phases "disable-curl-test" and
"create-target-dirs".
[native-inputs]: Add python-2.
2018-09-05 12:01:23 +02:00
Ricardo Wurmus ca1dc4c76a
gnu: nss-pam-ldapd: Update to 0.9.10.
* gnu/packages/openldap.scm (nss-pam-ldapd): Update to 0.9.10.
2018-09-05 11:44:52 +02:00
Rutger Helling fefe17b088
gnu: dolphin-emu: Update to commit 5f0d825.
* gnu/packages/emulators.scm (dolphin-emu): Update to commit 5f0d825.
2018-09-05 10:23:20 +02:00
Leo Famulari fcf4841c0e
gnu: Zsh: Patch some tests that began failing in 5.6.
* gnu/packages/shells.scm (zsh)[arguments]: Patch the tests rather than deleting
them.
2018-09-04 18:34:01 -04:00
Leo Famulari 95681e5586
gnu: Zsh: Update to 5.6 [fixes CVE-2018-{0502,13259}].
* gnu/packages/shells.scm (zsh): Update to 5.6.
[arguments]: Skip some tests.
2018-09-04 18:10:53 -04:00
Ludovic Courtès ca71942445
Switch to Guile-Gcrypt.
This removes (guix hash) and (guix pk-crypto), which now live as part of
Guile-Gcrypt (version 0.1.0.)

* guix/gcrypt.scm, guix/hash.scm, guix/pk-crypto.scm,
tests/hash.scm, tests/pk-crypto.scm: Remove.
* configure.ac: Test for Guile-Gcrypt.  Remove LIBGCRYPT and
LIBGCRYPT_LIBDIR assignments.
* m4/guix.m4 (GUIX_ASSERT_LIBGCRYPT_USABLE): Remove.
* README: Add Guile-Gcrypt to the dependencies; move libgcrypt as
"required unless --disable-daemon".
* doc/guix.texi (Requirements): Likewise.
* gnu/packages/bash.scm, guix/derivations.scm, guix/docker.scm,
guix/git.scm, guix/http-client.scm, guix/import/cpan.scm,
guix/import/cran.scm, guix/import/crate.scm, guix/import/elpa.scm,
guix/import/gnu.scm, guix/import/hackage.scm,
guix/import/texlive.scm, guix/import/utils.scm, guix/nar.scm,
guix/pki.scm, guix/scripts/archive.scm,
guix/scripts/authenticate.scm, guix/scripts/download.scm,
guix/scripts/hash.scm, guix/scripts/pack.scm,
guix/scripts/publish.scm, guix/scripts/refresh.scm,
guix/scripts/substitute.scm, guix/store.scm,
guix/store/deduplication.scm, guix/tests.scm, tests/base32.scm,
tests/builders.scm, tests/challenge.scm, tests/cpan.scm,
tests/crate.scm, tests/derivations.scm, tests/gem.scm,
tests/nar.scm, tests/opam.scm, tests/pki.scm,
tests/publish.scm, tests/pypi.scm, tests/store-deduplication.scm,
tests/store.scm, tests/substitute.scm: Adjust imports.
* gnu/system/vm.scm: Likewise.
(guile-sqlite3&co): Rename to...
(gcrypt-sqlite3&co): ... this.  Add GUILE-GCRYPT.
(expression->derivation-in-linux-vm)[config]: Remove.
(iso9660-image)[config]: Remove.
(qemu-image)[config]: Remove.
(system-docker-image)[config]: Remove.
* guix/scripts/pack.scm: Adjust imports.
(guile-sqlite3&co): Rename to...
(gcrypt-sqlite3&co): ... this.  Add GUILE-GCRYPT.
(self-contained-tarball)[build]: Call 'make-config.scm' without
 #:libgcrypt argument.
(squashfs-image)[libgcrypt]: Remove.
[build]: Call 'make-config.scm' without #:libgcrypt.
(docker-image)[config, json]: Remove.
[build]: Add GUILE-GCRYPT to the extensions  Remove (guix config) from
the imported modules.
* guix/self.scm (specification->package): Remove "libgcrypt", add
"guile-gcrypt".
(compiled-guix): Remove #:libgcrypt.
[guile-gcrypt]: New variable.
[dependencies]: Add it.
[*core-modules*]: Remove #:libgcrypt from 'make-config.scm' call.
Add #:extensions.
[*config*]: Remove #:libgcrypt from 'make-config.scm' call.
(%dependency-variables): Remove %libgcrypt.
(make-config.scm): Remove #:libgcrypt.
* build-aux/build-self.scm (guile-gcrypt): New variable.
(make-config.scm): Remove #:libgcrypt.
(build-program)[fake-gcrypt-hash]: New variable.
Add (gcrypt hash) to the imported modules.  Adjust load path
assignments.
* gnu/packages/package-management.scm (guix)[propagated-inputs]: Add
GUILE-GCRYPT.
[arguments]: In 'wrap-program' phase, add GUILE-GCRYPT to the search
path.
2018-09-04 17:25:11 +02:00
Alex Vong 1bf758767d
gnu: Add emacs-picpocket.
* gnu/packages/emacs.scm (emacs-picpocket): New public variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-04 15:39:43 +02:00
Paul Garlick 71ca16b58d
gnu: petsc-openmpi: Configure with support for hdf5 data format.
* gnu/packages/maths.scm (petsc-openmpi)[inputs]: Add
hdf5-parallel-openmpi.
[arguments]: Add '--with-hdf5-include' and '--with-hdf5-lib'
flags.  Add 'set-test-environment' phase.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-04 15:22:48 +02:00
Jonathan Brielmaier b50658fe8a
gnu: kicad: Update to 5.0.0.
* gnu/packages/engineering.scm (kicad): Update to 5.0.0.
[source]: Change from git to url-fetch.
[arguments]: Remove now unneeded build version parameter.
[inputs]: Add opencascade-oce.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-04 15:02:59 +02:00
Arun Isaac 906a396bff
gnu: ghc-zlib: Enable tests.
* gnu/packages/haskell.scm (ghc-zlib)[arguments]: Enable tests. Allow building
with newer tasty.
[native-inputs]: Add ghc-quickcheck, ghc-tasty, ghc-tasty-hunit and
ghc-tasty-quickcheck.
2018-09-04 17:31:09 +05:30
Arun Isaac 6300ba5b66
gnu: ghc-integer-logarithms: Allow building with newer tasty.
* gnu/packages/haskell.scm (ghc-integer-logarithms)[arguments]: Allow building
with newer tasty.
2018-09-04 15:24:32 +05:30
Arun Isaac 8374cc4b05
gnu: ghc-tasty-ant-xml: Update to 1.1.4.
* gnu/packages/haskell-check.scm (ghc-tasty-ant-xml): Update to 1.1.4.
2018-09-04 15:21:56 +05:30
Arun Isaac 3ad6b89090
gnu: ghc-tasty: Update to 1.1.0.3.
* gnu/packages/haskell-check.scm (ghc-tasty): Update to 1.1.0.3.
[inputs]: Add ghc-wcwidth.
(ghc-attoparsec-bootstrap, ghc-integer-logarithms-bootstrap,
ghc-scientific-bootstrap): New variables.
(ghc-wcwidth)[inputs]: Replace ghc-attoparsec with ghc-attoparsec-bootstrap.
(ghc-scientific)[inputs]: Replace ghc-integer-logarithms with
ghc-integer-logarithms-bootstrap.
(ghc-attoparsec)[inputs]: Replace ghc-scientific with
ghc-scientific-bootstrap.
2018-09-04 12:15:17 +05:30
Arun Isaac 9c4b522f15
gnu: Add ghc-wcwidth.
* gnu/packages/haskell.scm (ghc-wcwidth): New variable.
2018-09-04 12:15:10 +05:30
Ludovic Courtès fd95f37f36
Revert "gnu: perl: Add support for cross-compilation"
This reverts commit 5108c18e7e, which was
accidentally committed.
2018-09-03 23:49:12 +02:00
Raphaël Mélotte 5108c18e7e
gnu: perl: Add support for cross-compilation
* gnu/packages/perl.scm (perl): use cross-libc when cross-compiling

