496b024fde
gnu: Add r-rqc.
...
* gnu/packages/bioconductor.scm (r-rqc): New variable.
2019-05-10 13:31:03 +02:00
5e0241db84
gnu: Add r-quasr.
...
* gnu/packages/bioconductor.scm (r-quasr): New variable.
2019-05-10 13:31:03 +02:00
5865606459
gnu: Add r-rhisat2.
...
* gnu/packages/bioconductor.scm (r-rhisat2): New variable.
2019-05-10 13:31:03 +02:00
1444153913
gnu: Add r-sgseq.
...
* gnu/packages/bioconductor.scm (r-sgseq): New variable.
2019-05-10 13:31:03 +02:00
30f1029f4c
gnu: Add r-xgboost.
...
* gnu/packages/cran.scm (r-xgboost): New variable.
2019-05-10 13:31:03 +02:00
29591ca611
gnu: Add r-citr.
...
* gnu/packages/cran.scm (r-citr): New variable.
2019-05-10 13:31:02 +02:00
afc4370d4c
gnu: Add r-refmanager.
...
* gnu/packages/cran.scm (r-refmanager): New variable.
2019-05-10 13:31:02 +02:00
85625cae66
gnu: Add r-ggfortify.
...
* gnu/packages/cran.scm (r-ggfortify): New variable.
2019-05-10 13:31:02 +02:00
c9487dfadc
gnu: Add r-plot3d.
...
* gnu/packages/cran.scm (r-plot3d): New variable.
2019-05-10 13:31:02 +02:00
70debac5f1
gnu: Add r-enrichr.
...
* gnu/packages/cran.scm (r-enrichr): New variable.
2019-05-10 13:31:02 +02:00
5bea832f72
gnu: Add r-dalex.
...
* gnu/packages/cran.scm (r-dalex): New variable.
2019-05-10 13:31:02 +02:00
4d06ef4b71
gnu: Add r-rbowtie.
...
* gnu/packages/bioconductor.scm (r-rbowtie): New variable.
2019-05-10 13:31:02 +02:00
8c42f8f6e8
gnu: Add r-iclusterplus.
...
* gnu/packages/bioconductor.scm (r-iclusterplus): New variable.
2019-05-10 13:31:01 +02:00
b40a36baff
gnu: linux-libre: Update to 5.1.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.1.
(%linux-libre-hash): Update hash.
(%linux-libre-5.0-patches): Rename to ...
(%linux-libre-5.1-patches): ... this.
(linux-libre, linux-libre-arm-generic, linux-libre-arm-veyron)
(linux-libre-arm-omap2plus): Use %linux-libre-5.1-patches.
(vhba-module): Move definition below the kernel packages.
* gnu/packages/aux-files/linux-libre/5.0-arm-veyron.conf,
gnu/packages/aux-files/linux-libre/5.0-arm.conf,
gnu/packages/aux-files/linux-libre/5.0-arm64.conf,
gnu/packages/aux-files/linux-libre/5.0-i686.conf,
gnu/packages/aux-files/linux-libre/5.0-x86_64.conf: Delete files.
* gnu/packages/aux-files/linux-libre/5.1-arm-veyron.conf,
gnu/packages/aux-files/linux-libre/5.1-arm.conf,
gnu/packages/aux-files/linux-libre/5.1-arm64.conf,
gnu/packages/aux-files/linux-libre/5.1-i686.conf,
gnu/packages/aux-files/linux-libre/5.1-x86_64.conf: New files.
* Makefile.am (AUX_FILES): Adjust accordingly.
2019-05-10 00:00:49 -04:00
3d8033af42
gnu: rust: Update to 1.34.1.
...
* gnu/packages/rust.scm (rust): Update to 1.34.1.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-10 00:44:09 +02:00
4ed20d3cfe
gnu: rust: Make source derivations smaller.
...
* gnu/packages/rust.scm (rust-source-pre-1.32): Delete procedure.
(rust-bootstrapped-package-pre-1.32): Delete procedure.
(rust-bootstrapped-package): Remove optional keys, and return an origin.
(rust-uri): New variable.
(mrustc): Change native-input "rust" to use source of rust-1.19.
(rust-1.19)[source]: Define package source.
(rust-1.20): Use rust-bootstrapped-package.
(rust-1.21): Likewise.
(rust-1.22): Likewise.
(rust-1.23): Likewise.
(rust-1.24): Likewise.
(rust-1.25): Likewise.
(rust-1.26): Likewise.
(rust-1.27): Likewise.
(rust-1.28): Likewise.
(rust-1.29): Likewise.
(rust-1.30): Likewise.
(rust-1.31): Likewise.
(rust-1.32): Likewise.
(rust-1.33): Likewise.
(rust-1.34): Likewise.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-10 00:44:09 +02:00
bea01c0d2b
gnu: rust: Delete install logs and manifests.
...
* gnu/packages/rust.scm (rust-1.20)[arguments]<#:phases>[delete-install-logs]:
New phase.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-10 00:44:08 +02:00
e88735b45f
build/cargo-utils: Remove "src-name" parameter.
...
* gnu/packages/gnuzilla.scm (icecat)[arguments]<#:phases>
[patch-cargo-checksums]: Delete "null-file" variable.
* gnu/packages/rust.scm (%cargo-reference-project-file): Delete variable.
* gnu/packages/rust.scm (rust-1.19): Remove reference to
"%cargo-reference-project-file".
* guix/build/cargo-utils.scm (generate-checksums): Remove "src-name"
parameter.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-10 00:44:08 +02:00
d78010b81e
gnu: gcc-4.7: Hide package.
...
* gnu/packages/gcc.scm (gcc-4.7): Wrap in "hidden-package" expression.
2019-05-09 23:18:39 +02:00
935568d5ce
gnu: emacs-dash: Update to 2.16.0.
...
* gnu/packages/emacs-xyz.scm (emacs-dash): Update to 2.16.0.
2019-05-09 22:51:33 +02:00
b97b4624d0
gnu: Add guile-file-names.
...
* gnu/packages/guile-xyz.scm (guile-file-names): New variable.
2019-05-09 22:41:14 +02:00
ae623b3f9d
gnu: seabios: Update to 1.12.1.
...
This is a stable release despite the missing tarball.
<https://mail.coreboot.org/hyperkitty/list/seabios@seabios.org/thread/ONGRJVF3A45SAXOKBED52V2UD3YUWTRT/ >
* gnu/packages/firmware.scm (seabios): Update to 1.12.1.
[source]: Use GIT-FETCH and GIT-FILE-NAME.
2019-05-09 21:16:54 +02:00
05de4c346d
gnu: man-pages: Update to 5.01.
...
* gnu/packages/man.scm (man-pages): Update to 5.01.
2019-05-09 21:16:53 +02:00
34dce89a0c
gnu: emacs-sml-mode: Update to 6.9.
...
* gnu/packages/emacs-xyz.scm (emacs-sml-mode): Update to 6.9.
2019-05-09 21:16:53 +02:00
b03a4ed465
gnu: cdemu-client: Update to 3.2.1.
...
* gnu/packages/cdrom.scm (cdemu-client): Update to 3.2.1.
2019-05-09 21:13:29 +02:00
97dbf75a56
gnu: cdemu-daemon: Update to 3.2.2.
...
* gnu/packages/cdrom.scm (cdemu-daemon): Update to 3.2.2.
2019-05-09 21:13:28 +02:00
d201571754
gnu: libmirage: Update to 3.2.2.
...
* gnu/packages/cdrom.scm (libmirage): Update to 3.2.2.
2019-05-09 21:13:28 +02:00
819b3b8201
gnu: vhba-module: Update to 20190410.
...
* gnu/packages/linux.scm (vhba-module): Update to 20190410.
2019-05-09 21:13:28 +02:00
38878020b0
gnu: cloc: Update to 1.82.
...
* gnu/packages/code.scm (cloc): Update to 1.82.
[source]: Use GIT-FETCH and GIT-FILE-NAME.
2019-05-09 21:13:28 +02:00
6c2180f5d0
services: dhcp-client: Ignore interfaces that are not ARP capable.
...
* gnu/services/networking.scm (dhcp-client-service-type): Filter interfaces
that do not support the ARP protocol.
2019-05-09 20:00:22 +02:00
18160c3408
gnu: Use mirror://kernel.org in source URIs.
...
* gnu/packages/linux.scm (bridge-utils, cpufrequtils, sbc)[source](uri): Use
"mirror://kernel.org" instead of www.kernel.org directly.
2019-05-09 14:06:07 +02:00
aeb1ed1abc
gnu: wpa_supplicant: Update to 2.8 [security fixes].
...
This release fixes CVE-2019-9494, CVE-2019-9495, CVE-2019-9496, CVE-2019-9497,
CVE-2019-9498, CVE-2019-9499, and CVE-2019-11555.
* gnu/packages/admin.scm (wpa-supplicant-minimal): Update to 2.8.
[source](snippet): New field. Disable D-Bus.
[arguments]: Change CONFIG_TLS to use OpenSSL rather than GnuTLS. This is
required by many of the new default build-time settings.
[inputs]: Remove GNUTLS and LIBGCRYPT. Add OPENSSL.
(wpa-supplicant)[arguments]: Remove obsolete CONFIG_CTRL_IFACE_DBUS=y.
2019-05-09 13:43:03 +02:00
3fde051bfd
gnu: libtorrent-rasterbar: Update to 1.1.13.
...
* gnu/packages/bittorrent.scm (libtorrent-rasterbar): Update to 1.1.13.
2019-05-09 13:43:03 +02:00
3a32be71eb
gnu: leveldb: Update to 1.22.
...
* gnu/packages/databases.scm (leveldb): Update to 1.22.
2019-05-09 13:43:03 +02:00
4506018e28
gnu: Mercurial: Update to 5.0
...
* gnu/packages/version-control.scm (mercurial): Update to 5.0.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-09 12:11:37 +02:00
e6b1a2248f
services: Log-in services now require "pam_loginuid".
...
Fixes <https://bugs.gnu.org/35553 >.
Reported by Bruno Haible <bruno@clisp.org>.
* gnu/services/base.scm (login-pam-service): Pass #:login-uid? #t to
'unix-pam-service'.
* gnu/services/ssh.scm (lsh-pam-services, openssh-pam-services):
Likewise.
* gnu/services/xorg.scm (slim-pam-service): Likewise.
(gdm-pam-service): Likewise for "gdm-autologin" and "gdm-password".
* gnu/tests/base.scm (run-basic-test)["getlogin on tty1"]: New test.
* gnu/tests/ssh.scm (run-ssh-test): Add #:test-getlogin? parameter.
["getlogin"]: New test.
(%test-dropbear): Pass #:test-getlogin? #f.
2019-05-09 12:11:36 +02:00
af55ca481d
system: pam: Add #:login-uid? parameter to 'unix-pam-service'.
...
* gnu/system/pam.scm (unix-pam-service): Add #:login-uid? parameter. In
then 'session' field, add "pam_loginuid.so" as required when LOGIN-UID?
is true.
2019-05-09 12:11:36 +02:00
56038bac60
gnu: Add hostapd.
...
* gnu/packages/admin.scm (hostapd): New variable.
2019-05-09 12:11:36 +02:00
6ad799d7c5
services: slim: Provide the 'xorg-server' Shepherd service.
...
This is a followup to 61569171d0
2019-05-09 12:11:36 +02:00
cae0725b80
bootloader: grub: Remove unneeded 'terminal_output'.
...
Fixes <https://bugs.gnu.org/35585 >.
Reported by Florian Pelz <pelzflorian@pelzflorian.de>.
This statement was added in 8d058e7b1b
2019-05-09 12:11:36 +02:00
fb98e430d4
installer: Add missing 'G_' call.
...
* gnu/installer/newt/user.scm (run-user-page): Add 'G_' call for "User
creation".
2019-05-09 12:11:36 +02:00
063edf928a
gnu: Add python-pylibmc.
...
* gnu/packages/databases.scm (python-pylibmc, python2-pylibmc): New variables.
2019-05-09 00:22:38 -04:00
da6026792b
gnu: Add libmemcached.
...
* gnu/packages/databases.scm (libmemcached): New variable.
2019-05-09 00:22:37 -04:00
c526b3176f
gnu: linux-libre: Update to 5.0.14.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.14.
(%linux-libre-hash): Update hash.
2019-05-08 22:51:27 -04:00
013130cf0b
gnu: linux-libre@4.19: Update to 4.19.41.
...
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.41.
(%linux-libre-4.19-hash): Update hash.
2019-05-08 22:19:29 -04:00
f9ab5c47bd
gnu: linux-libre@4.14: Update to 4.14.117.
...
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.117.
(%linux-libre-4.14-hash): Update hash.
2019-05-08 22:18:13 -04:00
9902e3dfd8
gnu: linux-libre@4.9: Update to 4.9.174.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.174.
2019-05-08 22:17:31 -04:00
429a38a009
gnu: usbutils: Add ‘python’ output.
...
* gnu/packages/linux.scm (usbutils)[outputs]: Add ‘python’.
[arguments]: Add ‘separate-python-output’ phase.
2019-05-09 01:14:55 +02:00
a6592732cf
gnu: usbutils: Fix broken lsusb.py.
...
* gnu/packages/linux.scm (usbutils)[inputs]: Add python.
2019-05-09 01:14:55 +02:00
5b26635893
gnu: usbutils: Update to 012.
...
* gnu/packages/linux.scm (usbutils): Update to 012.
[arguments]: Add ‘patch-bootstrap-scripts’ phase.
[native-inputs]: Add autoconf, automake, and libtool.
2019-05-09 01:14:55 +02:00
6346dca4bb
gnu: mariadb: Update to 10.1.40.
...
* gnu/packages/databases.scm (mariadb): Update to 10.1.40.
2019-05-08 23:32:54 +02:00
dc80b28d4b
gnu: Valgrind: Remove version 3.14.0.
...
* gnu/packages/valgrind.scm (valgrind): Update to 3.15.0.
