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39474 Commits

Author SHA1 Message Date
Ricardo Wurmus 66abc619d5
gnu: Add missing file. 
* gnu/local.mk (GNU_SYSTEM_MODULES): Add gnu/installer/newt/user.scm.
 2019-01-28 23:28:46 +01:00
Gábor Boskovits 95bc85b7da
gnu: Add openjdk 11. 
* gnu/packages/java.scm (openjdk11): New variable.

Signed-off-by: Julien Lepiller <julien@lepiller.eu>
 2019-01-28 23:15:27 +01:00
Meiyo Peng 4bddd12ad5
gnu: fish: Use fish-foreign-env to source /etc/profile. 
* gnu/packages/shells.scm (fish): Use fish-foreign-env to source /etc/profile
  when user logs in.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-01-28 23:13:41 +01:00
Meiyo Peng 1d962fc0a1
gnu: Add fish-foreign-env. 
* gnu/packages/shells.scm (fish-foreign-env): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-01-28 23:13:41 +01:00
Meiyo Peng e1dba5bea0
gnu: fish: Update to 3.0.0. 
* gnu/packages/shells.scm (fish): Update to 3.0.0.
  [source]: Remove dead URL.
  [inputs]: Remove bc.  Replace python-wrapper with python.
  [arguments]: Remove configure-flags.  Enable fish to source
  /etc/fish/config.fish.  Enable completions, functions and configurations
  in user's and system's guix profiles.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2019-01-28 23:13:41 +01:00
Ludovic Courtès d1d72830f2
pull: Don't trigger 'hash guix' hint needlessly. 
Previously if ~/.config/guix/current/bin was in $PATH, we'd still
suggest to run 'hash guix' because we'd compare (which "guix") against
/var/guix/profiles/per-user/….

* guix/scripts/pull.scm (build-and-install): Check whether (which
"guix") matches PROFILE or its user-friendly variant.
 2019-01-28 23:13:40 +01:00
Ludovic Courtès 3a8c4860fb
channels: Turn off deprecation warnings when loading 'build-self.scm'. 
* guix/channels.scm (build-from-source): Parameterize
DEPRECATION-WARNING-PORT when loading SCRIPT.
 2019-01-28 23:13:40 +01:00
Ludovic Courtès ea6fb108f6
upstream: Temporarily skip failing test. 
* tests/upstream.scm ("coalesce-sources same version"): Skip.
 2019-01-28 23:13:40 +01:00
Ludovic Courtès f15800946d
gnu: youtube-dl: Update to 2019.01.27. 
* gnu/packages/video.scm (youtube-dl): Update to 2019.01.27.
 2019-01-28 23:13:40 +01:00
Ricardo Wurmus 5a23696a47
gnu: fastcap: Fix build and use INVOKE. 
* gnu/packages/engineering.scm (fastcap)[native-inputs]: Replace texlive-tiny
with a texlive-union including texlive-fonts-amsfonts.
[arguments]: Use INVOKE in build phases.
 2019-01-28 20:30:20 +01:00
Ricardo Wurmus ad34338d1e
gnu: scons: Update to 3.0.3. 
Fixes <https://bugs.gnu.org/34236>.

* gnu/packages/python-xyz.scm (scons): Update to 3.0.3.
[arguments]: Add "bootstrap" phase.
 2019-01-28 20:09:51 +01:00
Ricardo Wurmus 1d1e3676ba
gnu: r-genomicfeatures: Update to 1.34.2. 
* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.34.2.
 2019-01-28 16:27:35 +01:00
Ricardo Wurmus ea0eaf537a
gnu: r-variantannotation: Update to 1.28.10. 
* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.28.10.
 2019-01-28 16:27:35 +01:00
Ricardo Wurmus df00ca25bc
gnu: r-rmpfr: Update to 0.7-2. 
* gnu/packages/cran.scm (r-rmpfr): Update to 0.7-2.
 2019-01-28 16:27:35 +01:00
Ricardo Wurmus 61cb2e3133
gnu: r-waveslim: Update to 1.7.5.1. 
* gnu/packages/cran.scm (r-waveslim): Update to 1.7.5.1.