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-03 23:41:08 +02:00
Benjamin Slade 38fe6449c0
gnu: Add transset-df.
* gnu/packages/xorg.scm (transset-df): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-03 23:40:23 +02:00
Marius Bakke c702749dfd
gnu: arpack-ng: Update to 3.6.2.
* gnu/packages/maths.scm (arpack-ng): Update to 3.6.2.
2018-09-03 19:09:01 +02:00
Marius Bakke 91bb495b85
gnu: arpack-ng: Drop redundant phase.
* gnu/packages/maths.scm (arpack-ng)[arguments]: Remove.
2018-09-03 19:09:01 +02:00
Marius Bakke 1f7d142000
gnu: python-matplotlib: Update to 2.2.3.
* gnu/packages/python.scm (python-matplotlib): Update to 2.2.3.
2018-09-03 19:09:00 +02:00
Marius Bakke cbd7c65709
gnu: ppp: Return #t from all phases.
* gnu/packages/samba.scm (ppp)[arguments]: Return #t from phase.
2018-09-03 18:58:47 +02:00
Marius Bakke 84aa18ff7f
gnu: re2: Update to 2018-09-01.
* gnu/packages/regex.scm (re2): Update to 2018-09-01.
2018-09-03 18:58:47 +02:00
Marius Bakke fcde1d27bb
gnu: openexr: Update to 2.3.0.
* gnu/packages/graphics.scm (openexr): Update to 2.3.0.
[source](uri): Change to new download location.
[source](snippet): Remove workaround.
[source](patches): Remove.
* gnu/packages/patches/openexr-missing-samples.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2018-09-03 18:58:47 +02:00
Marius Bakke 1ae2c577a6
gnu: ilmbase: Update to 2.3.0.
* gnu/packages/graphics.scm (ilmbase): Update to 2.3.0.
[source](uri): Change to new download location.
2018-09-03 18:58:46 +02:00
Marius Bakke 9156206199
gnu: simplescreenrecorder: Build against modular Qt.
* gnu/packages/video.scm (simplescreenrecorder)[inputs]: Remove QT.  Add
QTBASE and QTX11EXTRAS.
2018-09-03 18:58:46 +02:00
Marius Bakke 65e686d6cb
Merge branch 'security-updates' 2018-09-03 18:58:20 +02:00
Efraim Flashner a5896da34e
gnu: gnu-pw-mgr: Update to 2.4.2.
* gnu/packages/gnu-pw-mgr.scm (gnu-pw-mgr): Update to 2.4.2.
2018-09-03 19:34:24 +03:00
Tobias Geerinckx-Rice 38a8cd329d
gnu: python-nbxmpp: Update to 0.6.7.
* gnu/packages/messaging.scm (python-nbxmpp): Update to 0.6.7.
2018-09-03 18:21:43 +02:00
Tobias Geerinckx-Rice b619b7f67b
gnu: libircclient: Update to 1.10.
* gnu/packages/messaging.scm (libircclient): Update to 1.10.
2018-09-03 18:21:43 +02:00
Tobias Geerinckx-Rice cfcfc6ab62
Fix some typos.
* doc/guix.texi (Sound Services, DNS Services): Fix typos.
* gnu/packages/cpp.scm (json-modern-cxx)[description]: Likewise.
* gnu/packages/emacs.scm (emacs-fancy-narrow)[synopsis, description]:
Likewise. Edit & mark up while we're here.
* gnu/packages/mail.scm (alot)[synopsis, description]: Ditto.
2018-09-03 18:21:43 +02:00
Tobias Geerinckx-Rice fb458bf3bc
gnu: sudo: Update to 1.8.25.
* gnu/packages/admin.scm (sudo): Update to 1.8.25.
2018-09-03 18:21:42 +02:00
Efraim Flashner 0cc6447669
gnu: python-efl: Update to 1.21.0.
* gnu/packages/enlightenment.scm (python-efl): Update to 1.21.0.
[source]: Don't use pypi source.
[arguments]: Delete network tests.
2018-09-03 17:32:44 +03:00
Efraim Flashner 290bef39f6
gnu: efl: Update to 1.21.0.
* gnu/packages/enlightenment.scm (efl): Update to 1.21.0.
2018-09-03 17:32:44 +03:00
Ricardo Wurmus 02ddafef55
gnu: python-scipy: Disable broken tests.
* gnu/packages/python.scm (python-scipy)[arguments]: Skip two broken tests.
2018-09-03 13:49:32 +02:00
Rutger Helling 26baaaf49b
gnu: c-toxcore: Update to 0.2.7.
* gnu/packages/messaging.scm (c-toxcore): Update to 0.2.7.
2018-09-03 08:22:51 +02:00
Rutger Helling aa613d71ec
gnu: openrct2: Update to 0.2.1.
* gnu/packages/games.scm (openrct2-objects): Update to 1.0.6.
* gnu/packages/games.scm (openrct2): Update to 0.2.1.
2018-09-03 08:22:50 +02:00
Efraim Flashner 647465ace9
gnu: jellyfish: Update to 2.2.10.
* gnu/packages/bioinformatics.scm (jellyfish): Update to 2.2.10.
[supported-systems]: Add aarch64-linux, mips64el-linux.
2018-09-03 08:32:33 +03:00
Oleg Pykhalov 3910977823
gnu: monitoring.scm: Fix copyright line.
This is a follow-up to ead46692ec.
2018-09-02 19:18:16 +03:00
Alex Vong 2bd6ed9e4c
gnu: haskell-mode: Fix test failure.
Fixes <https://bugs.gnu.org/31726>.