(valgrind-3.15): Remove variable.
2019-05-08 23:32:54 +02:00
8d1644a1f5
gnu: libgsf: Update to 1.14.46.
...
* gnu/packages/gnome.scm (libgsf): Update to 1.14.46.
2019-05-08 23:32:54 +02:00
26fad5b7df
gnu: mbpfan: Update to 2.1.1.
...
* gnu/packages/linux.scm (mbpfan): Update to 2.1.1.
2019-05-08 23:21:34 +02:00
b786ae69aa
gnu: dovecot: Update to 2.3.6.
...
* gnu/packages/mail.scm (dovecot): Update to 2.3.6.
2019-05-08 23:21:34 +02:00
05ee17872c
gnu: mpop: Update to 1.4.4.
...
* gnu/packages/mail.scm (mpop): Update to 1.4.4.
2019-05-08 23:21:34 +02:00
3f45c6cfcb
gnu: gmime: Update to 3.2.3.
...
* gnu/packages/mail.scm (gmime): Update to 3.2.3.
2019-05-08 23:21:34 +02:00
9f53d58ae1
gnu: opari2: Use HTTPS home page.
...
* gnu/packages/profiling.scm (opari2)[home-page]: Use HTTPS.
2019-05-08 23:21:34 +02:00
2cea4ac780
gnu: opari2: Update to 2.0.4.
...
* gnu/packages/profiling.scm (opari2): Update to 2.0.4.
2019-05-08 23:21:34 +02:00
d21649440b
gnu: fasm: Update to 1.73.11.
...
* gnu/packages/assembly.scm (fasm): Update to 1.73.11.
2019-05-08 23:21:34 +02:00
5c89429586
gnu: Syncthing: Update to 1.1.2.
...
* gnu/packages/syncthing.scm (syncthing): Update to 1.1.2.
2019-05-08 14:57:11 -04:00
e54a6543a0
gnu: python-efl: Update to 1.22.0.
...
* gnu/packages/enlightenment.scm (python-efl): Update to 1.22.0.
[source]: Use https. Add snippet to remove files generated by cython.
2019-05-08 19:55:13 +03:00
944bdb2afe
gnu: terminology: Update build.
...
* gnu/packages/enlightenment.scm (terminology)[arguments]: Add to
configure-flags. Add custom 'set-home-directory phase.
2019-05-08 19:55:13 +03:00
3ec29587b5
gnu: efl: Update to 1.22.2.
...
* gnu/packages/enlightenment.scm (efl): Update to 1.22.2.
[propagated-inputs]: Move libsndfile, pulseaudio ...
[inputs]: ... to here.
[source]: Remove patch.
* gnu/packages/patches/efl-mesa-compat.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove it.
2019-05-08 19:55:12 +03:00
515a92cf20
gnu: liburcu: Update to 0.11.0.
...
* gnu/packages/datastructures.scm (liburcu): Update to 0.11.0.
2019-05-08 16:41:55 +02:00
1a6482d43c
gnu: Add copyright header.
...
* gnu/packages/fonts.scm: Add copyright header.
2019-05-08 15:20:08 +02:00
4b360985eb
gnu: Add font-sil-andika.
...
* gnu/packages/fonts.scm (font-sil-andika): New variable.
2019-05-08 15:18:55 +02:00
aa986c9cd6
gnu: retroarch: Update to 1.7.7.
...
* gnu/packages/emulators.scm (retroarch): Update to 1.7.7.
2019-05-08 08:15:46 +02:00
56aee1968f
gnu: emacs-irfc: Update to 20130824.507-1.
...
This commits changes package's source hash, because 'irfc.el' file was
modified. New file contains HTTPS instead of HTTP URLs.
* gnu/packages/emacs-xyz.scm (emacs-irfc): Update to 20130824.507-1.
2019-05-08 02:06:51 +03:00
5d51a9771d
gnu: tlp: Update to 1.2.2.
...
* gnu/packages/linux.scm (tlp): Update to 1.2.2.
2019-05-07 23:41:00 +02:00
5b3d3cf71c
services: dovecot: Rename auth-verbose-passwords?.
...
* gnu/services/mail.scm (dovecot-configuration)[auth-verbose-passwords?]:
Rename to auth-verbose-passwords, and change the type to a string, as this
parameter can take one of three string values.
* doc/guix.texi (Dovecot service): Update the corresponding documentation.
2019-05-07 20:52:02 +01:00
338defe0cb
gnu: sbcl-next: Update to 1.2.1.
...
* gnu/packages/web-browsers.scm (sbcl-next): Update to 1.2.1.
2019-05-07 19:18:37 +02:00
cbbdc5c795
gnu: next-gtk-webkit: Update to 1.2.1.
...
* gnu/packages/web-browsers.scm (next-gtk-webkit): Update to 1.2.1.
2019-05-07 19:18:28 +02:00
61569171d0
services: slim: Allow SLiM to be started on multiple ttys.
...
This change makes it possible to add multiple SLiM services to an operating
system configuration by setting the new 'display' and 'vt' fields in their
configurations to different values. Each SLiM service will get its own
authfile, logfile, lockfile, and shepherd service, which will start SLiM on a
different tty.
* gnu/services/xorg.scm: Export slim-configuration-display and
slim-configuration-vt.
(<slim-configuration>)[display, vt]: New fields.
(slim-shepherd-service): Refactor let.
[slim.cfg]: Use new fields for setting display_name, xserver_arguments,
authfile, lockfile, and logfile.
[shepherd-service][provision]: Name the shepherd service according to the
value of 'vt'.
[shepherd-service][start]: Delete the right lockfile.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-07 15:46:54 +02:00
6426a8fb6c
gnu: slim: Allow customisation of Xorg display.
...
Previously SLiM could only start on display :0.0. This change makes it
possible to run multiple instances of SLiM at the same time.
* gnu/packages/patches/slim-display.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/display-managers.scm (slim): Use it.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-07 15:46:54 +02:00
341225ac6c
gnu: gnome-control-center: Patch file name of 'nm-connection-editor'.
...
* gnu/packages/gnome.scm (gnome-control-center)[argument]: In
'patch-paths' phase, provide absolute file name to
'nm-connection-editor' in panels/network/*.c
2019-05-07 15:46:53 +02:00
1df38cfcc7
gnu: gnome-control-center: Patch file name of 'gkbd-keyboard-display'.
...
Fixes <https://bugs.gnu.org/35605 >.
Reported by sirgazil <sirgazil@zoho.com>.
* gnu/packages/gnome.scm (gnome-control-center)[arguments]: In
'patch-paths' phase, patch "cc-region-panel.cc" and provide it with the
absolute file name of 'gkbd-keyboard-display'.
2019-05-07 15:46:53 +02:00
bdd30bf00b
gnu: Add sbcl-find-port, cl-find-port, and ecl-find-port.
...
* gnu/packages/lisp.scm (sbcl-find-port, cl-find-port, ecl-find-port): New
variables.
2019-05-07 12:43:31 +02:00
91936f153a
installer: "Exit" button in user page actually exits.
...
Fixes <https://bugs.gnu.org/35607 >.
Reported by Florian Pelz <pelzflorian@pelzflorian.de>.
* gnu/installer/newt/user.scm (run-user-page): Add 'cond' clause for
ARGUMENT = EXIT-BUTTON.
2019-05-07 12:18:44 +02:00
6c5790a2fa
uuid: 'fat-uuid->string' preserves leading zeros.
...
Fixes <https://bugs.gnu.org/35582 >.
Reported by sirgazil <sirgazil@zoho.com>.
Previously, leading zeros would be removed, leading to an "invalid"
UUID:
(uuid->string (uuid "00CA-050E" 'fat32))
⇒ "CA-50E"
(string->uuid "CA-50E" 'fat32)
⇒ #f
* gnu/system/uuid.scm (fat-uuid->string): Pad digits with zeros.
* tests/uuid.scm ("uuid, FAT32, leading zeros preserved"): New test.
2019-05-07 12:18:44 +02:00
08c06cd8ac
gnu: grammalecte: Update to 1.0.2.
...
* gnu/packages/dictionaries.scm (grammalecte): Update to 1.0.2.
2019-05-07 10:25:19 +02:00
445bd4d5e5
installer: Add password 'hide' checkbox.
...
* gnu/installer/newt/page.scm (run-input-page)[input-hide-checkbox?]: New
parameter adding a checkbox to toggle password hiding. By default, the
checkbox is active and the password is hence hided.
* gnu/installer/newt/partition.scm (prompt-luks-passwords): Enable the
previous parameter on both password input pages.
* gnu/installer/newt/user.scm (run-root-password-page): Enable the previous
parameter,
(confirm-password): ditto,
(run-user-add-page): add a checkbox to toggle password hiding.
2019-05-07 09:25:45 +02:00
239baad9c4
gnu: vulkan-headers: Update to 1.1.107.
...
* gnu/packages/vulkan.scm (vulkan-headers): Update to 1.1.107.
* gnu/packages/vulkan.scm (vulkan-loader): Update hash.
* gnu/packages/vulkan.scm (vulkan-tools): Update hash.
2019-05-07 08:38:16 +02:00
d9ef50b3bc
gnu: tegola: Fix build.
...
* gnu/packages/geo.scm (tegola)[arguments]: Adapt the "unpack-path" for the new
unpack phase.
* gnu/packages/geo.scm (tegola)[phases]{set-version}: Update the directory path.
{rename-import}: Remove phase.
2019-05-06 23:10:36 -04:00
bdc0c20cab
gnu: imposm3: Fix build.
...
* gnu/packages/geo.scm (imposm3)[arguments]: Adapt unpack-path for the new
unpack phase.
[phases]: Remove the "rename-import" phase, now obsolete.
2019-05-06 23:05:05 -04:00
fb09818277
gnu: restic: Fix build.
...
This fixes a regression introduced by commit f42e4ebb56
2019-05-06 22:36:43 -04:00
d879fd80c7
gnu: syncthing: Fix build.
...
* gnu/packages/syncthing.scm (syncthing)[arguments]: Drop the unpack-path
argument, made unnecessary by commit f42e4ebb56
2019-05-06 20:50:36 -04:00
46c102ca5e
installer: Skip network selection dialogs when there is no choice.
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Previously, for a machine that only has wired networking, and only one
such network, we'd have to go through two selection boxes. Now we just
skip both.
* gnu/installer/newt/ethernet.scm (run-ethernet-page): When
'ethernet-services' returns one element, return it directly without
opening a listbox selection.
* gnu/installer/newt/network.scm (run-technology-page): Likewise.
2019-05-06 23:21:33 +02:00
d1e5f758e1
installer: Shrink simple listboxes to their minimum height.
...
* gnu/installer/newt/partition.scm (run-partioning-page): Pass
#:listbox-height.
(run-scheme-page): Likewise.
(run-device-page): Likewise.
* gnu/installer/newt/network.scm (run-technology-page): Likewise.
* gnu/installer/newt/ethernet.scm (run-ethernet-page): Likewise.
2019-05-06 23:21:33 +02:00
7ae9979cff
installer: Actually translate step descriptions.
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Until now, step descriptions in the menu that shows up when hitting
"Exit" would not be translated. That's because the 'G_' procedure was
called once and for all when the installer was started.
* gnu/installer/steps.scm (<installer-step>)[description]: Add the
'thunked' attribute.
2019-05-06 23:21:33 +02:00
1d8da896be
installer: Do not sort methods on the partitioning page.
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* gnu/installer/newt/partition.scm (run-partioning-page): Pass
#:sort-listbox-items? #f so that methods always appear in the same
order.
2019-05-06 23:21:33 +02:00
04f4bdcd70
installer: Widen user dialog.
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* gnu/installer/newt/user.scm (run-user-add-page)[pad-label]: Increase
2nd argument to 25.
[entry-width]: Increase to 35.
2019-05-06 23:21:32 +02:00
3bb293b6f3
gnu: mate-power-manager: License is GPLv2+.
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Reported by Guy fleury <hoonandon@gmail.com>.
* gnu/packages/mate.scm (mate-power-manager): Change to GPL2+.
2019-05-06 23:21:32 +02:00
d6a68e9048
gnu: emacs-evil-nerd-commenter: Update to 3.3.7.
...
* gnu/packages/emacs-xyz.scm (emacs-evil-nerd-commenter): Update to 3.3.7.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-05-06 16:56:39 +02:00
869eb264ac
gnu: emacs-elfeed: Update to 3.1.0.
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* gnu/packages/emacs-xyz.scm (emacs-elfeed): Update to 3.1.0.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-05-06 16:56:13 +02:00
e77787ca91
gnu: emacs-hl-todo: Update to 3.0.0.
...
* gnu/packages/emacs-xyz.scm (emacs-hl-todo): Update to 3.0.0.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2019-05-06 16:55:32 +02:00
46ce12d0a3
gnu: icecat: Move the snippet and patches out of the 'source'.
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This commit changes the 'source' field of the 'icecat' package to
simply be 'icecat-source', which aims to be suitable for use on any
system that IceCat supports.
* gnu/packages/gnuzilla.scm (icecat)[source]: Change to simply
be 'icecat-source'.
[native-inputs]: Add 'patch', along with the Guix-specific patches
that were previously applied within 'source'.
[arguments]: Remove the 'ensure-no-mtimes-pre-1980' phase.
Add 'apply-guix-specific-patches' and 'remove-bundled-libraries'
phases. Touch 'configure' in the bootstrap phase. Return #t from
the 'augment-CPLUS_INCLUDE_PATH' phase. Reindent.
2019-05-06 10:33:20 -04:00
3e605b6998
gnu: icecat-source: Make sure 'makeicecat' is the right version.
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* gnu/packages/gnuzilla.scm (icecat-source): Check to make sure the
value of FFMAJOR in the 'makeicecat' script matches the major version
of IceCat being generated.
2019-05-06 10:33:18 -04:00
ebff346945
gnu: icecat: Update to 60.6.2-guix1.