 2019-01-28 16:27:35 +01:00
Ricardo Wurmus 0207ad9ee8
gnu: r-activity: Update to 1.2. 
* gnu/packages/cran.scm (r-activity): Update to 1.2.
[propagated-inputs]: Remove r-overlap.
 2019-01-28 16:27:35 +01:00
Ricardo Wurmus 211628044e
gnu: r-emmeans: Update to 1.3.2. 
* gnu/packages/cran.scm (r-emmeans): Update to 1.3.2.
 2019-01-28 16:27:35 +01:00
Ricardo Wurmus 62595ee342
gnu: r-th-data: Update to 1.0-10. 
* gnu/packages/cran.scm (r-th-data): Update to 1.0-10.
 2019-01-28 16:27:35 +01:00
Ricardo Wurmus ddd168ff32
gnu: r-acceptancesampling: Update to 1.0-6. 
* gnu/packages/cran.scm (r-acceptancesampling): Update to 1.0-6.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 7d4b98181a
gnu: r-vioplot: Update to 0.3.0. 
* gnu/packages/cran.scm (r-vioplot): Update to 0.3.0.
[propagated-inputs]: Add r-zoo.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus b4b1a9440b
gnu: r-jomo: Update to 2.6-6. 
* gnu/packages/cran.scm (r-jomo): Update to 2.6-6.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 9e0162df85
gnu: r-fitdistrplus: Update to 1.0-14. 
* gnu/packages/cran.scm (r-fitdistrplus): Update to 1.0-14.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus fe24aa2a4f
gnu: r-colorspace: Update to 1.4-0. 
* gnu/packages/cran.scm (r-colorspace): Update to 1.4-0.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus b3578189aa
gnu: r-ggmap: Update to 2.6.2. 
* gnu/packages/cran.scm (r-ggmap): Update to 2.6.2.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 48246864b1
gnu: r-ranger: Update to 0.11.1. 
* gnu/packages/statistics.scm (r-ranger): Update to 0.11.1.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 56daae7b58
gnu: r-prabclus: Update to 2.2-7. 
* gnu/packages/statistics.scm (r-prabclus): Update to 2.2-7.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus f308d426fd
gnu: r-gplots: Update to 3.0.1.1. 
* gnu/packages/statistics.scm (r-gplots): Update to 3.0.1.1.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 69e9899a2f
gnu: r-hmisc: Update to 4.2-0. 
* gnu/packages/statistics.scm (r-hmisc): Update to 4.2-0.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 19fdd77c07
gnu: r-purrr: Update to 0.3.0. 
* gnu/packages/statistics.scm (r-purrr): Update to 0.3.0.
[propagated-inputs]: Remove r-tibble.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus c21c5188f4
gnu: r-e1071: Update to 1.7-0.1. 
* gnu/packages/statistics.scm (r-e1071): Update to 1.7-0.1.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 82dad63ef7
gnu: r-rcpparmadillo: Update to 0.9.200.7.0. 
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.9.200.7.0.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 6d1db05086
gnu: r-openssl: Update to 1.2.1. 
* gnu/packages/statistics.scm (r-openssl): Update to 1.2.1.
[native-inputs]: Add pkg-config.
[propagated-inputs]: Add r-askpass.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 0550c2bf70
gnu: r-checkmate: Update to 1.9.1. 
* gnu/packages/statistics.scm (r-checkmate): Update to 1.9.1.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus d0fb25d94a
gnu: r-data-table: Update to 1.12.0. 
* gnu/packages/statistics.scm (r-data-table): Update to 1.12.0.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 5d9b140b29
gnu: r-qtl: Update to 1.44-9. 
* gnu/packages/bioinformatics.scm (r-qtl): Update to 1.44-9.
 2019-01-28 16:27:34 +01:00
Ricardo Wurmus 439d821a3b
gnu: r-optparse: Update to 1.6.1. 
* gnu/packages/bioinformatics.scm (r-optparse): Update to 1.6.1.
 2019-01-28 16:27:33 +01:00
Ricardo Wurmus 9d3a467214
gnu: Add r-askpass. 
* gnu/packages/cran.scm (r-askpass): New variable.
 2019-01-28 16:27:33 +01:00
Ricardo Wurmus 2b106a8d71
gnu: Add r-sys. 