Thanks to Jack Hill <jackhill@jackhill.us> for exploring different solutions
at <https://debbugs.gnu.org/cgi/bugreport.cgi?bug=31726>.

* gnu/packages/patches/haskell-mode-unused-variables.patch,
gnu/packages/patches/haskell-mode-make-check.patch: New files.
* gnu/local.mk (dist_patch_DATA): Add them.
* gnu/packages/emacs.scm (haskell-mode)[source]: Use them.
[arguments]: Adjust 'pre-build' phase to embed file name.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-09-02 17:06:43 +02:00
Konrad Hinsen b21a55a9f2
gnu: emacs-helpful: Update to 0.13.
* gnu/packages/emacs.scm (emacs-helpful): Update to 0.13.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-02 16:58:06 +02:00
Konrad Hinsen 351b6463af
gnu: emacs-elisp-refs: Update to 1.3.
* gnu/packages/emacs.scm (emacs-elisp-refs): Update to 1.3.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2018-09-02 16:56:22 +02:00
Ludovic Courtès fe634eaf93
Add (guix describe) and use it to initialize '%package-search-path'.
* guix/describe.scm: New file.
* Makefile.am (MODULES): Add it.
* gnu/packages.scm (%default-package-module-path): New variable.
(%package-module-path): Honor 'package-path-entries'.
* build-aux/update-NEWS.scm (main): Use %DEFAULT-PACKAGE-MODULE-PATH
instead of (last (%package-module-path)).
2018-09-02 16:43:10 +02:00
Rutger Helling 87284c6b48
gnu: wine-staging: Update to 3.15.
* gnu/packages/wine.scm (wine-staging): Update to 3.15.
2018-09-02 08:53:03 +02:00
Rutger Helling ab2e38e206
gnu: wine-staging-patchset-data: Update to 3.15.
* gnu/packages/wine.scm (wine-staging-patchset-data): Update to 3.15.
2018-09-02 08:53:03 +02:00
宋文武 9bf98520f2
gnu: rosegarden: Update to 18.06.
* gnu/packages/music.scm (rosegarden): Update to 18.06.
[home-page]: Use HTTPS.
2018-09-02 13:18:28 +08:00
Danny Milosavljevic 24d298b459
gnu: rust: Move rust-1.19 down. 2018-09-02 00:22:53 +02:00
Danny Milosavljevic 3159ef7c99
gnu: rust: Bootstrap (only) Rust 1.19.0 by mrustc.
* gnu/packages/patches/rust-1.19-mrustc.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/rust.scm (rust-1.19)[source]: Add patch
"rust-1.19-mrustc.patch".
[arguments]<#:modules>: New field.
<#:phases>[patch-cargo-tomls]: New phase.
<#:phases>[build]: Modify.
<#:phases>[install]: Modify.
[native-inputs]: Replace rust-bootstrap by mrustc.
(rust-1.23)[native-inputs]: New field.
[arguments]<#:phases>: Delete phase "patch-cargo-tomls".
2018-09-02 00:09:34 +02:00
Manuel Graf a0a273c1ee
gnu: Add perftest.
* gnu/packages/linux.scm (perftest): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-09-01 17:51:29 -04:00
Julien Lepiller 37a0f47073
gnu: Add ruby-jekyll-paginate-v2.
* gnu/packages/ruby.scm (ruby-jekyll-paginate-v2): New variable.
2018-09-01 23:09:14 +02:00
Julien Lepiller 49e1dde53f
gnu: Add jekyll.
* gnu/packages/ruby.scm (jekyll): New variable.
2018-09-01 23:09:09 +02:00
Julien Lepiller 3729611379
gnu: Add ruby-pathutil.
* gnu/packages/ruby.scm (ruby-pathutil): New variable.
2018-09-01 23:09:06 +02:00
Julien Lepiller 49395112c4
gnu: Add ruby-forwardable-extended.
* gnu/packages/ruby.scm (ruby-forwardable-extended): New variable.
2018-09-01 23:09:04 +02:00
Julien Lepiller a13d451e18
gnu: Add ruby-liquid.
* gnu/packages/ruby.scm (ruby-liquid): New variable.
2018-09-01 23:09:02 +02:00
Julien Lepiller f1ec4d7611
gnu: Add ruby-mercenary.
* gnu/packages/ruby.scm (ruby-mercenary): New variable.
2018-09-01 23:09:00 +02:00
Julien Lepiller f8ae2ee528
gnu: Add ruby-safe-yaml.
* gnu/packages/ruby.scm (ruby-safe-yaml): New variable.
2018-09-01 23:08:58 +02:00
Julien Lepiller 73bfc125ef
gnu: Add ruby-heredoc-unindent.
* gnu/packages/ruby.scm (ruby-heredoc-unindent): New variable.
2018-09-01 23:08:56 +02:00
Julien Lepiller 2e072e37aa
gnu: Add ruby-hashie.
* gnu/packages/ruby.scm (ruby-hashie): New variable.
2018-09-01 23:08:55 +02:00
Julien Lepiller 2c5028bd97
gnu: Add ruby-rouge-2.
* gnu/packages/ruby.scm (ruby-rouge-2): New variable.
2018-09-01 23:08:53 +02:00
Julien Lepiller 4ce0414bca
gnu: Add ruby-rouge.
* gnu/packages/ruby.scm (ruby-rouge): New variable.
2018-09-01 23:08:46 +02:00
Julien Lepiller 5e2f74bdb8
gnu: Add ruby-em-websocket.
* gnu/packages/ruby.scm (ruby-em-websocket): New variable.
2018-09-01 23:08:44 +02:00
Julien Lepiller fa0063bcf4
gnu: Add ruby-http-parser.rb.
* gnu/packages/ruby.scm (ruby-http-parser.rb): New variable.
2018-09-01 23:08:42 +02:00
Julien Lepiller 0312706955
gnu: Add ruby-kramdown.
* gnu/packages/ruby.scm (ruby-kramdown): New variable.