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* gnu/packages/gnuzilla.scm (%icecat-version): Update to 60.6.2-guix1.
(icecat-source)[upstream-firefox-source]: Update hash.
2019-05-06 10:33:12 -04:00
1c404e6c1a
gnu: r-gridgraphics: Update to 0.4-0.
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* gnu/packages/cran.scm (r-gridgraphics): Update to 0.4-0.
2019-05-06 16:11:45 +02:00
639334a962
gnu: r-checkmate: Update to 1.9.3.
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* gnu/packages/statistics.scm (r-checkmate): Update to 1.9.3.
2019-05-06 16:11:33 +02:00
93f8a00964
gnu: r-rgadem: Update to 2.32.0.
...
* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.32.0.
2019-05-06 16:11:17 +02:00
c5296e205b
gnu: llvm: Update to 8.0.0.
...
* gnu/packages/llvm.scm (llvm): Update to 8.0.0.
* gnu/packages/llvm.scm (clang-runtime): Update hash.
* gnu/packages/llvm.scm (clang): Update hash.
2019-05-06 13:29:12 +02:00
94249db825
gnu: python2-terminado: Add missing input.
...
* gnu/packages/python-web.scm (python2-terminado)[propagated-inputs]: Add
python2-futures.
2019-05-06 12:57:10 +02:00
fc7d632829
gnu: Add emacs-miniedit.
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* gnu/packages/emacs-xyz.scm (emacs-miniedit): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:17:23 +02:00
cc1d1fc8b7
gnu: Add emacs-sudo-edit.
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* gnu/packages/emacs-xyz.scm (emacs-sudo-edit): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:15:31 +02:00
d2ca86f308
gnu: Add emacs-docker-compose-mode.
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* gnu/packages/emacs-xyz.scm (emacs-docker-compose-mode): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:14:47 +02:00
a02198133a
gnu: Add emacs-elisp-demos.
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* gnu/packages/emacs-xyz.scm (emacs-elisp-demos): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:14:10 +02:00
0209661ee6
gnu: Add emacs-flycheck-flow.
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* gnu/packages/emacs-xyz.scm (emacs-flycheck-flow): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:10:21 +02:00
df7d0dce4b
gnu: Add emacs-evil-textobj-syntax.
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* gnu/packages/emacs-xyz.scm (emacs-evil-textobj-syntax): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:09:10 +02:00
a08530df08
gnu: Add emacs-names.
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* gnu/packages/emacs-xyz.scm (emacs-names): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 11:08:34 +02:00
5e319c15c1
gnu: mate-power-manager: Placate 'guix lint'.
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Reported by guy fleury iteriteka <hoonandon@gmail.com>.
* gnu/packages/mate.scm (mate-power-manager)[source]: Use mirror:// URL.
[synopsis, description]: Adjust to placate 'guix lint'.
2019-05-06 11:06:37 +02:00
623d4b4662
gnu: Add git-annex-remote-rclone.
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* gnu/packages/version-control.scm (git-annex-remote-rclone): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:43:45 +02:00
5d6bab9e00
gnu: quickswitch-i3: Fix license field to use license:wtfpl2.
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* gnu/packages/wm.scm (quickswitch-i3): Fix license field to use
license:wtfpl2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:28 +02:00
6f38ef73a5
gnu: tmux-themepack: Fix license field to refer to license:wtfpl2.
...
* gnu/packages/tmux.scm (tmux-themepack): Fix license field to refer to
license:wtfpl2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:28 +02:00
41ee377305
gnu: Use license: prefix in tmux.scm.
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* gnu/packages/tmux.scm Use license: prefix in tmux.scm.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:28 +02:00
492e3a7a76
gnu: python-pyyaml: Fix license field to refer to license:wtfpl2.
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* gnu/packages/python-xyz.scm (python-pyyaml): Fix license field to refer to
license:wtfpl2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:27 +02:00
ac44b39a19
gnu: envstore: Fix license field to refer to license:wtfpl2.
...
* gnu/packages/shellutils.scm (envstore): Fix license field to refer to
license:wtfpl2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:27 +02:00
e3e8924d23
gnu: Use license: prefix in shellutils.scm.
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* gnu/packages/shellutils.scm Use license: prefix in all packages.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:27 +02:00
f62e7ce442
gnu: zimg: Fix license field to refer to license:wtfpl2.
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* gnu/packages/image.scm (zimg): Fix license field to refer to license:wtfpl2.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:32:21 +02:00
0e293f75f1
gnu: gcc@9: Fix limits.h include for cross builds.
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This allows us to supply gcc-9 as an optional argument to cross-gcc,
successfully constructing gcc-9-based cross-compilers.
* gnu/packages/gcc.scm (gcc-9)[source](patches): Add
"gcc-9-asan-fix-limits-include.patch".
* gnu/packages/patches/gcc-9-asan-fix-limits-include.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add the patch.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:22:00 +02:00
83b0a7f41b
gnu: cross-base: Apply gcc 8 patch to gcc >= 8.
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* gnu/packages/cross-base.scm (cross-gcc): Apply gcc 8 patch to gcc >= 8.
* gnu/packages/patches/gcc-8-cross-environment-variables.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add the patch.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:21:38 +02:00
bdfc327639
gnu: gcc: Add 9.1.0.
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* gnu/packages/gcc.scm (gcc-9): New variable.
* gnu/packages/commencement.scm (gcc-toolchain-9): New variable.
* gnu/packages/patches/gcc-9-strmov-store-file-names.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add the patch.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-06 10:18:15 +02:00
654332f00f
gnu: linux-libre: Update to 5.0.13.
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* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.13.
(%linux-libre-hash): Update hash.
2019-05-06 02:13:19 -04:00
90f4cc4bc7
gnu: linux-libre@4.19: Update to 4.19.40.
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* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.40.
(%linux-libre-4.19-hash): Update hash.
2019-05-06 02:12:31 -04:00
d40684e827
gnu: linux-libre@4.14: Update to 4.14.116.
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* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.116.
(%linux-libre-4.14-hash): Update hash.
2019-05-06 02:11:37 -04:00
60065f5bd3
gnu: linux-libre@4.9: Update to 4.9.173.
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* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.173.
2019-05-06 02:10:51 -04:00
59781b32d8
gnu: docker: Refer to xz by its absolute path.
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* gnu/packages/docker.scm (docker)[inputs]: Add xz.
[phases]{patch-paths}: Patch the reference to xz.
2019-05-05 21:21:02 -04:00
80fec17f39
gnu: docker: Patch the reference to the docker proxy.
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* gnu/packages/docker.scm (docker)[inputs]: Add docker-libnetwork-cmd-proxy.
* gnu/packages/docker.scm (docker)[phases]{patch-paths}: Patch proxy.go to
refer to the docker-proxy binary by its absolute path.
2019-05-05 21:21:02 -04:00
a01d54f3bd
gnu: docker: Optimize substitution macros.
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This change halves the time needed to patch the paths.
* gnu/packages/docker.scm (docker)[phases]{patch-paths}: Allow passing
multiple SOURCE-TEXT, PACKAGE and RELATIVE-PATH tuples so that the rewrite
rules can be generated and processed by a single use of the SUBSTITUTE*
macro. Rename SUBSTITUTE-LOOKPATH to SUBSTITUTE-LOOKPATH* and
substitute-Command to SUBSTITUTE-COMMAND* to denote the change. Adapt the
uses of SUBSTITUTE-LOOKPATH* and SUBSTITUTE-COMMAND*.
2019-05-05 21:21:02 -04:00
079f0eb3d2
gnu: docker: Make macros use a relative path as argument.
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* gnu/packages/docker.scm (docker)[phases]: Move implementation detail inside
the SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND macros definition, so that the
relative path argument can be given as a relative path.
2019-05-05 21:21:01 -04:00
3f280d3950
gnu: docker: Harmonize LookPath regexes.
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* gnu/packages/docker.scm (docker)[phases]: In the patch-paths phase, update
the regexes used by SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND to match at the
start of the word, like it's done later.
2019-05-05 21:21:01 -04:00
1b14e1bccd
gnu: docker: Cleanup extraneous comments.
...
* gnu/packages/docker.scm (docker): Remove "parenthesis-balancing" comments.
2019-05-05 21:21:01 -04:00
c627932639
gnu: docker: Fix indentation.
...
* gnu/packages/docker.scm (docker): Fix indentation using Emacs.
2019-05-05 21:20:58 -04:00
7a31d93a61
services: docker: Add new fields to support proxy.
...
The Docker proxy enables inter-container and outside-to-container loopback,
and is required by the Docker registry server.
* gnu/services/docker.scm (docker-configuration)[proxy,
enable-proxy?]: Add fields.
(docker-shepherd-service): Use them.
(serialize-boolean): New function.
2019-05-05 20:14:15 -04:00
0b94911add
gnu: Add docker-libnetwork-cmd-proxy.
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* gnu/packages/docker.scm (docker-libnetwork-cmd-proxy): New variable.
2019-05-05 20:14:15 -04:00
9c0244abbd
gnu: Add docker-libnetwork.
...
* gnu/packages/docker.scm (docker-libnetwork): New private variable.
2019-05-05 20:14:15 -04:00
626de0d13a
gnu: Add go-netlink.
...
* gnu/packages/linux.scm (go-netlink): New variable.
2019-05-05 20:14:15 -04:00
03981f9064
gnu: Add go-netns.
...
* gnu/packages/networking.scm (go-netns): New variable.
2019-05-05 20:14:14 -04:00
523533ed09
gnu: Add go-sctp.
...
* gnu/packages/networking.scm (go-sctp): New variable.
2019-05-05 20:14:14 -04:00
85c1d20fa6
gnu: r-chippeakanno: Update to 3.18.0.
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* gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.18.0.
[propagated-inputs]: Add r-rtracklayer.
2019-05-06 00:14:59 +02:00
c24adbbf07
gnu: r-arrmnormalization: Update to 1.24.0.
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* gnu/packages/bioconductor.scm (r-arrmnormalization): Update to 1.24.0.
2019-05-06 00:14:59 +02:00
c2bfb978bf
gnu: r-progeny: Update to 1.6.0.
...
* gnu/packages/bioconductor.scm (r-progeny): Update to 1.6.0.
2019-05-06 00:14:59 +02:00
7d33d36c52
gnu: r-rbowtie2: Update to 1.6.0.
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* gnu/packages/bioconductor.scm (r-rbowtie2): Update to 1.6.0.
2019-05-06 00:14:58 +02:00
02530c2821
gnu: r-zfpkm: Update to 1.6.0.
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* gnu/packages/bioconductor.scm (r-zfpkm): Update to 1.6.0.
2019-05-06 00:14:58 +02:00
67bc9255d5
gnu: r-webbioc: Update to 1.56.0.
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* gnu/packages/bioconductor.scm (r-webbioc): Update to 1.56.0.
2019-05-06 00:14:58 +02:00
c881b9ef3a
gnu: r-widgettools: Update to 1.62.0.
...
* gnu/packages/bioconductor.scm (r-widgettools): Update to 1.62.0.
2019-05-06 00:14:58 +02:00
a6edf33533
gnu: r-wiggleplotr: Update to 1.8.0.
...
* gnu/packages/bioconductor.scm (r-wiggleplotr): Update to 1.8.0.
2019-05-06 00:14:58 +02:00
07597c85d8
gnu: r-wrench: Update to 1.2.0.
...
* gnu/packages/bioconductor.scm (r-wrench): Update to 1.2.0.
2019-05-06 00:14:58 +02:00
298f7f112f
gnu: r-xcms: Update to 3.6.0.
...
* gnu/packages/bioconductor.scm (r-xcms): Update to 3.6.0.
2019-05-06 00:14:58 +02:00
7c888138ef
gnu: r-massspecwavelet: Update to 1.50.0.
...
* gnu/packages/bioconductor.scm (r-massspecwavelet): Update to 1.50.0.
2019-05-06 00:14:58 +02:00
88469def75
gnu: r-xbseq: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-xbseq): Update to 1.16.0.
2019-05-06 00:14:57 +02:00
0334b203d7
gnu: r-roar: Update to 1.20.0.
...
* gnu/packages/bioconductor.scm (r-roar): Update to 1.20.0.
2019-05-06 00:14:57 +02:00
7f4957b24e
gnu: r-yarn: Update to 1.10.0.
...
* gnu/packages/bioconductor.scm (r-yarn): Update to 1.10.0.
2019-05-06 00:14:57 +02:00
2feea2d22a
gnu: r-quantro: Update to 1.18.0.
...
* gnu/packages/bioconductor.scm (r-quantro): Update to 1.18.0.
2019-05-06 00:14:57 +02:00
f48e29daa3
gnu: r-yaqcaffy: Update to 1.44.0.
...
* gnu/packages/bioconductor.scm (r-yaqcaffy): Update to 1.44.0.
2019-05-06 00:14:57 +02:00
38c5d13a73
gnu: r-simpleaffy: Update to 2.60.0.
...
* gnu/packages/bioconductor.scm (r-simpleaffy): Update to 2.60.0.
2019-05-06 00:14:57 +02:00
56576bea97
gnu: r-gcrma: Update to 2.56.0.
...
* gnu/packages/bioconductor.scm (r-gcrma): Update to 2.56.0.
2019-05-06 00:14:57 +02:00
edba69b2ff
gnu: r-yapsa: Update to 1.10.0.
...
* gnu/packages/bioconductor.scm (r-yapsa): Update to 1.10.0.
2019-05-06 00:14:57 +02:00
3cdc5d1a7b
gnu: r-somaticsignatures: Update to 2.20.0.
...
* gnu/packages/bioconductor.scm (r-somaticsignatures): Update to 2.20.0.
2019-05-06 00:14:56 +02:00
128c6d59f0
gnu: r-gtrellis: Update to 1.16.0.
...
* gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.16.0.
2019-05-06 00:14:56 +02:00
1269a926c0
gnu: r-yamss: Update to 1.10.0.
...
* gnu/packages/bioconductor.scm (r-yamss): Update to 1.10.0.
2019-05-06 00:14:56 +02:00
2a6d838337
gnu: r-ebimage: Update to 4.26.0.
...
* gnu/packages/bioconductor.scm (r-ebimage): Update to 4.26.0.
2019-05-06 00:14:56 +02:00
b68a9e80f4
gnu: r-aucell: Update to 1.6.0.
...
* gnu/packages/bioconductor.scm (r-aucell): Update to 1.6.0.
2019-05-06 00:14:56 +02:00
9da2021f49
gnu: r-allelicimbalance: Update to 1.22.0.
...
* gnu/packages/bioconductor.scm (r-allelicimbalance): Update to 1.22.0.
2019-05-06 00:14:56 +02:00
ee1a45d719
gnu: r-annotationtools: Update to 1.58.0.
...
* gnu/packages/bioconductor.scm (r-annotationtools): Update to 1.58.0.
2019-05-06 00:14:56 +02:00
69a2ec5447
gnu: r-annotationfuncs: Update to 1.34.0.
...
* gnu/packages/bioconductor.scm (r-annotationfuncs): Update to 1.34.0.
2019-05-06 00:14:56 +02:00
e2e1dea2bb
gnu: r-abaenrichment: Update to 1.14.0.
...
* gnu/packages/bioconductor.scm (r-abaenrichment): Update to 1.14.0.
2019-05-06 00:14:55 +02:00
bab06a6ff3
gnu: r-gofuncr: Update to 1.4.0.
...
* gnu/packages/bioconductor.scm (r-gofuncr): Update to 1.4.0.
2019-05-06 00:14:55 +02:00
bcc233c1a6
gnu: r-atacseqqc: Update to 1.8.0.
...
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.8.0.
[propagated-inputs]: Add r-edger.
2019-05-06 00:14:55 +02:00
19ee76379c
gnu: r-genomicscores: Update to 1.8.0.
...
* gnu/packages/bioconductor.scm (r-genomicscores): Update to 1.8.0.
2019-05-06 00:14:55 +02:00
aa0ebfd2eb
gnu: r-motifstack: Update to 1.28.0.
...
* gnu/packages/bioconductor.scm (r-motifstack): Update to 1.28.0.
[propagated-inputs]: Replace r-grimport with r-grimport2.
2019-05-06 00:14:55 +02:00
f7a495b159
gnu: r-motiv: Update to 1.40.0.
...
* gnu/packages/bioconductor.scm (r-motiv): Update to 1.40.0.
2019-05-06 00:14:55 +02:00
a5860ebe87
gnu: r-rgadem: Update to 2.31.0.
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* gnu/packages/bioconductor.scm (r-rgadem): Update to 2.31.0.
2019-05-06 00:14:54 +02:00
e33c25ff2c
gnu: r-bacon: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-bacon): Update to 1.12.0.
2019-05-06 00:14:54 +02:00
b7ddf0f048
gnu: r-abseqr: Update to 1.2.0.
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* gnu/packages/bioconductor.scm (r-abseqr): Update to 1.2.0.
2019-05-06 00:14:54 +02:00
1aadddeaa9
gnu: r-a4: Update to 1.32.0.
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* gnu/packages/bioconductor.scm (r-a4): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
ae1730ae1a
gnu: r-a4base: Update to 1.32.0.
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* gnu/packages/bioconductor.scm (r-a4base): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
e5a36543ac
gnu: r-a4reporting: Update to 1.32.0.
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* gnu/packages/bioconductor.scm (r-a4reporting): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
0b6091621f
gnu: r-a4preproc: Update to 1.32.0.
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* gnu/packages/bioconductor.scm (r-a4preproc): Update to 1.32.0.
2019-05-06 00:14:54 +02:00
82de77da5a
gnu: r-a4classif: Update to 1.32.0.
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* gnu/packages/bioconductor.scm (r-a4classif): Update to 1.32.0.
2019-05-06 00:14:53 +02:00
b077e3db2a
gnu: r-a4core: Update to 1.32.0.
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* gnu/packages/bioconductor.scm (r-a4core): Update to 1.32.0.
2019-05-06 00:14:53 +02:00
8bef9df4d4
gnu: r-annaffy: Update to 1.56.0.
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* gnu/packages/bioconductor.scm (r-annaffy): Update to 1.56.0.
2019-05-06 00:14:53 +02:00
8265a1115e
gnu: r-mlinterfaces: Update to 1.64.0.
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* gnu/packages/bioconductor.scm (r-mlinterfaces): Update to 1.64.0.
2019-05-06 00:14:53 +02:00
1a3e33be23
gnu: r-clusterprofiler: Update to 3.12.0.
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* gnu/packages/bioconductor.scm (r-clusterprofiler): Update to 3.12.0.
2019-05-06 00:14:53 +02:00
77d28d665c
gnu: r-enrichplot: Update to 1.4.0.
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* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.4.0.
2019-05-06 00:14:53 +02:00
1990ff9d10
gnu: r-dose: Update to 3.10.0.
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* gnu/packages/bioconductor.scm (r-dose): Update to 3.10.0.
2019-05-06 00:14:53 +02:00
ebffd24c10
gnu: r-fgsea: Update to 1.10.0.
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* gnu/packages/bioconductor.scm (r-fgsea): Update to 1.10.0.
[propagated-inputs]: Add r-bh.
2019-05-06 00:14:53 +02:00
3e5ee6f69f
gnu: r-sigpathway: Update to 1.52.0.
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* gnu/packages/bioconductor.scm (r-sigpathway): Update to 1.52.0.
2019-05-06 00:14:53 +02:00
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gnu: r-anota: Update to 1.32.0.
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* gnu/packages/bioconductor.scm (r-anota): Update to 1.32.0.
2019-05-06 00:14:52 +02:00
24cf7bad99
gnu: r-gosemsim: Update to 2.10.0.
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* gnu/packages/bioconductor.scm (r-gosemsim): Update to 2.10.0.
2019-05-06 00:14:52 +02:00
376d1fe759
gnu: r-heatplus: Update to 2.30.0.
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* gnu/packages/bioconductor.scm (r-heatplus): Update to 2.30.0.
2019-05-06 00:14:52 +02:00
c2effdedc0
gnu: r-varianttools: Update to 1.26.0.
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* gnu/packages/bioconductor.scm (r-varianttools): Update to 1.26.0.
2019-05-06 00:14:52 +02:00
bc083ecab8
gnu: r-triform: Update to 1.26.0.
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* gnu/packages/bioconductor.scm (r-triform): Update to 1.26.0.
2019-05-06 00:14:52 +02:00
2ee91179d1
gnu: r-ioniser: Update to 2.8.0.
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* gnu/packages/bioconductor.scm (r-ioniser): Update to 2.8.0.
2019-05-06 00:14:52 +02:00
48c2a7eb39
gnu: r-linnorm: Update to 2.8.0.
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* gnu/packages/bioconductor.scm (r-linnorm): Update to 2.8.0.
2019-05-06 00:14:52 +02:00
5551b07cde
gnu: r-lumi: Update to 2.36.0.
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* gnu/packages/bioconductor.scm (r-lumi): Update to 2.36.0.
2019-05-06 00:14:51 +02:00
2986b51ffe
gnu: r-methylumi: Update to 2.30.0.
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* gnu/packages/bioconductor.scm (r-methylumi): Update to 2.30.0.
2019-05-06 00:14:51 +02:00
8c0fae3cd4
gnu: r-minfi: Update to 1.30.0.
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* gnu/packages/bioconductor.scm (r-minfi): Update to 1.30.0.
2019-05-06 00:14:51 +02:00
693a98056c
gnu: r-bumphunter: Update to 1.26.0.
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* gnu/packages/bioconductor.scm (r-bumphunter): Update to 1.26.0.
2019-05-06 00:14:51 +02:00
409f4dd652
gnu: r-siggenes: Update to 1.58.0.
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* gnu/packages/bioconductor.scm (r-siggenes): Update to 1.58.0.
[propagated-inputs]: Add r-scrime.
2019-05-06 00:14:51 +02:00
fadc6db82d
gnu: r-illuminaio: Update to 0.26.0.
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* gnu/packages/bioconductor.scm (r-illuminaio): Update to 0.26.0.
2019-05-06 00:14:51 +02:00
2d4430877a
gnu: r-geoquery: Update to 2.52.0.
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* gnu/packages/bioconductor.scm (r-geoquery): Update to 2.52.0.
2019-05-06 00:14:51 +02:00
26c72fffc1
gnu: r-scone: Update to 1.8.0.
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* gnu/packages/bioconductor.scm (r-scone): Update to 1.8.0.
2019-05-06 00:14:50 +02:00
7baa59ed4d
gnu: r-scdd: Update to 1.8.0.
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* gnu/packages/bioconductor.scm (r-scdd): Update to 1.8.0.
2019-05-06 00:14:50 +02:00
6a2c58b7e0
gnu: r-noiseq: Update to 2.28.0.
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* gnu/packages/bioconductor.scm (r-noiseq): Update to 2.28.0.
2019-05-06 00:14:50 +02:00
78b6326785
gnu: r-monocle: Update to 2.12.0.
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* gnu/packages/bioconductor.scm (r-monocle): Update to 2.12.0.
2019-05-06 00:14:50 +02:00
a0ff725d6a
gnu: r-mast: Update to 1.10.0.
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* gnu/packages/bioconductor.scm (r-mast): Update to 1.10.0.
[propagated-inputs]: Add r-blme.
2019-05-06 00:14:50 +02:00
3fd2ea8883
gnu: r-icobra: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-icobra): Update to 1.12.0.
2019-05-06 00:14:50 +02:00
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gnu: r-ihw: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-ihw): Update to 1.12.0.
2019-05-06 00:14:50 +02:00
61c79d55e3
gnu: r-lpsymphony: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-lpsymphony): Update to 1.12.0.
2019-05-06 00:14:49 +02:00
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gnu: r-ebseq: Update to 1.24.0.
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* gnu/packages/bioconductor.scm (r-ebseq): Update to 1.24.0.
2019-05-06 00:14:49 +02:00
301c4ff12a
gnu: r-deds: Update to 1.58.0.
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* gnu/packages/bioconductor.scm (r-deds): Update to 1.58.0.
2019-05-06 00:14:49 +02:00
d5f3c0d09e
gnu: r-dnacopy: Update to 1.58.0.
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* gnu/packages/bioconductor.scm (r-dnacopy): Update to 1.58.0.
2019-05-06 00:14:49 +02:00
d941918599
gnu: r-copynumber: Update to 1.24.0.
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* gnu/packages/bioconductor.scm (r-copynumber): Update to 1.24.0.
2019-05-06 00:14:49 +02:00
58a43fc28e
gnu: r-chipexoqual: Update to 1.8.0.
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* gnu/packages/bioconductor.scm (r-chipexoqual): Update to 1.8.0.
2019-05-06 00:14:49 +02:00
8d3d0c3abe
gnu: r-savr: Update to 1.22.0.
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* gnu/packages/bioconductor.scm (r-savr): Update to 1.22.0.
2019-05-06 00:14:49 +02:00
0aa72f2d1e
gnu: r-destiny: Update to 2.14.0.
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* gnu/packages/bioconductor.scm (r-destiny): Update to 2.14.0.
[propagated-inputs]: Remove r-fnn and r-hmisc; add r-ggplot2.
2019-05-06 00:14:48 +02:00
6fc161fc3e
gnu: r-biocneighbors: Update to 1.2.0.
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* gnu/packages/bioconductor.scm (r-biocneighbors): Update to 1.2.0.
[propagated-inputs]: Add r-biocgenerics and r-rcpphnsw.
2019-05-06 00:14:48 +02:00
d8771f5fd6
gnu: r-ruvseq: Update to 1.18.0.
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* gnu/packages/bioconductor.scm (r-ruvseq): Update to 1.18.0.
2019-05-06 00:14:48 +02:00
774e499cec
gnu: r-dnabarcodes: Update to 1.14.0.
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* gnu/packages/bioconductor.scm (r-dnabarcodes): Update to 1.14.0.
2019-05-06 00:14:48 +02:00
3649d046a6
gnu: r-inspect: Update to 1.14.0.
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* gnu/packages/bioconductor.scm (r-inspect): Update to 1.14.0.
2019-05-06 00:14:48 +02:00
5dce71535f
gnu: r-plgem: Update to 1.56.0.
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* gnu/packages/bioconductor.scm (r-plgem): Update to 1.56.0.
2019-05-06 00:14:48 +02:00
5bf7eb49f6
gnu: r-rots: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-rots): Update to 1.12.0.
2019-05-06 00:14:48 +02:00
07252952b7
gnu: r-glimma: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-glimma): Update to 1.12.0.
2019-05-06 00:14:47 +02:00
40f0ee43a0
gnu: r-goseq: Update to 1.36.0.
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* gnu/packages/bioconductor.scm (r-goseq): Update to 1.36.0.
2019-05-06 00:14:47 +02:00
7a5d729af1
gnu: r-ctc: Update to 1.58.0.
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* gnu/packages/bioconductor.scm (r-ctc): Update to 1.58.0.
2019-05-06 00:14:47 +02:00
1236ce8e22
gnu: r-genomicinteractions: Update to 1.18.0.
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* gnu/packages/bioconductor.scm (r-genomicinteractions): Update to 1.18.0.
2019-05-06 00:14:47 +02:00
176a264c7c
gnu: r-interactionset: Update to 1.12.0.
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* gnu/packages/bioconductor.scm (r-interactionset): Update to 1.12.0.
2019-05-06 00:14:47 +02:00
eff6b2eb12
gnu: r-riboseqr: Update to 1.18.0.
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* gnu/packages/bioconductor.scm (r-riboseqr): Update to 1.18.0.
2019-05-06 00:14:47 +02:00
7d5acf7a25
gnu: r-riboprofiling: Update to 1.14.0.
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* gnu/packages/bioconductor.scm (r-riboprofiling): Update to 1.14.0.