2018-09-01 23:08:40 +02:00
Julien Lepiller 197ca8ecd2
gnu: Add ruby-prawn-table.
* gnu/packages/ruby.scm (ruby-prawn-table): New variable.
2018-09-01 23:08:38 +02:00
Julien Lepiller 7ad8dd086c
gnu: Add ruby-prawn.
* gnu/packages/ruby.scm (ruby-prawn): New variable.
2018-09-01 23:08:36 +02:00
Julien Lepiller 37fbced73c
gnu: Add ruby-yard.
* gnu/packages/ruby.scm (ruby-yard): New variable.
2018-09-01 23:08:34 +02:00
Julien Lepiller 770e3b535e
gnu: Add ruby-pdf-core.
* gnu/packages/ruby.scm (ruby-pdf-core): New variable.
2018-09-01 23:08:31 +02:00
Julien Lepiller 461fb8598e
gnu: Add ruby-pdf-inspector.
* gnu/packages/ruby.scm (ruby-pdf-inspector): New variable.
2018-09-01 23:08:29 +02:00
Julien Lepiller abbe629c6a
gnu: Add ruby-pdf-reader.
* gnu/packages/ruby.scm (ruby-pdf-reader): New variable.
2018-09-01 23:08:27 +02:00
Julien Lepiller 00d71efca6
gnu: Add ruby-morecane.
* gnu/packages/ruby.scm (ruby-morecane): New variable.
2018-09-01 23:08:10 +02:00
Julien Lepiller 83d9f67221
gnu: Add ruby-cane.
* gnu/packages/ruby.scm (ruby-cane): New variable.
2018-09-01 23:08:06 +02:00
Julien Lepiller 3224a5a84a
gnu: Add ruby-parallel.
* gnu/packages/ruby.scm (ruby-parallel): New variable.
2018-09-01 23:08:04 +02:00
Julien Lepiller ceac6f6f5b
gnu: Add ruby-jekyll-watch.
* gnu/packages/ruby.scm (ruby-jekyll-watch): New variable.
2018-09-01 23:08:02 +02:00
Julien Lepiller 88ed727fc5
gnu: Add ruby-listen-3.0.
* gnu/packages/ruby.scm (ruby-listen-3.0): New variable.
2018-09-01 23:08:00 +02:00
Julien Lepiller 5e242cb44c
gnu: Add ruby-jekyll-sass-converter.
* gnu/packages/ruby.scm (ruby-jekyll-sass-converter): New variable.
2018-09-01 23:07:58 +02:00
Julien Lepiller f00f449223
gnu: Add ruby-sass.
* gnu/packages/ruby.scm (ruby-sass): New variable.
2018-09-01 23:07:56 +02:00
Julien Lepiller 6456beef01
gnu: Add ruby-sass-spec.
* gnu/packages/ruby.scm (ruby-sass-spec): New variable.
2018-09-01 23:07:54 +02:00
Julien Lepiller ddc3a66798
gnu: Add ruby-diffy.
* gnu/packages/ruby.scm (ruby-diffy): New variable.
2018-09-01 23:07:52 +02:00
Julien Lepiller 0c8eedc153
gnu: Add ruby-terminfo.
* gnu/packages/ruby.scm (ruby-terminfo): New variable.
2018-09-01 23:07:50 +02:00
Julien Lepiller 18077ffc46
gnu: Add ruby-sass-listen.
* gnu/packages/ruby.scm (ruby-sass-listen): New variable.
2018-09-01 23:07:48 +02:00
Julien Lepiller 6bba8ecf7b
gnu: Add ruby-rdoc.
* gnu/packages/ruby.scm (ruby-rdoc): New variable.
2018-09-01 23:07:46 +02:00
Julien Lepiller f22c038799
gnu: Add ruby-command-line-reporter-3.
* gnu/packages/ruby.scm (ruby-command-line-reporter-3): New variable.
2018-09-01 23:07:44 +02:00
Julien Lepiller 78b9c291f6
gnu: Add ruby-command-line-reporter.
* gnu/packages/ruby.scm (ruby-command-line-reporter): New variable.
2018-09-01 23:07:42 +02:00
Julien Lepiller 9c7f15c048
gnu: Add ruby-colorator.
* gnu/packages/ruby.scm (ruby-colorator): New variable.
2018-09-01 23:07:39 +02:00
Julien Lepiller 6f2c4efb56
gnu: Add ruby-addressable.
* gnu/package/ruby.scm (ruby-addressable): New variable.
2018-09-01 23:07:37 +02:00
Julien Lepiller 0d16905b60
gnu: Add ruby-public-suffix.
* gnu/packages/ruby.scm (ruby-public-suffix): New variable.
2018-09-01 23:07:35 +02:00
Julien Lepiller afb7a3e8d5
gnu: ruby-ttfunk: Update to 1.5.1.
* gnu/packages/ruby.scm (ruby-ttfunk): Update to 1.5.1.
2018-09-01 23:07:32 +02:00
Julien Lepiller ef381322d5
gnu: ruby-activesupport: Update to 5.2.1.
* gnu/packages/ruby.scm (ruby-activesupport): Update to 5.2.1.
2018-09-01 23:07:30 +02:00
Julien Lepiller cbb50182ad
gnu: ruby-i18n: Update to 1.1.0.
* gnu/packages/ruby.scm (ruby-i18n): Update to 1.1.0.
2018-09-01 23:07:28 +02:00
Julien Lepiller 352b5d7e74
gnu: Add ruby-concurrent.
* gnu/packages/ruby.scm (ruby-concurrent): New variable.
2018-09-01 23:07:06 +02:00
Oleg Pykhalov ead46692ec
gnu: Add zabbix-agentd and zabbix-server.
* gnu/packages/monitoring.scm (zabbix-agentd, zabbix-server): New variables.
2018-09-01 19:01:36 +03:00
Marius Bakke e59588482b
gnu: nss, nss-certs: Update to 3.39 [fixes CVE-2018-12384].
* gnu/packages/gnuzilla.scm (nss): Update to 3.39.
* gnu/packages/certs.scm (nss-certs): Likewise.
2018-09-01 13:26:13 +02:00
Marius Bakke 7ea90c217f
gnu: nspr: Update to 4.20.
* gnu/packages/gnuzilla.scm (nspr): Update to 4.20.
2018-09-01 13:23:39 +02:00
Leo Famulari ea59f0487b
gnu: Remove Krita 3.
Krita 3 fails to build with Qt 5.11.1. Since it's also unmaintained upstream,
remove it.