2019-05-06 00:14:47 +02:00
1ddd4af5a0
gnu: r-chipcomp: Update to 1.14.0.
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* gnu/packages/bioconductor.scm (r-chipcomp): Update to 1.14.0.
2019-05-06 00:14:47 +02:00
c38de81594
gnu: r-bayseq: Update to 2.18.0.
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* gnu/packages/bioconductor.scm (r-bayseq): Update to 2.18.0.
2019-05-06 00:14:46 +02:00
4f4bed7de5
gnu: r-qdnaseq: Update to 1.20.0.
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* gnu/packages/bioconductor.scm (r-qdnaseq): Update to 1.20.0.
2019-05-06 00:14:46 +02:00
2317730994
gnu: r-cghcall: Update to 2.46.0.
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* gnu/packages/bioconductor.scm (r-cghcall): Update to 2.46.0.
2019-05-06 00:14:46 +02:00
8efb842f11
gnu: r-cghbase: Update to 1.44.0.
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* gnu/packages/bioconductor.scm (r-cghbase): Update to 1.44.0.
2019-05-06 00:14:46 +02:00
bcb95b7aac
gnu: r-marray: Update to 1.62.0.
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* gnu/packages/bioconductor.scm (r-marray): Update to 1.62.0.
2019-05-06 00:14:46 +02:00
a61bcb28f7
gnu: r-graph: Update to 1.62.0.
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* gnu/packages/bioconductor.scm (r-graph): Update to 1.62.0.
2019-05-06 00:14:46 +02:00
588b63c2af
gnu: r-multtest: Update to 2.40.0.
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* gnu/packages/bioconductor.scm (r-multtest): Update to 2.40.0.
2019-05-06 00:14:45 +02:00
0968a44874
gnu: r-ripseeker: Update to 1.24.0.
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* gnu/packages/bioconductor.scm (r-ripseeker): Update to 1.24.0.
2019-05-06 00:14:45 +02:00
4c221b3bbf
gnu: r-diffbind: Update to 2.12.0.
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* gnu/packages/bioconductor.scm (r-diffbind): Update to 2.12.0.
[propagated-inputs]: Add r-rhtslib; remove r-zlibbioc.
2019-05-06 00:14:45 +02:00
e02162f7ba
gnu: r-qvalue: Update to 2.16.0.
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* gnu/packages/bioconductor.scm (r-qvalue): Update to 2.16.0.
2019-05-06 00:14:45 +02:00
3e1bc88c1f
gnu: r-geneplotter: Update to 1.62.0.
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* gnu/packages/bioconductor.scm (r-geneplotter): Update to 1.62.0.
2019-05-06 00:14:45 +02:00
4b53d55e98
gnu: r-regioner: Update to 1.16.0.
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* gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.0.
2019-05-06 00:14:45 +02:00
43a23a0733
gnu: r-hpar: Update to 1.26.0.
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* gnu/packages/bioconductor.scm (r-hpar): Update to 1.26.0.
2019-05-06 00:14:44 +02:00
0c53332a27
gnu: r-annotate: Update to 1.62.0.
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* gnu/packages/bioconductor.scm (r-annotate): Update to 1.62.0.
2019-05-06 00:14:44 +02:00
81a1c45df5
gnu: r-biocgenerics: Update to 0.30.0.
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* gnu/packages/bioconductor.scm (r-biocgenerics): Update to 0.30.0.
2019-05-06 00:14:44 +02:00
3addf736d5
gnu: r-systempiper: Update to 1.18.0.
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* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.18.0.
[propagated-inputs]: Replace r-batchjobs with r-batchtools; add r-yaml.
2019-05-06 00:14:44 +02:00
9bcbca135b
gnu: r-rsamtools: Update to 2.0.0.
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* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.0.0.
[propagated-inputs]: Add r-rhtslib.
2019-05-06 00:14:44 +02:00
82d9340b0c
gnu: r-impute: Update to 1.58.0.
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* gnu/packages/bioinformatics.scm (r-impute): Update to 1.58.0.
[inputs]: Move gfortran from here...
[native-inputs]: ...to here.
2019-05-06 00:14:44 +02:00
2b4ac1d77e
gnu: r-rcas: Update to 1.10.0.
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* gnu/packages/bioinformatics.scm (r-rcas): Update to 1.10.0.
[propagated-inputs]: Add ghc-pandoc.
2019-05-06 00:14:43 +02:00
8322c860f9
gnu: r-methylkit: Update to 1.10.0.
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* gnu/packages/bioinformatics.scm (r-methylkit): Update to 1.10.0.
[propagated-inputs]: Add r-mgcv.
2019-05-06 00:14:43 +02:00
b173dbe617
gnu: r-annotationhub: Update to 2.16.0.
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* gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.16.0.
[propagated-inputs]: Add r-biocfilecache, r-dplyr, and r-rappdirs.
2019-05-06 00:14:43 +02:00
a8abc8dd3a
gnu: r-fastseg: Update to 1.30.0.
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* gnu/packages/bioinformatics.scm (r-fastseg): Update to 1.30.0.
2019-05-06 00:14:43 +02:00
e699e8e599
gnu: r-keggrest: Update to 1.24.0.
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* gnu/packages/bioinformatics.scm (r-keggrest): Update to 1.24.0.
2019-05-06 00:14:43 +02:00
c798455d87
gnu: r-gage: Update to 2.34.0.
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* gnu/packages/bioinformatics.scm (r-gage): Update to 2.34.0.
2019-05-06 00:14:43 +02:00
d4ef1d59cc
gnu: r-genomicfiles: Update to 1.20.0.
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* gnu/packages/bioinformatics.scm (r-genomicfiles): Update to 1.20.0.
2019-05-06 00:14:43 +02:00
70a3e4499d
gnu: r-complexheatmap: Update to 2.0.0.
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* gnu/packages/bioinformatics.scm (r-complexheatmap): Update to 2.0.0.
[propagated-inputs]: Add r-clue and r-png.
2019-05-06 00:14:43 +02:00
e2cb23404c
gnu: r-dirichletmultinomial: Update to 1.26.0.
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* gnu/packages/bioinformatics.scm (r-dirichletmultinomial): Update to 1.26.0.
2019-05-06 00:14:42 +02:00
0af6efa3c5
gnu: r-ensembldb: Update to 2.8.0.
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* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.8.0.
2019-05-06 00:14:42 +02:00
96f98c5b72
gnu: r-organismdbi: Update to 1.26.0.
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* gnu/packages/bioinformatics.scm (r-organismdbi): Update to 1.26.0.
2019-05-06 00:14:42 +02:00
a98c3b4ae4
gnu: r-biovizbase: Update to 1.32.0.
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* gnu/packages/bioinformatics.scm (r-biovizbase): Update to 1.32.0.
2019-05-06 00:14:42 +02:00
d38fbacad1
gnu: r-ggbio: Update to 1.32.0.
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* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.32.0.
2019-05-06 00:14:42 +02:00
623be1a443
gnu: r-gqtlbase: Update to 1.16.0.
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* gnu/packages/bioinformatics.scm (r-gqtlbase): Update to 1.16.0.
2019-05-06 00:14:42 +02:00
ed7de45655
gnu: r-snpstats: Update to 1.34.0.
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* gnu/packages/bioinformatics.scm (r-snpstats): Update to 1.34.0.
2019-05-06 00:14:42 +02:00
3c5f5b4154
gnu: r-erma: Update to 1.0.0.
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* gnu/packages/bioinformatics.scm (r-erma): Update to 1.0.0.
2019-05-06 00:14:41 +02:00
89ba9a7226
gnu: r-ldblock: Update to 1.14.0.
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* gnu/packages/bioinformatics.scm (r-ldblock): Update to 1.14.0.
2019-05-06 00:14:41 +02:00
a349d57a46
gnu: r-gqtlstats: Update to 1.16.0.
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* gnu/packages/bioinformatics.scm (r-gqtlstats): Update to 1.16.0.
2019-05-06 00:14:41 +02:00
105d9e2cb4
gnu: r-gviz: Update to 1.28.0.
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* gnu/packages/bioinformatics.scm (r-gviz): Update to 1.28.0.
2019-05-06 00:14:41 +02:00
1b454f9f69
gnu: r-gwascat: Update to 2.16.0.
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* gnu/packages/bioinformatics.scm (r-gwascat): Update to 2.16.0.
[propagated-inputs]: Remove r-annotationhub, r-ggbio, r-ggplot2, r-gqtlstats,
r-graph, r-gviz, r-snpstats, r-summarizedexperiment, and r-variantannotation.
2019-05-06 00:14:41 +02:00
256609eb46
gnu: r-sushi: Update to 1.22.0.
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* gnu/packages/bioinformatics.scm (r-sushi): Update to 1.22.0.
2019-05-06 00:14:41 +02:00
7705165882
gnu: r-fithic: Update to 1.10.0.
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* gnu/packages/bioinformatics.scm (r-fithic): Update to 1.10.0.
2019-05-06 00:14:40 +02:00
e998a26e1d
gnu: r-hitc: Update to 1.28.0.
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* gnu/packages/bioinformatics.scm (r-hitc): Update to 1.28.0.
2019-05-06 00:14:40 +02:00
65925573be
gnu: r-hdf5array: Update to 1.12.0.
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* gnu/packages/bioinformatics.scm (r-hdf5array): Update to 1.12.0.
[inputs]: Add zlib.
[propagated-inputs]: Add r-rhdf5lib.
2019-05-06 00:14:40 +02:00
d5625b3a9e
gnu: r-rhdf5lib: Update to 1.6.0.
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* gnu/packages/bioinformatics.scm (r-rhdf5lib): Update to 1.6.0.
2019-05-06 00:14:40 +02:00
583b4fd6e3
gnu: r-beachmat: Update to 2.0.0.
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* gnu/packages/bioinformatics.scm (r-beachmat): Update to 2.0.0.
[inputs]: Remove hdf5 and zlib.
[propagated-inputs]: Rmeove r-hdf5array, r-rcpp, r-rhdf5, and r-rhdf5lib.
2019-05-06 00:14:40 +02:00
029cefdd90
gnu: r-singlecellexperiment: Update to 1.6.0.
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* gnu/packages/bioinformatics.scm (r-singlecellexperiment): Update to 1.6.0.
2019-05-06 00:14:40 +02:00
70d04dc183
gnu: r-scater: Update to 1.12.0.
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* gnu/packages/bioinformatics.scm (r-scater): Update to 1.12.0.
[propagated-inputs]: Add r-biocneighbors and r-biocsingular; remove r-plyr,
r-reshape2, and r-rhdf5lib.
2019-05-06 00:14:40 +02:00
4540727a21
gnu: r-scran: Update to 1.12.0.
...
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.12.0.
[propagated-inputs]: Add r-bh, r-biocsingular, and r-dqrng; remove r-rhdf5lib.
2019-05-06 00:14:39 +02:00
f2a63d1588
gnu: r-delayedmatrixstats: Update to 1.6.0.
...
* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Update to 1.6.0.
2019-05-06 00:14:39 +02:00
fbf3494972
gnu: Add r-biocfilecache.
...
* gnu/packages/bioconductor.scm (r-biocfilecache): New variable.
2019-05-06 00:14:39 +02:00
fab5f7c8d9
gnu: r-interactivedisplaybase: Update to 1.22.0.
...
* gnu/packages/bioinformatics.scm (r-interactivedisplaybase): Update to 1.22.0.
2019-05-06 00:14:39 +02:00
975b72fa10
gnu: r-edaseq: Update to 2.18.0.
...
* gnu/packages/bioinformatics.scm (r-edaseq): Update to 2.18.0.
2019-05-06 00:14:39 +02:00
b765fc4a4c
gnu: r-deseq: Update to 1.36.0.
...
* gnu/packages/bioinformatics.scm (r-deseq): Update to 1.36.0.
2019-05-06 00:14:39 +02:00
95f3a46630
gnu: r-aroma-light: Update to 3.14.0.
...
* gnu/packages/bioinformatics.scm (r-aroma-light): Update to 3.14.0.
2019-05-06 00:14:39 +02:00
dd03589939
gnu: r-msnid: Update to 1.18.0.
...
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.18.0.
2019-05-06 00:14:38 +02:00
b65c264907
gnu: r-msnbase: Update to 2.10.0.
...
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.10.0.
2019-05-06 00:14:38 +02:00
ee386fcb1a
gnu: r-pcamethods: Update to 1.76.0.
...
* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.76.0.
2019-05-06 00:14:38 +02:00
f955afdabf
gnu: r-mzid: Update to 1.22.0.
...
* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.22.0.
2019-05-06 00:14:38 +02:00
9421e6b610
gnu: r-vsn: Update to 3.52.0.
...
* gnu/packages/bioinformatics.scm (r-vsn): Update to 3.52.0.
2019-05-06 00:14:38 +02:00
15f240e317
gnu: r-affy: Update to 1.62.0.
...
* gnu/packages/bioinformatics.scm (r-affy): Update to 1.62.0.
2019-05-06 00:14:38 +02:00
fdbaa5c1e5
gnu: r-affyio: Update to 1.54.0.
...
* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.54.0.
2019-05-06 00:14:38 +02:00
5498cc46b3
gnu: r-mzr: Update to 2.18.0.
...
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.18.0.
2019-05-06 00:14:37 +02:00
24aabd8fd9
gnu: r-protgenerics: Update to 1.16.0.
...
* gnu/packages/bioinformatics.scm (r-protgenerics): Update to 1.16.0.
2019-05-06 00:14:37 +02:00
10cb9919fc
gnu: r-sva: Update to 3.32.0.
...
* gnu/packages/bioinformatics.scm (r-sva): Update to 3.32.0.
2019-05-06 00:14:37 +02:00
59bef6eaee
gnu: r-copywriter: Update to 2.16.0.
...
* gnu/packages/bioinformatics.scm (r-copywriter): Update to 2.16.0.
2019-05-06 00:14:37 +02:00
70c44443c3
gnu: r-chipseq: Update to 1.34.0.
...
* gnu/packages/bioinformatics.scm (r-chipseq): Update to 1.34.0.
2019-05-06 00:14:37 +02:00
dbb4aa4a34
gnu: r-annotationfilter: Update to 1.8.0.
...
* gnu/packages/bioinformatics.scm (r-annotationfilter): Update to 1.8.0.
2019-05-06 00:14:37 +02:00
f6ecdafa11
gnu: r-rhdf5: Update to 2.28.0.
...
* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.28.0.
2019-05-06 00:14:37 +02:00
c030eb50c5
gnu: r-tximport: Update to 1.12.0.
...
* gnu/packages/bioinformatics.scm (r-tximport): Update to 1.12.0.
2019-05-06 00:14:36 +02:00
5b65a85949
gnu: r-mutationalpatterns: Update to 1.10.0.
...
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.10.0.
2019-05-06 00:14:36 +02:00
45aeb4eb1d
gnu: r-bamsignals: Update to 1.16.0.
...
* gnu/packages/bioinformatics.scm (r-bamsignals): Update to 1.16.0.
2019-05-06 00:14:36 +02:00
23ce7f3b0b
gnu: r-rhtslib: Update to 1.16.1.
...
* gnu/packages/bioinformatics.scm (r-rhtslib): Update to 1.16.1.
2019-05-06 00:14:36 +02:00
c648e672b7
gnu: r-zlibbioc: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-zlibbioc): Update to 1.30.0.
2019-05-06 00:14:36 +02:00
3be113b706
gnu: r-motifrg: Update to 1.28.0.
...
* gnu/packages/bioinformatics.scm (r-motifrg): Update to 1.28.0.
2019-05-06 00:14:35 +02:00
a7143246f8
gnu: r-seqlogo: Update to 1.50.0.
...
* gnu/packages/bioinformatics.scm (r-seqlogo): Update to 1.50.0.
2019-05-06 00:14:35 +02:00
6ef47ac82e
gnu: r-genomation: Update to 1.16.0.
...
* gnu/packages/bioinformatics.scm (r-genomation): Update to 1.16.0.
2019-05-06 00:14:35 +02:00
d726689a70
gnu: r-seqpattern: Update to 1.16.0.
...
* gnu/packages/bioinformatics.scm (r-seqpattern): Update to 1.16.0.
2019-05-06 00:14:35 +02:00
651b62c697
gnu: r-bsgenome: Update to 1.52.0.
...
* gnu/packages/bioinformatics.scm (r-bsgenome): Update to 1.52.0.
2019-05-06 00:14:35 +02:00
971df3a784
gnu: r-topgo: Update to 2.36.0.
...
* gnu/packages/bioinformatics.scm (r-topgo): Update to 2.36.0.
2019-05-06 00:14:34 +02:00
d31f8d1bd8
gnu: r-genomicfeatures: Update to 1.36.0.
...
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.36.0.
2019-05-06 00:14:34 +02:00
40d97367f0
gnu: r-rtracklayer: Update to 1.44.0.
...
* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.44.0.
2019-05-06 00:14:34 +02:00
6ff6973502
gnu: r-genomicalignments: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.20.0.
2019-05-06 00:14:34 +02:00
8671d1e9d6
gnu: r-summarizedexperiment: Update to 1.14.0.
...
* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.14.0.
2019-05-06 00:14:34 +02:00
14561bb9e7
gnu: r-delayedarray: Update to 0.10.0.
...
* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.10.0.
[propagated-inputs]: Add r-matrix.
2019-05-06 00:14:34 +02:00
d2e165496b
gnu: r-biostrings: Update to 2.52.0.
...
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.52.0.
2019-05-06 00:14:33 +02:00
e10b67c797
gnu: r-biocparallel: Update to 1.18.0.
...
* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.18.0.
2019-05-06 00:14:33 +02:00
933571ddcd
gnu: r-biomart: Update to 2.40.0.
...
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.0.
2019-05-06 00:14:33 +02:00
a1b9378a8e
gnu: r-annotationdbi: Update to 1.46.0.
...
* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.46.0.
2019-05-06 00:14:33 +02:00
4aadfcd296
gnu: r-biobase: Update to 2.44.0.
...
* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.44.0.
2019-05-06 00:14:33 +02:00
b35bc56a8a
gnu: r-genomicranges: Update to 1.36.0.
...
* gnu/packages/bioinformatics.scm (r-genomicranges): Update to 1.36.0.
2019-05-06 00:14:33 +02:00
bc0e5bc12e
gnu: r-xvector: Update to 0.24.0.
...
* gnu/packages/bioinformatics.scm (r-xvector): Update to 0.24.0.
2019-05-06 00:14:32 +02:00
5fadf39280
gnu: r-limma: Update to 3.40.0.
...
* gnu/packages/bioinformatics.scm (r-limma): Update to 3.40.0.
2019-05-06 00:14:32 +02:00
0d094ad9ab
gnu: r-variantannotation: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.30.0.
[propagated-inputs]: Add r-rhtslib.
2019-05-06 00:14:32 +02:00
1e3f53a489
gnu: r-edger: Update to 3.26.0.
...
* gnu/packages/bioinformatics.scm (r-edger): Update to 3.26.0.
2019-05-06 00:14:32 +02:00
6dc05d0a86
gnu: r-genomeinfodb: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.20.0.
2019-05-06 00:14:32 +02:00
38142114b7
gnu: r-iranges: Update to 2.18.0.
...
* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.18.0.
2019-05-06 00:14:32 +02:00
192ddab3e5
gnu: r-s4vectors: Update to 0.22.0.
...
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.22.0.
2019-05-06 00:14:31 +02:00
8bdf7d55be
gnu: r-bioccheck: Update to 1.20.0.
...
* gnu/packages/bioinformatics.scm (r-bioccheck): Update to 1.20.0.
2019-05-06 00:14:31 +02:00
e01b72d225
gnu: r-biocstyle: Update to 2.12.0.
...
* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.12.0.
2019-05-06 00:14:31 +02:00
440af6482a
gnu: r-biocviews: Update to 1.52.0.
...
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.52.0.
2019-05-06 00:14:31 +02:00
ce52cab000
gnu: r-grohmm: Update to 1.18.0.
...
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.18.0.
2019-05-06 00:14:31 +02:00
49f30903f0
gnu: r-shortread: Update to 1.42.0.
...
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.42.0.
2019-05-06 00:14:31 +02:00
fe40f55094
gnu: r-gostats: Update to 2.50.0.
...
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.50.0.
2019-05-06 00:14:30 +02:00
4d88dbe6eb
gnu: r-category: Update to 2.50.0.
...
* gnu/packages/bioinformatics.scm (r-category): Update to 2.50.0.
2019-05-06 00:14:30 +02:00
08d2a26d47
gnu: r-gseabase: Update to 1.46.0.
...
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.46.0.
2019-05-06 00:14:30 +02:00
aa51a241c5
gnu: r-rbgl: Update to 1.60.0.
...
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.60.0.
[propagated-inputs]: Add r-bh.
2019-05-06 00:14:30 +02:00
7f737246d8
gnu: r-annotationforge: Update to 1.26.0.
...
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.26.0.
2019-05-06 00:14:30 +02:00
0a58282de7
gnu: r-dexseq: Update to 1.30.0.
...
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.30.0.
2019-05-06 00:14:30 +02:00
9a39193d45
gnu: r-deseq2: Update to 1.24.0.
...
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.24.0.
2019-05-06 00:14:30 +02:00
0183163d1e
gnu: r-genefilter: Update to 1.66.0.
...
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.66.0.
2019-05-06 00:14:29 +02:00
295f35dfb9
gnu: r-preprocesscore: Update to 1.46.0.
...
* gnu/packages/statistics.scm (r-preprocesscore): Update to 1.46.0.
2019-05-06 00:14:29 +02:00
52b4703c08
gnu: r-rgraphviz: Update to 2.28.0.
...
* gnu/packages/graph.scm (r-rgraphviz): Update to 2.28.0.
2019-05-06 00:14:29 +02:00
3b13b6d777
gnu: r-units: Update to 0.6-3.
...
* gnu/packages/cran.scm (r-units): Update to 0.6-3.
2019-05-06 00:14:29 +02:00
3961b3b900
gnu: Add r-dqrng.
...
* gnu/packages/cran.scm (r-dqrng): New variable.
2019-05-06 00:14:29 +02:00
b8d6dffbdd
gnu: Add r-sitmo.
...
* gnu/packages/cran.scm (r-sitmo): New variable.
2019-05-06 00:14:29 +02:00
0c8960df13
gnu: Add r-clue.
...
* gnu/packages/cran.scm (r-clue): New variable.
2019-05-06 00:14:29 +02:00
be23c491cb
gnu: Add r-batchtools.
...
* gnu/packages/cran.scm (r-batchtools): New variable.
2019-05-06 00:14:28 +02:00
04bf86ba9f
gnu: Add r-blme.
...
* gnu/packages/cran.scm (r-blme): New variable.
2019-05-06 00:14:28 +02:00
2b9d4f5866
gnu: Add r-scrime.
...
* gnu/packages/cran.scm (r-scrime): New variable.
2019-05-06 00:14:28 +02:00
78735b9f34
gnu: Add r-grimport2.
...
* gnu/packages/cran.scm (r-grimport2): New variable.
2019-05-06 00:14:28 +02:00
8128189976
gnu: Add r-rcpphnsw.
...
* gnu/packages/cran.scm (r-rcpphnsw): New variable.
2019-05-06 00:14:28 +02:00
993912905d
gnu: Add r-biocsingular.
...
* gnu/packages/bioconductor.scm (r-biocsingular): New variable.
2019-05-06 00:14:28 +02:00
72032c9d5f
gnu: Add r-base64url.
...
* gnu/packages/cran.scm (r-base64url): New variable.
2019-05-06 00:14:27 +02:00
ba4c0d69b0
gnu: mesa: Update gallium drivers.
...
* gnu/packages/gl.scm (mesa)[arguments]: Update configure-flags for
aarch64 and armhf for gallium drivers.
2019-05-05 20:34:59 +03:00
28b26eca45
installer: Fix typo.
...
* gnu/installer/newt/menu.scm (run-menu-page): Add missing space after
period.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 17:21:18 +02:00
dcfa0acd7b
Correct email and license info for Brendan Tildesley.
...
* gnu/packages/audio.scm: Correct email and license info.
* gnu/packages/ebook.scm: Correct email and license info.
* gnu/packages/fonts.scm: Correct email and license info.
* gnu/packages/freedesktop.scm: Correct email and license info.
* gnu/packages/gnome.scm: Correct email and license info.
* gnu/packages/linux.scm: Correct email and license info.
* gnu/packages/lxde.scm: Correct email and license info.
* gnu/packages/python-web.scm: Correct email and license info.
* gnu/packages/python-xyz.scm: Correct email and license info.
* gnu/packages/python.scm: Correct email and license info.
* gnu/packages/video.scm: Correct email and license info.
* gnu/packages/web.scm: Correct email and license info.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 17:16:51 +02:00
996186b64d
gnu: lz4: Update to 1.9.1.
...
* gnu/packages/compression.scm (lz4): Update to 1.9.1.
2019-05-05 15:33:39 +02:00
ee3ce0d71d
gnu: calibre: Update to 3.42.0.
...
* gnu/packages/ebook.scm (calibre): Update to 3.42.0.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
421c5e92f9
gnu: calibre: Shorten long line.
...
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]: Shorten long line.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
d6dfe8b634
gnu: calibre: Install man pages.
...
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[install-man-pages]:
New phase.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
f3f017dbf0
gnu: calibre: Delete various junk from source.
...
* gnu/packages/ebook.scm (calibre)[source](snippet): Delete various junk from
source.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
62a97dc0fb
gnu: calibre: Remove libxrender as an input.
...
* gnu/packages/ebook.scm (calibre)[inputs]: Remove libxrender.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
68435a7f55
gnu: calibre: Unbundle python2-odfpy.
...
* gnu/packages/ebook.scm (calibre)[snippet]: Remove all of src/odf.
[inputs]: Add python2-odfpy.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
7312a7d073
gnu: calibre: Remove some comments.
...
* gnu/packages/ebook.scm (calibre): There is no unrar in Guix currently, and
pdftohtml is in poppler, so we can remove this comment.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:21 +02:00
eb5f620134
gnu: calibre: Enable tests.
...
* gnu/packages/ebook.scm (calibre): Enable tests.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
cbe399e736
gnu: calibre: Disable sqlite test.
...
* gnu/packages/patches/calibre-remove-test-sqlite.patch: New file.
* gnu/packages/ebook.scm (calibre)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
4bcd0647b7
gnu: calibre: Disable Qt test.
...
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Disable
Qt test.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
f89f5abada
gnu: calibre: Disable bs4 test.
...
* gnu/packages/patches/calibre-remove-test-bs4.patch: New file.
* gnu/packages/ebook.scm (calibre)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
6e1ab5fadb
gnu: calibre: Use "linux.py" to install desktop files.
...
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Modify.
[install-mimetypes]: Remove.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
ad74978a95
gnu: Add python-soupsieve, python2-soupsieve.
...
* gnu/packages/python-xyz.scm (python-soupsieve): New variable.
(python2-soupsieve): New variable.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
b01cde1ac9
gnu: calibre: Disable tests that require networking.
...
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[configure]: Modify.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
15871b4087
gnu: calibre: Remove unrar test.
...
* gnu/packages/patches/calibre-remove-test-unrar.patch: New file.
* gnu/packages/ebook.scm (calibre)[source]: Use it.
* gnu/local.mk (dist_patch_DATA): Add it.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
c187c9d786
gnu: python-regex, python2-regex: Update to 2019.04.14.
...
* gnu/packages/python.scm (python-regex, python2-regex): Update to 2019.04.14.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
adc25b68b1
gnu: calibre: Add python2-html2text as an input.
...