* gnu/packages/kde.scm (krita-3): Remove variable.
2018-09-01 02:09:53 -04:00
Leo Famulari fd67d793c2
gnu: Krita: Build with libraw 0.18.
Fixes <https://bugs.gnu.org/32467>.

Reported by Björn Höfling <bjoern.hoefling@bjoernhoefling.de>.

* gnu/packages/photo.scm (libraw-0.18): New variable.
* gnu/packages/kde.scm (krita)[inputs]: Use libraw-0.18.
2018-09-01 02:09:52 -04:00
Leo Famulari 7ce9eaf013
gnu: Krita: Update to 4.1.1.
* gnu/packages/kde.scm (krita): Update to 4.1.1.
2018-09-01 02:09:52 -04:00
Leo Famulari d84a887a5f
gnu: libksysguard: Update to 5.13.4.
* gnu/packages/kde.scm (libksysguard): Update to 5.13.4.
2018-09-01 02:09:52 -04:00
Leo Famulari 600f1ad8e6
gnu: KDE: Update to 5.49.0.
Fixes <https://bugs.gnu.org/32013>.

* gnu/packages/kde-frameworks.scm (attica, baloo, bluez-qt, breeze-icons,
extra-cmake-modules, kactivities, kactivities-stats, kapidox, karchive, kauth,
kbookmarks, kcmutils, kcodecs, kcompletion, kconfig, kconfigwidgets,
kcoreaddons, kcrash, kdbusaddons, kde-framework-integration, kdeclarative, kded,
kdesignerplugin, kdesu, kdewebkit, kdnssd, kdoctools, kemoticons, kfilemetadata,
kglobalaccel, kguiaddons, ki18n, kiconthemes, kidletime, kimageformats, kinit,
kio, kirigami, kitemmodels, kitemview, kjobwidgets, knewstuff, knotification,
knotifyconfig, kpackage, kparts, kpeople, kplotting, kpty, krunner, kservice,
ksyntaxhighlighting, ktexteditor, ktextwidgets, kunitcoversion, kwallet,
kwayland, kwidgetsaddons, kwindowsystem, kxmlgui, kxmlrpcclient,
modemmanager-qt, networkmanager-qt, oxygen-icons, plasma-framework, prison,
qqc2-desktop-style, solid, sonnet, threadweaver): Update to 5.49.0.
(extra-cmake-modules)[arguments]: Remove obsolete workaround.
(attica)[arguments]: Disable some new tests.