* gnu/packages/ebook.scm (calibre)[inputs]: Add python2-html2text.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
7a82ceb7bb
gnu: Add python-html2text, python2-html2text.
...
* gnu/packages/python-web.scm (python-html2text): New variable.
(python2-html2text): New variable.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
13068a8ccf
gnu: calibre: Move font unbundling to after check phase.
...
* gnu/packages/ebook.scm (calibre)[snippet]: Modify.
[native-inputs]: Remove font-liberation.
[inputs]: Add font-liberation.
[arguments]<#:phases>[install-font-liberation]: Delete phase.
[unbundle-font-liberation]: New phase.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
4f29902080
gnu: calibre: Add missing dependencies as indicated by tests.
...
* gnu/packages/ebook.scm (calibre)[inputs]: Add python2-html5lib,
python2-psutil.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:20 +02:00
b0038957f5
gnu: calibre: Build rapydscript.
...
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]: Modify.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:19 +02:00
d243b41dd0
gnu: calibre: Use system mathjax.
...
* gnu/packages/ebook.scm (calibre)[arguments]<#:phases>[build-extra]:
New phase.
[inputs]: Add js-mathjax.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:19 +02:00
4e6f8a1442
gnu: calibre: Update to 3.41.3.
...
* gnu/packages/ebook.scm (calibre): Update to 3.41.3.
[inputs]: Replace python2-cssutils by python2-css-parser.
[snippet]: Modify.
* gnu/packages/patches/calibre-use-packaged-feedparser.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
Signed-off-by: Danny Milosavljevic <dannym@scratchpost.org>
2019-05-05 14:44:19 +02:00
c8e214e80d
gnu: wgetpaste: Make all dependencies explicit.
...
* gnu/packages/wget.scm (wgetpaste)[arguments]: Replace limited
‘use-inputs’ phase with a ‘wrap-program’ one.
2019-05-05 00:10:44 +02:00
4d3990c9f3
gnu: wgetpaste: Return #t from all phases.
...
* gnu/packages/wget.scm (wgetpaste)[arguments]: Return #t from ‘install’ phase.
2019-05-05 00:10:44 +02:00
fbc2531395
gnu: tor: Remove explicit hardening flags.
...
* gnu/packages/tor.scm (tor)[arguments]: Remove #:configure-flags that
merely confirm the defaults.
2019-05-05 00:10:24 +02:00
0d6cfaa3dd
gnu: nano: Update to 4.2.
...
* gnu/packages/nano.scm (nano): Update to 4.2.
2019-05-04 15:43:22 -04:00
4e933afda4
gnu: python-cffi: Fix tests.
...
Fixes issue #35371 (see: https://bugs.gnu.org/35371 ).
* gnu/packages/libffi.scm (python-cffi)[phases]
{patch-paths-of-dynamically-loaded-libraries}: Add phase.
[home-page]: Update URL.
2019-05-04 13:52:57 -04:00
8aeef53497
gnu: coq-bignums: Update to 8.9.0.
...
* gnu/packages/coq.scm (coq-bignums): Update to 8.9.0.
2019-05-04 19:41:44 +02:00
f5b0d90490
gnu: coq-mathcomp: Update to 1.8.0.
...
* gnu/packages/coq.scm (coq-mathcomp): Update to 1.8.0.
2019-05-04 19:41:35 +02:00
1f1ea9c0cb
gnu: coq-gappa: Update to 1.3.4.
...
* gnu/packages/coq.scm (coq-gappa): Update to 1.3.4.
2019-05-04 19:41:28 +02:00
e03e1b5584
gnu: coq: Update to 8.9.0.
...
* gnu/packages/coq.scm (coq): Update to 8.9.0.
(coq-autosubst): Update to latest commit.
(coq-equations): Update to 1.2-beta2.
2019-05-04 19:41:04 +02:00
a8bb8fccd8
gnu: harfbuzz: Update source hash.
...
The previous tarball was modified in-place; see
<https://github.com/harfbuzz/harfbuzz/issues/1641 >.
* gnu/packages/gtk.scm (harfbuzz)[source](sha256): Update.
2019-05-04 18:01:12 +02:00
57e839a26d
gnu: opus: Update to 1.3.1.
...
* gnu/packages/xiph.scm (opus): Update to 1.3.1.
2019-05-04 16:53:49 +02:00
baff6b5e85
gnu: libdrm: Update to 2.4.98.
...
* gnu/packages/xdisorg.scm (libdrm): Update to 2.4.98.
2019-05-04 16:53:49 +02:00
111adbd338
gnu: libpsl: Update to 0.21.0.
...
* gnu/packages/web.scm (libpsl): Update to 0.21.0.
2019-05-04 16:53:49 +02:00
11bab809e1
gnu: python-cython: Update to 0.29.7.
...
* gnu/packages/python-xyz.scm (python-cython): Update to 0.29.7.
2019-05-04 16:53:49 +02:00
9adae0a017
gnu: pcre2: Update to 10.33.
...
* gnu/packages/pcre.scm (pcre2): Update to 10.33.
2019-05-04 16:53:49 +02:00
569f53e1a8
gnu: imagemagick: Update to 6.9.10-42.
...
* gnu/packages/imagemagick.scm (imagemagick): Update to 6.9.10-42.
2019-05-04 16:53:49 +02:00
87d336e20f
gnu: gtk+: Update to 3.24.8.
...
* gnu/packages/gtk.scm (gtk+): Update to 3.24.8.
[source](snippet): Remove.
2019-05-04 16:53:49 +02:00
c9c63edbde
gnu: gstreamer: Update to 1.16.0.
...
* gnu/packages/gstreamer.scm (gstreamer, gst-plugins-base, gst-plugins-bad,
gst-plugins-ugly, python-gst): Update to 1.16.0.
(gst-plugins-good): Likewise.
[source](patches): Remove.
[arguments]: Remove #:make-flags.
(gst-libav): Update to 1.16.0.
[inputs]: Change FFMPEG-3.4 to FFMPEG.
* gnu/packages/patches/gst-plugins-good-libvpx-compat.patch: Delete file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.
2019-05-04 16:53:48 +02:00
46c39e1e47
gnu: orc: Update to 0.4.29.
...
* gnu/packages/gstreamer.scm (orc): Update to 0.4.29.
2019-05-04 16:53:48 +02:00
1ce1ebc303
gnu: mesa: Update to 19.0.3.
...
* gnu/packages/gl.scm (mesa): Update to 19.0.3.
2019-05-04 16:53:48 +02:00
420b013724
gnu: libpng: Don't build 'libpng16.a'.
...
* gnu/packages/image.scm (libpng)[arguments]: Add #:configure-flags.
2019-05-04 16:25:54 +02:00
3784b580ef
gnu: QPDF: Update to 8.4.1.
...
* gnu/packages/pdf.scm (qpdf): Update to 8.4.1.
2019-05-04 16:25:53 +02:00
ae528aaf19
gnu: perl: Update to 5.28.2.
...
* gnu/packages/perl.scm (perl): Update to 5.28.2.
2019-05-04 16:25:53 +02:00
45a3ad2ea6
gnu: nghttp2: Update to 1.38.0.
...
* gnu/packages/web.scm (nghttp2): Update to 1.38.0.
2019-05-04 16:25:53 +02:00
63432c9647
gnu: SQLite: Update to 3.28.0.
...
* gnu/packages/sqlite.scm (sqlite): Update to 3.28.0.
2019-05-04 16:25:53 +02:00
e77412362f
gnu: OpenBLAS: Update to 0.3.6.
...
* gnu/packages/maths.scm (openblas): Update to 0.3.6.
2019-05-04 16:25:53 +02:00
27ed6960be
gnu: icu4c: Update to 64.2.
...
* gnu/packages/icu4c.scm (icu4c): Update to 64.2.
[native-inputs]: Add PYTHON.
2019-05-04 16:25:52 +02:00
3b08c873d8
gnu: fontforge: Update to 20190413.
...
* gnu/packages/fontutils.scm (fontforge): Update to 20190413.
2019-05-04 16:25:52 +02:00
de7dae6e10
gnu: CMake: Update to 3.14.3.
...
* gnu/packages/cmake.scm (cmake-minimal): Update to 3.14.3.
2019-05-04 16:25:52 +02:00
176003dafe
gnu: meson: Update to 0.50.1.
...
* gnu/packages/build-tools.scm (meson): Update to 0.50.1.
2019-05-04 16:25:52 +02:00
a5e9413ce8
gnu: python: Disable failing test.
...
Fixes issue #35556 (see: https://bugs.gnu.org/35556 ).
* gnu/packages/python.scm (python-3.7)[make-flags]: Exclude the test "test_asyncio",
which currently fails.
2019-05-03 23:46:29 -04:00
187f9636f1
gnu: ocaml-menhir: Update to 20181113.
...
* gnu/packages/ocaml.scm (ocaml-menhir): Update to 20181113.
Signed-off-by: Julien Lepiller <julien@lepiller.eu>
2019-05-03 20:46:22 +02:00
52c3cb2687
gnu: Add python-django-extensions.
...
* gnu/packages/django.scm (python-django-extensions): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-03 17:47:30 +02:00
8d73558d50
gnu: Add python-django-taggit.
...
* gnu/packages/django.scm (python-django-taggit): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-05-03 17:47:30 +02:00
78d6d5e8d9
shepherd: Include /etc/localtime in service containers.
...
Fixes a bug whereby Tor (for example) would emit syslog messages with a
UTC timestamp instead of local time.
* gnu/build/shepherd.scm (default-mounts): Add /etc/localtime to
MAPPINGS.
2019-05-03 17:47:29 +02:00
c8bb86f51c
gnu: tor: Update to 0.4.0.5.
...
* gnu/packages/tor.scm (tor): Update to 0.4.0.5.
2019-05-03 15:22:22 +02:00
02eb70bd21
gnu: Add python-css-parser, python2-css-parser.
...
* gnu/packages/python-web.scm (python-css-parser, python2-css-parser): New
variables.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2019-05-03 13:58:22 +02:00
c2dd07aba5
gnu: web: Change 'l:' prefix to 'license:'.
...
* gnu/packages/web.scm: Change #:prefix l: to #:prefix license:.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2019-05-03 13:58:21 +02:00
9d2d9cb14b
installer: Do not sort the guided partition schemes in the selection page.
...
Previously, the "Everything is one partition" entry would come first in
English but it would be second in French. This change keeps it the
first choice regardless of the language.
* gnu/installer/newt/partition.scm (run-scheme-page): Pass
#:sort-listbox-items? to 'run-scheme-page'.
2019-05-03 13:50:49 +02:00
ecb0df6817
installer: Ensure 'packages' field is a superset of '%base-packages'.
...
Fixes <https://bugs.gnu.org/35541 >.
Reported by Florian Pelz <pelzflorian@pelzflorian.de>.
* gnu/installer/services.scm (system-services->configuration): Generate
a snippet that appends PACKAGES to %BASE-PACKAGES.
2019-05-03 13:50:49 +02:00
3e85909044
Correct email address for ison.
...
* .mailmap, gnu/packages/lxde.scm: Update email address.
Signed-off-by: Andreas Enge <andreas@enge.fr>
2019-05-03 08:45:55 +02:00
d7afe74d60
gnu: r-cluster: Update to 2.0.9.
...
* gnu/packages/statistics.scm (r-cluster): Update to 2.0.9.
[inputs]: Move gfortran from here...
[native-inputs]: ...to here.
2019-05-03 08:00:54 +02:00
f66f40400c
gnu: r-irkernel: Update to 1.0.1.
...
* gnu/packages/cran.scm (r-irkernel): Update to 1.0.1.
2019-05-03 08:00:54 +02:00
27b4bfbe4b
gnu: r-ouch: Update to 2.14-1.
...
* gnu/packages/cran.scm (r-ouch): Update to 2.14-1.
2019-05-03 08:00:53 +02:00
dea3df2bd1
gnu: r-fs: Update to 1.3.0.
...
* gnu/packages/cran.scm (r-fs): Update to 1.3.0.
2019-05-03 08:00:49 +02:00
8d5edc9cea
gnu: linux-libre: Update to 5.0.11.
...
* gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.11.
(%linux-libre-hash): Update hash.
2019-05-02 22:50:01 -04:00
c52fb6e11d
gnu: linux-libre@4.19: Update to 4.19.38.
...
* gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.38.
(%linux-libre-4.19-hash): Update hash.
2019-05-02 22:49:14 -04:00
4dc3f7c7dc
gnu: linux-libre@4.14: Update to 4.14.115.
...
* gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.115.
(%linux-libre-4.14-hash): Update hash.
2019-05-02 22:48:26 -04:00
e2474df6ee
gnu: linux-libre@4.9: Update to 4.9.172.
...
* gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.172.
2019-05-02 22:47:46 -04:00
82329a17f4
gnu: pluma: Use older version of gtksourceview.
...
Reported by L p R n d n <guix@lprndn.info>.
Fixes <https://bugs.gnu.org/35535 >.
* gnu/packages/mate.scm (pluma)[inputs]: Replace gtksourceview with
gtksourceview-3.
2019-05-02 23:12:39 +02:00
2f869b0279
gnu: mate-applets: Use older version of gtksourceview.
...
Reported by L p R n d n <guix@lprndn.info>.
* gnu/packages/mate.scm (mate-applets)[inputs]: Replace gtksourceview with
gtksourceview-3.
2019-05-02 23:12:38 +02:00
48f19e60c4
gnu: le-certs: Update hashes.
...
They added the 3 missing '^M' to all pem certs.
* gnu/packages/certs.scm (le-certs)[inputs]: Update the hashes of
isrgrootx1.pem, letsencryptauthorityx3.pem, letsencryptauthorityx4.pem.
2019-05-02 21:40:41 +08:00
746ac457cc
Merge branch 'version-1.0.0'
2019-05-02 15:32:30 +02:00
c457f109be
gnu: php: Update to 7.3.5.
...
* gnu/packages/php.scm (php): Update to 7.3.5.