Co-authored-by: Björn Höfling <bjoern.hoefling@bjoernhoefling.de>
2018-09-01 02:09:49 -04:00
Eric Bavier 220458b098
gnu: hypre: Update to 2.14.0.
* gnu/packages/maths.scm (hypre): Update to 2.14.0
2018-08-31 10:08:00 -05:00
Ricardo Wurmus 9ce2f07ab6
gnu: python-matplotlib: Use python-pyqt-without-qtwebkit.
* gnu/packages/python.scm (python-matplotlib)[propagated-inputs]: Replace
python-pyqt with python-pyqt-without-qtwebkit.
2018-08-31 16:37:56 +02:00
Ricardo Wurmus 0e2d6d2698
gnu: Add python-pyqt-without-qtwebkit.
* gnu/packages/qt.scm (python-pyqt-without-qtwebkit): New variable.
2018-08-31 16:37:56 +02:00
Clément Lassieur 9fc2922794
services: nginx: Get the Shepherd to respawn NGINX.
* gnu/services/web.scm (nginx-shepherd-service): Change 'start' (that is, all
actions that don't send a signal to the master process) to return the PID.
Wait until the PID file is created and contains an integer because it might be
created after the parent process exits.
2018-08-31 16:35:39 +02:00
Rutger Helling 0b6678cd44
gnu: retroarch: Update to 1.7.4.
* gnu/packages/emulators.scm (retroarch): Update to 1.7.4.
2018-08-31 08:25:45 +02:00
Nicolas Goaziou be4c63f484
gnu: mame: Update to 0.201.
* gnu/packages/emulators.scm (mame): Update to 0.201.
[arguments]: Remove unnecessary fix.
2018-08-31 07:04:17 +02:00
Tobias Geerinckx-Rice 0c048c11a4
gnu: cmocka: Update to 1.1.2.
* gnu/packages/check.scm (cmocka): Update to 1.1.2.
2018-08-30 19:29:08 +02:00
Tobias Geerinckx-Rice 8a68b71d99
gnu: keyutils: Update to 1.5.11.
* gnu/packages/crypto.scm (keyutils): Update to 1.5.11.
[inputs]: Add mit-krb5.
2018-08-30 19:28:11 +02:00
Tobias Geerinckx-Rice d6d9ca1017
gnu: Don't use unstable tarballs in (packages opencl).
* gnu/packages/opencl.scm (opencl-clhpp, clinfo, beignet, pocl)
[source]: Use GIT-FETCH and GIT-FILE-NAME.
(pocl)[arguments]: Remove ‘remove-headers’ phase.
(make-opencl-headers)[source]: Use GIT-FILE-NAME.
2018-08-30 19:28:11 +02:00
Tobias Geerinckx-Rice 8294362688
gnu: Add pipewalker.
* gnu/packages/games.scm (pipewalker): New public variable.
2018-08-30 19:28:11 +02:00
Tobias Geerinckx-Rice 6e8c75b884
gnu: Add msr-tools.
* gnu/packages/hardware.scm (msr-tools): New public variable.
2018-08-30 19:28:10 +02:00
Tobias Geerinckx-Rice aadd1d241c
gnu: Add ddcutil.
* gnu/packages/hardware.scm: New file.
(ddcutil): New public variable.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add the new file.
2018-08-30 19:28:10 +02:00
Marius Bakke 7693f678d1
gnu: pango: Replace with 1.42.4.
Fixes <https://bugs.gnu.org/32594>.

* gnu/packages/gtk.scm (pango)[replacement]: New field.
(pango-1.42.4): New public variable.
2018-08-30 18:57:10 +02:00
Marius Bakke 883832b480
gnu: appstream-glib: Update to 0.7.12.
* gnu/packages/glib.scm (appstream-glib): Update to 0.7.12.
2018-08-30 18:44:57 +02:00
Marius Bakke 4c13cb36f8
gnu: GnuPG: Update to 2.2.10.
* gnu/packages/gnupg.scm (gnupg): Update to 2.2.10.
2018-08-30 18:44:57 +02:00
Marius Bakke e50c727878
gnu: rng-tools: Update to 6.4.
* gnu/packages/linux.scm (rng-tools): Update to 6.4.
2018-08-30 18:44:57 +02:00
Marius Bakke d3c1075c14
gnu: samba: Update to 4.8.5.
* gnu/packages/samba.scm (samba): Update to 4.8.5.
2018-08-30 18:44:57 +02:00
Marius Bakke 652940d060
gnu: ldb: Update to 1.3.6.
* gnu/packages/samba.scm (ldb): Update to 1.3.6.
2018-08-30 18:44:57 +02:00
Marius Bakke 99088aa751
gnu: p11-kit: Update to 0.23.14.
* gnu/packages/tls.scm (p11-kit): Update to 0.23.14.
2018-08-30 18:44:56 +02:00
Marius Bakke 471884ed11
gnu: lilv: Propagate LV2.
* gnu/packages/audio.scm (lilv)[propagated-inputs]: Add LV2.
[inputs]: Remove.
2018-08-30 18:44:51 +02:00
Oleg Pykhalov b5d1286f2d
gnu: net-snmp: Specify '--with-openssl' configuration flag.
* gnu/packages/networking.scm (net-snmp)[arguments]: Add '--with-openssl'
flag.
2018-08-30 14:46:15 +03:00
Eric Bavier f9e140a243
netsurf: Upgrade to 3.8.
* gnu/packages/patches/netsurf-message-timestamp.patch: New patch.
* gnu/packages/patches/netsurf-system-utf8proc.patch: Adjust to new source.
* gnu/packages/web.scm (netsurf): Upgrade to 3.8.
[source]: Add the new patch.
2018-08-30 00:44:40 -05:00
Eric Bavier c558113fb9
nsgenbind: Upgrade to 0.6.
* gnu/packages/web.scm (nsgenbind): Upgrade to 0.6.
2018-08-30 00:44:40 -05:00
Eric Bavier 1be7077572
libnspsl: Upgrade to 0.1.3.
* gnu/packages/web.scm (libnspsl): Upgrade to 0.1.3.
2018-08-30 00:44:40 -05:00
Eric Bavier 3e1035d738
libnsutils: Upgrade to 0.0.5.
* gnu/packages/web.scm (libnsutils): Upgrade to 0.0.5.
2018-08-30 00:44:40 -05:00
Eric Bavier 1dc02e727b
libnsgif: Upgrade to 0.2.1.
* gnu/packages/web.scm (libnsgif): Upgrade to 0.2.1.
2018-08-30 00:44:39 -05:00
Eric Bavier ef2198ac5b
libnsbmp: Upgrade to 0.1.5.
* gnu/packages/web.scm (libnsbmp): Upgrade to 0.1.5.
2018-08-30 00:44:39 -05:00
Eric Bavier bb38628fab
libsvgtiny: Upgrade to 0.1.7.
* gnu/packages/web.scm (libsvgtiny): Upgrade to 0.1.7.
2018-08-30 00:44:39 -05:00
Eric Bavier f8311c0fee
libdom: Upgrade to 0.3.3.
* gnu/packages/web.scm (libdom): Upgrade to 0.3.3.
2018-08-30 00:44:39 -05:00
Eric Bavier 2bb1752b7d
libcss: Upgrade to 0.8.0.
* gnu/packages/web.scm (libcss): Upgrade to 0.8.0.
2018-08-30 00:44:39 -05:00
Eric Bavier 60e411fc94
libwapcaplet: Upgrade to 0.4.1.
* gnu/packages/web.scm (libwapcaplet): Upgrade to 0.4.1.
2018-08-30 00:44:39 -05:00
Eric Bavier b06bf74b41
hubbub: Upgrade to 0.3.5.
* gnu/packages/web.scm (hubbub): Upgrade to 0.3.5.
2018-08-30 00:44:39 -05:00
Eric Bavier ea9b34c2f5
libparserutils: Upgrade to 0.2.4.
* gnu/packages/web.scm (libparserutils): Upgrade to 0.2.4.
2018-08-30 00:44:38 -05:00
Eric Bavier fa4131f2aa
netsurf-buildsystem: Upgrade to 1.7.
* gnu/packages/web.scm (netsurf-buildsystem): Upgrade to 1.7.
2018-08-30 00:44:33 -05:00
Mark H Weaver a28604ee81
gnu: linux-libre@4.4: Update to 4.4.153.
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.153.
2018-08-30 00:53:01 -04:00
Tobias Geerinckx-Rice 9986316618
gnu: mujs: Update to 1.0.4.
* gnu/packages/javascript.scm (mujs): Update to 1.0.4.
2018-08-30 04:42:54 +02:00
Tobias Geerinckx-Rice bfb994d8be
gnu: r-car: Update to 3.0-2.
* gnu/packages/statistics.scm (r-car): Update to 3.0-2.
2018-08-30 04:42:52 +02:00
Tobias Geerinckx-Rice ad3306f62f
gnu: perl-gd: Update to 2.69.
* gnu/packages/gd.scm (perl-gd): Update to 2.69.
2018-08-30 04:42:51 +02:00
Tobias Geerinckx-Rice 33eea5c439
gnu: perl-sub-identify: Update to 0.14.
* gnu/packages/perl.scm (perl-sub-identify): Update to 0.14.
2018-08-30 04:42:51 +02:00
Tobias Geerinckx-Rice a82b561fef
gnu: robocut: Don't use unstable tarball.
* gnu/packages/printers.scm (robocut)[source]: Use GIT-FETCH and
GIT-FILE-NAME.
2018-08-30 04:42:38 +02:00
Tobias Geerinckx-Rice 1f0f9514eb
gnu: gparted: Update to 0.32.0.
* gnu/packages/disk.scm (gparted): Update to 0.32.0.
2018-08-30 04:40:31 +02:00
Tobias Geerinckx-Rice 7bb7920f64
gnu: duplicity: Update to 0.7.18.1.
* gnu/packages/backup.scm (duplicity): Update to 0.7.18.1.
[arguments]: Remove upstreamed '--ignore-mdc-error' kluge.
Rename 'patch-source' phase to 'use-store-file-names'.
2018-08-30 03:51:00 +02:00
Kei Kebreau 99e0fb24fb
gnu: audacity: Fix GtkFileChooserDialog.
* gnu/packages/audio.scm (audacity)[arguments]: Add 'wrap-program' phase to fix
GtkFileChooserDialog.
[inputs]: Rename "gtk" to "gtk+".
2018-08-29 20:56:35 -04:00
Oleg Pykhalov 8490a8346b
services: Add ddclient service.
* gnu/services/dns.scm (ddclient-configuration, ddclient-service-type): New
variables.
(uglify-field-name, serialize-field, serialize-boolean, serialize-integer,
serialize-string, serialize-list, serialize-extra-options,
ddclient-activation, ddclient-shepherd-service,
generate-ddclient-documentation): New procedures.
* doc/guix.texi (DNS Services): Document it.
2018-08-30 01:19:47 +03:00
Ludovic Courtès 4db7a9dc66
linux-modules: Raise an error when a kernel module cannot be found.
Previously we'd get an unhelpful backtrace like this:

  In gnu/build/linux-modules.scm:
     184:47  4 (recursive-module-dependencies _ #:lookup-module _)
      98:14  3 (module-dependencies _)
      85:18  2 (modinfo-section-contents _)
  In ice-9/ports.scm:
     439:11  1 (call-with-input-file #f #<procedure get-bytevector-al?> ?)
  In unknown file:
	     0 (open-file #f "r" #:encoding #f #:guess-encoding #f)

  ERROR: In procedure open-file:
  Wrong type (expecting string): #f
  builder for `/gnu/store/…-linux-modules.drv' failed with exit code 1

* gnu/build/linux-modules.scm (find-module-file): When MODULE cannot be
found, raise an error instead of returning #f.  This is more useful to
the user.
2018-08-29 23:32:01 +02:00
Ludovic Courtès d258c79144
tests: Warn about test module load failures.
Reported by Clément Lassieur <clement@lassieur.org>
and Leo Famulari <leo@famulari.name> at
<https://debbugs.gnu.org/cgi/bugreport.cgi?bug=32545#11>.