2019-05-02 14:53:23 +02:00
d5f4d5b683
gnu: emacs-emms: Update to 5.2.
...
* gnu/packages/emacs-xyz.scm (emacs-emms): Update to 5.2.
2019-05-02 11:54:39 +02:00
5f83b5153a
gnu: python-duniterpy: Update to 0.53.1.
...
* gnu/packages/finance.scm (python-duniterpy): Update to 0.53.1.
2019-05-02 10:22:36 +02:00
45a37f5b05
gnu: emacs-relint: Update to 1.7.
...
* gnu/packages/emacs-xyz.scm (emacs-relint): Update to 1.7.
2019-05-02 10:14:18 +02:00
d34984b9fe
gnu: emacs-xr: Update to 1.11.
...
* gnu/packages/emacs-xyz.scm (emacs-xr): Update to 1.11.
2019-05-02 10:13:20 +02:00
c2974d1e46
gnu: faudio: Update to 19.05.
...
* gnu/packages/audio.scm (faudio): Update to 19.05.
2019-05-02 08:57:24 +02:00
9bec3ba4ca
gnu: python-flexmock: Update to 0.10.4.
...
* gnu/packages/check.scm (python-flexmock): Update to 0.10.4.
2019-05-02 00:52:33 +02:00
123bba720d
gnu: python-hypothesis: Update to 4.18.3.
...
* gnu/packages/check.scm (python-hypothesis): Update to 4.18.3.
2019-05-02 00:38:53 +02:00
56e95d54d2
gnu: python-pytest: Update to 4.4.1.
...
* gnu/packages/check.scm (python-pytest): Update to 4.4.1.
[arguments]: Enable previously failing tests.
2019-05-02 00:38:53 +02:00
f1e9999b5f
gnu: boost: Update to 1.70.0.
...
* gnu/packages/boost.scm (boost): Update to 1.70.0.
2019-05-02 00:38:53 +02:00
0a404bdb5e
gnu: libuv: Update to 1.28.0.
...
* gnu/packages/libevent.scm (libuv): Update to 1.28.0.
2019-05-02 00:38:53 +02:00
3d8f6577bf
gnu: util-linux: Update to 2.33.2.
...
* gnu/packages/linux.scm (util-linux): Update to 2.33.2.
2019-05-02 00:38:53 +02:00
46d258cbe2
gnu: pixman: Update to 0.38.4.
...
* gnu/packages/xdisorg.scm (pixman): Update to 0.38.4.
2019-05-02 00:38:53 +02:00
f6e25b3358
gnu: python: Update to 3.7.3.
...
* gnu/packages/python.scm (python-3.7): Update to 3.7.3.
2019-05-02 00:38:53 +02:00
1f62621607
gnu: python-more-itertools: Update to 7.0.0.
...
* gnu/packages/python-xyz.scm (python-more-itertools): Update to 7.0.0.
2019-05-02 00:38:53 +02:00
922fbf8a66
gnu: jemalloc: Update to 5.2.0.
...
* gnu/packages/jemalloc.scm (jemalloc): Update to 5.2.0.
2019-05-02 00:38:53 +02:00
2da9b81837
gnu: harfbuzz: Update to 2.4.0.
...
* gnu/packages/gtk.scm (harfbuzz): Update to 2.4.0.
2019-05-02 00:38:52 +02:00
1ec290e27a
gnu: curl: Update to 7.64.1.
...
* gnu/packages/curl.scm (curl): Update to 7.64.1.
2019-05-02 00:38:52 +02:00
8b5b3acab3
gnu: libpng: Remove graft for 1.6.37.
...
* gnu/packages/image.scm (libpng): Update to 1.6.37.
[replacement]: Remove field.
(libpng-1.6.37): Remove variable.
2019-05-02 00:38:52 +02:00
8de1979d7c
gnu: openjpeg: Don't build 'libopenjp2.a'.
...
* gnu/packages/image.scm (openjpeg)[arguments]: Add #:configure-flags.
2019-05-02 00:38:52 +02:00
de1b5e4959
gnu: openjpeg: Incorporate grafted changes.
...
* gnu/packages/image.scm (openjpeg): Update to 2.3.1.
[replacement]: Remove.
[source]: Change to GIT-FETCH.
2019-05-02 00:38:52 +02:00
50943b4878
gnu: lcms: Incorporate grafted changes.
...
* gnu/packages/ghostscript.scm (lcms)[replacement]: Remove.
[source](patches): New field.
(lcms/fixed): Remove variable.
2019-05-02 00:38:52 +02:00
c078f1b08b
gnu: texlive-bin: Adapt to Poppler 0.75.
...
This is a follow-up to commit 2eb92ce85f
2019-05-02 00:38:52 +02:00
3b458d5462
Merge branch 'master' into core-updates
2019-05-01 23:11:41 +02:00
14da3daafc
gnu: termite: Update to 15.
...
* gnu/packages/terminals.scm (termite): Update to 15.
2019-05-01 22:15:02 +02:00
03c59a2525
gnu: vte-ng: Update to 0.56.2.a.
...
* gnu/packages/gnome.scm (vte-ng): Update to 0.56.2.a.
[native-inputs]: Add GCC-7.
[arguments]: Add GCC7 workaround.
2019-05-01 22:15:02 +02:00
a0d44bb09f
gnu: spice: Update to 0.14.2 [fixes CVE-2019-3813].
...
* gnu/packages/spice.scm (spice): Update to 0.14.2.
2019-05-01 22:15:01 +02:00
a550da6247
gnu: spice-protocol: Update to 0.14.0.
...
* gnu/packages/spice.scm (spice-protocol): Update to 0.14.0.
(spice-protocol-0.12): New public variable.
(spice-gtk)[propagated-inputs]: Change SPICE-PROTOCOL to SPICE-PROTOCOL-0.12.
2019-05-01 22:15:01 +02:00
15ada26abb
gnu: signify: Update to 25.
...
* gnu/packages/crypto.scm (signify): Update to 25.
2019-05-01 22:15:01 +02:00
a5006ede7f
gnu: signify: Don't use unstable tarball.
...
* gnu/packages/crypto.scm (signify)[source]: Change to GIT-FETCH.
2019-05-01 22:15:01 +02:00
f99418e3f3
gnu: ungoogled-chromium: Update to 74.0.3729.131-0.9e33022 [fixes CVE-2019-5824].
...
* gnu/packages/chromium.scm (%chromium-version): Update to 74.0.3729.131.
(ungoogled-chromium-source): Update Chromium hash.
2019-05-01 22:15:01 +02:00
ca86b0bae3
gnu: ungoogled-chromium: Unbundle openjpeg again.
...
This is a follow-up to commit 40594fdcb9e360d68e5444771b5467ba5bbbfcf2.
* gnu/packages/chromium.scm (%preserved-third-party-files): Remove
'third_party/pdfium/third_party/libopenjpeg20'.
(ungoogled-chromium)[arguments]: Fix typo in #:configure-flags.
2019-05-01 22:15:01 +02:00
bd9d5dbb86
gnu: php: Disable failing tests on armhf.
...
* gnu/packages/php.scm (php)[arguments]: Disable two failing tests on
armhf.
2019-05-01 21:13:34 +02:00
9c941364bf
vm: Build ISOs and VM images in a UTF-8 environment.
...
Fixes a bug whereby building an image containing non-ASCII file names
would fail due to improper decoding of file names.
* gnu/system/vm.scm (iso9660-image, qemu-image): Set GUIX_LOCPATH and
call 'setlocale' in the build environment.
2019-05-01 21:11:22 +02:00
17acc215bf
gnu: guix: Update to 326dcbf.
2019-05-01 17:29:02 +02:00
326dcbf1b3
gnu: guix: Update to 1.0.0.
2019-05-01 14:11:34 +02:00
ae66feeee0
gnu: r-irkernel: Update to 1.0.0.
...
* gnu/packages/cran.scm (r-irkernel): Update to 1.0.0.
2019-05-01 11:13:38 +02:00
944d4c483a
gnu: r-officer: Update to 0.3.4.
...
* gnu/packages/cran.scm (r-officer): Update to 0.3.4.
2019-05-01 10:10:04 +02:00
0b5b9d69a8
gnu: r-lmtest: Update to 0.9-37.
...
* gnu/packages/cran.scm (r-lmtest): Update to 0.9-37.
2019-05-01 10:09:52 +02:00
8bc8cea987
gnu: r-shinyfiles: Update to 0.7.3.
...
* gnu/packages/cran.scm (r-shinyfiles): Update to 0.7.3.
2019-05-01 10:09:10 +02:00
4c13ccbf39
vm-image: Add 'label' field.
...
* gnu/system/examples/vm-image.tmpl (label): New field.
2019-05-01 09:33:54 +02:00
af74e4350f
gnu: ungoogled-chromium: Update to 74.0.3729.108-0.9e33022.
...
* gnu/packages/chromium.scm (%preserved-third-party-files): Add four new
directories, delete three obsolete.
(%chromium-version, %ungoogled-revision, %debian-revision): Update for 74.
(ungoogled-chromium-source): Update hashes. Ignore Debians GCC6 patches.
(ungoogled-chromium)[arguments]: Add "use_system_openjpeg" to #:configure-flags.
2019-05-01 01:31:31 +02:00
947134492e
gnu: Remove greenisland.
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* gnu/packages/display-managers.scm (greenisland): Remove variable.
2019-05-01 01:31:31 +02:00
4ee55938de
gnu: u-boot-tools: Only run full test suite on x86_64.
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* gnu/packages/bootloaders (u-boot-tools)[arguments]<#:phases>[check]:
Modify phase.
[check-x86]: New phase.
[patch]: New phase.
2019-04-30 13:58:37 -07:00
8d2d68a5fb
gnu: ocaml-migrate-parsetree: Name checkout.
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* gnu/packages/ocaml.scm (ocaml-migrate-parsetree)[source]: Add FILE-NAME.
2019-04-30 21:07:13 +02:00
b7a4cb5206
gnu: ocaml-opam-file-format: Name checkout.
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* gnu/packages/ocaml.scm (ocaml-opam-file-format)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
ad09f3b024
gnu: sbcl-cl-syntax: Name checkout.
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* gnu/packages/lisp.scm (sbcl-cl-syntax)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
2af4698016
gnu: emacs-dired-sidebar: Name checkout.
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* gnu/packages/emacs-xyz.scm (emacs-dired-sidebar)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
0abf2d91cf
gnu: sbcl-rfc2388: Name checkout.
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* gnu/packages/lisp.scm (sbcl-rfc2388)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
7026f6b27e
gnu: ocaml-ppx-typerep-conv: Name checkout.
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* gnu/packages/ocaml.scm (ocaml-ppx-typerep-conv)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
3a75925e73
gnu: ocaml-ppx-hash: Name checkout.
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* gnu/packages/ocaml.scm (ocaml-ppx-hash)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
4a6de00217
gnu: ocaml-ppx-enumerate: Name checkout.
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* gnu/packages/ocaml.scm (ocaml-ppx-enumerate)[source]: Add FILE-NAME.
2019-04-30 21:07:12 +02:00
fbd08d42a6
gnu: ocaml-core: Name checkout.
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* gnu/packages/ocaml.scm (ocaml-core)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
5924f621bb
gnu: sbcl-trivial-backtrace: Name checkout.
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* gnu/packages/lisp.scm (sbcl-trivial-backtrace)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
a97fc9cd8e
gnu: sbcl-myway: Name checkout.
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* gnu/packages/lisp.scm (sbcl-myway)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
8f4b57000d
gnu: emacs-helm-pass: Name checkout.
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* gnu/packages/emacs-xyz.scm (emacs-helm-pass)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
2ba3dc0bdf
gnu: emacs-zotxt: Name checkout.
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* gnu/packages/emacs-xyz.scm (emacs-zotxt)[source]: Add FILE-NAME.
2019-04-30 21:07:11 +02:00
6f5be83cd7
gnu: u-boot-tools: Only run full test suite on x86_64.
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* gnu/packages/bootloaders (u-boot-tools)[arguments]<#:phases>[check]:
Modify phase.
[check-x86]: New phase.
[patch]: New phase.
2019-04-30 19:49:16 +02:00
094aaa1a1e
gnu: gexiv2: Skip failing test on 32-bit platforms.
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* gnu/packages/gnome.scm (gexiv2)[arguments]: New field.
2019-04-30 18:29:10 +02:00
9b241d4ce2
gnu: python-nose-timer: Update to 0.7.5.
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* gnu/packages/check.scm (python-nose-timer): Update to 0.7.5.
2019-04-30 17:11:52 +02:00
e976e199c4
gnu: sbcl-cl+ssl: Name checkout.
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* gnu/packages/lisp.scm (sbcl-cl+ssl)[source]: Add FILE-NAME.
2019-04-30 17:11:36 +02:00
e76a972bde
gnu: ghc-esqueleto: Name checkout.
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* gnu/packages/haskell.scm (ghc-esqueleto)[source]: Add FILE-NAME.
2019-04-30 17:05:22 +02:00
9e6cce4440
gnu: ocaml-ppx-tools: Name checkout.
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* gnu/packages/ocaml.scm (ocaml-ppx-tools)[source]: Add FILE-NAME.
2019-04-30 17:04:13 +02:00
45ea12f31e
gnu: sbcl-cl-base64: Name checkout.
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* gnu/packages/lisp.scm (sbcl-cl-base64)[source]: Add FILE-NAME.
2019-04-30 17:03:08 +02:00
4fdad3edc3
gnu: eid-mw: Name checkout.
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* gnu/packages/security-token.scm (eid-mw)[source]:
Add FILE-NAME.
2019-04-30 17:02:38 +02:00
e4b2866cd0
gnu: libplist: Run tests sequentially.
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Fixes <https://bugs.gnu.org/35501 >.
Reported by Brendan Tildesley <mail@brendan.scot>.
* gnu/packages/libusb.scm (libplist)[arguments]: New field.
2019-04-30 16:47:29 +02:00
Ricardo Wurmus