* gnu/tests.scm (test-modules): Pass #:warn to 'scheme-modules'.
2018-08-29 23:32:01 +02:00
Christopher Lemmer Webber caf8a003b3
gnu: emacs-racket-mode: Update to commit 92c3348.
* gnu/packages/emacs.scm (emacs-racket-mode): Update to commit 92c3348.
2018-08-29 15:52:20 -04:00
Vagrant Cascadian b4c698c8c9
gnu: python-trezor: Update to 0.10.2.
* gnu/packages/finance.scm (python-trezor): Update to 0.10.2.
[arguments]: Replace check with tests that do not require hardware device.
[propagated-inputs]: Add python-click, python-libusb1, python-pyblake2 and
python-typing.
[native-inputs]: Add python-mock and python-pytest.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-08-29 14:52:56 -04:00
pimi 4f9355c360
gnu: Add gffcompare.
gnu/packages/bioinformatics.scm (gffcompare): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-08-29 14:13:49 -04:00
pimi 9e21f2170e
gnu: Add r-abcoptim.
gnu/packages/cran.scm (r-abcoptim): New variable.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-08-29 14:13:46 -04:00
Danny Milosavljevic 15c56e8273
gnu: Add solaar.
* gnu/packages/admin.scm (solaar): New variable.
2018-08-29 17:18:30 +02:00
Danny Milosavljevic ac94ccb9b4
gnu: Add python-pyudev.
* gnu/packages/admin.scm (python-pyudev): New variable.
2018-08-29 17:18:28 +02:00
Ricardo Wurmus c7fe888b42
gnu: Add python-scanpy.
* gnu/packages/bioinformatics.scm (python-scanpy): New variable.
2018-08-29 17:06:13 +02:00
Ricardo Wurmus 22b770ce00
gnu: Add python-anndata.
* gnu/packages/python.scm (python-anndata): New variable.
2018-08-29 17:06:13 +02:00
Ricardo Wurmus d8b8eb3ff5
gnu: Add python-numba.
* gnu/packages/python.scm (python-numba): New variable.
2018-08-29 17:06:13 +02:00
Ricardo Wurmus 8892cac329
gnu: Add python-llvmlite.
* gnu/packages/llvm.scm (python-llvmlite): New variable.
2018-08-29 17:06:13 +02:00
Marius Bakke 9e17757ff5
Revert "gnu: snappy: Optimise."
This causes too many rebuilds for the master branch.

This reverts commit f96ed06805.
2018-08-29 16:58:54 +02:00
Ricardo Wurmus 9587544b44
gnu: Add ghc 8.4.3.
* gnu/packages/haskell.scm (ghc-8): Rename this...
(ghc-8.0): ...to this.
(ghc): Point at ghc-8.0.
(ghc-8): New variable for GHC 8.4.3.

Co-authored-by: Timothy Samplet <samplet@ngyro.com>
2018-08-29 16:56:35 +02:00
Ricardo Wurmus 59b55def00
gnu: Add r-infotheo.
* gnu/packages/cran.scm (r-infotheo): New variable.
2018-08-29 13:11:17 +02:00
Tobias Geerinckx-Rice acf18cb190
gnu: capstone: Use HTTPS home page.
* gnu/packages/engineering.scm (capstone)[home-page]: Use HTTPS.
2018-08-28 22:46:38 +02:00
Tobias Geerinckx-Rice 2c3d30ef51
gnu: r-plotrix: Update to 3.7-3.
* gnu/packages/statistics.scm (r-plotrix): Update to 3.7-3.
2018-08-28 22:31:00 +02:00
Tobias Geerinckx-Rice f882d7c7c5
gnu: python-apipkg: Update home page.
* gnu/packages/python.scm (python-apipkg)[home-page]: Update.
2018-08-28 22:31:00 +02:00
Tobias Geerinckx-Rice e29bb27d88
gnu: r-pracma: Update to 2.1.5.
* gnu/packages/maths.scm (r-pracma): Update to 2.1.5.
2018-08-28 22:31:00 +02:00
Tobias Geerinckx-Rice 7bbdd943e7
gnu: claws-mail: Update to 3.17.1.
* gnu/packages/mail.scm (claws-mail): Update to 3.17.1.
2018-08-28 22:31:00 +02:00
Tobias Geerinckx-Rice 4fca5a44f6
gnu: libntlm: Update to 1.5.
* gnu/packages/gsasl.scm (libntlm): Update to 1.5.
[source]: Use HTTPS.
2018-08-28 22:31:00 +02:00
Tobias Geerinckx-Rice f96ed06805
gnu: snappy: Optimise.
* gnu/packages/compression.scm (snappy)[source]: Build with ‘-O2’.
* gnu/package/patches/snappy-add-O2-flag-in-CmakeLists.txt.patch:
New file.
* gnu/local.mk (dist_patch_DATA): Add it.
2018-08-28 22:30:59 +02:00
Efraim Flashner dc8675afa7
gnu: Add urlscan.
* gnu/packages/mail.scm (urlscan): New variable.
2018-08-28 22:48:32 +03:00
Efraim Flashner 967de7c5b0
gnu: Add ephoto.
* gnu/packages/enlightenment.scm (ephoto): New variable.
2018-08-28 22:45:55 +03:00
Vagrant Cascadian 84fbb4b223
gnu: electron-cash: Update to 3.3.1.
* gnu/packages/finance.scm (electron-cash): Update to 3.3.1.

Signed-off-by: Leo Famulari <leo@famulari.name>
2018-08-28 15:30:13 -04:00
Leo Famulari 8a5a1eff42
gnu: dropbear: Fix CVE-2018-15599.
* gnu/packages/patches/dropbear-CVE-2018-15599.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/ssh.scm (dropbear)[source]: Use it.
2018-08-28 14:44:11 -04:00
Ludovic Courtès 6772ed1e07
services: openssh: Add 'log-level' field.
* gnu/services/ssh.scm (<openssh-configuration>)[log-level]: New field.
(openssh-config-file): Honor it.
* doc/guix.texi (Networking Services): Document it.
2018-08-28 12:35:02 +02:00
Ludovic Courtès 1ae29e3f5a
gnu: dico: Update to 2.6.
* gnu/packages/dico.scm (dico): Update to 2.6.
[inputs]: Switch to GUILE-2.2.
2018-08-28 12:35:02 +02:00
Ison111 d2434b6966
gnu: Add SpaceFM.
* gnu/packages/lxde.scm (spacefm): New variable.

Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2018-08-28 12:35:02 +02:00
Alex Kost 40f7ebac66
gnu: Add emacs-build-farm.
* gnu/packages/emacs.scm (emacs-build-farm): New variable.
2018-08-28 12:23:52 +03:00