* gnu/packages/cran.scm (r-sys): New variable.
 2019-01-28 16:27:33 +01:00
Ludovic Courtès f20f168121
nls: Update 'de' translation of the manual. 2019-01-28 15:45:48 +01:00
Ludovic Courtès 7d2be1277b
packages: 'package-input-rewriting' can take a promise. 
* guix/packages.scm (package-input-rewriting): Allow REPLACEMENTS to be
a promise.
* gnu/packages/guile.scm (package-for-guile-2.0): Delay the first
argument to 'package-input-rewriting'.
 2019-01-28 15:45:48 +01:00
Ludovic Courtès 796a4491fd
doc: Clarify 'sudo' vs. 'guix pull' and 'guix system reconfigure'. 
* doc/guix.texi (Proceeding with the Installation): Clarify use of
"sudo" with "guix pull" and "guix system reconfigure".
 2019-01-28 15:45:48 +01:00
Ludovic Courtès 10b507b234
gnu: Remove now unused 'package-for-guile-2.2' procedure. 
* gnu/packages/guile.scm (package-for-guile-2.2): Remove.
 2019-01-28 15:45:48 +01:00
Ricardo Wurmus 40864d79fc
gnu: mumi: Update to 0.0.0-3.ea5a738. 
* gnu/packages/mail.scm (mumi): Update to 0.0.0-3.ea5a738.
 2019-01-28 15:27:16 +01:00
swedebugia cd81199cbd
gnu: artanis: Update to 0.3.1. 
* gnu/packages/guile-xyz.scm (artanis): Update to 0.3.1.
[snippet]: Remove bundled guile-redis.
[inputs]: Add guile-redis.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
 2019-01-28 15:19:46 +01:00
Ricardo Wurmus 0791437f97
gnu: Move most packages from guile.scm to new module. 
* gnu/packages/guile.scm (artanis, guildhall, guile-aspell, guile-bash,
guile-8sync, guile-daemon, guile-dsv, guile-fibers, guile-syntax-highlight,
guile-sjson, guile-colorized, guile-pfds, guile-aa-tree, guile-simple-zmq,
jupyter-guile-kernel, guile-sparql, guile-debbugs, guile-email,
guile-debbugs-next, guile-newt, guile-mastodon, guile-parted, guile-xosd,
guile-dbi, guile-dbd-sqlite3, guile-config, guile-hall, guile-ics, guile-wisp,
guile-sly, g-wrap, guile-miniadapton, guile-reader, guile2.2-reader,
guile-ncurses, guile-ncurses/gpm, guile-lib, guile2.0-lib, guile2.2-lib,
guile-minikanren, guile2.0-minikanren, guile2.2-minikanren, guile-irregex,
guile2.0-irregex, guile2.2-irregex, haunt, guile2.0-haunt, guile2.2-haunt,
guile-redis, guile2.0-redis, guile2.2-redis, guile-commonmark,
guile2.0-commonmark, guile2.2-commonmark, mcron, mcron2): Move these variables
from here...
* gnu/packages/guile-xyz.scm: ...to this new file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu/installer.scm,
gnu/packages/bioinformatics.scm,
gnu/packages/ci.scm,
gnu/packages/gtk.scm,
gnu/packages/guile.scm,
gnu/packages/mail.scm,
gnu/packages/package-management.scm,
gnu/packages/skribilo.scm,
gnu/packages/web.scm,
gnu/services/mcron.scm: Update module references.
 2019-01-28 14:57:10 +01:00
Ricardo Wurmus 415ae33073
gnu: python-discover: Use PYPI-URI. 
* gnu/packages/check.scm (python-discover)[source]: Use PYPI-URI.
 2019-01-28 13:41:38 +01:00
Ricardo Wurmus cb539b7c12
gnu: python-testlib: Use PYPI-URI. 
* gnu/packages/check.scm (python-testlib)[source]: Use PYPI-URI.
 2019-01-28 13:41:06 +01:00
Ricardo Wurmus 9fcedf0792
gnu: python-testrepository-bootstrap: Use PYPI-URI. 
* gnu/packages/check.scm (python-testrepository-bootstrap)[source]: Use
PYPI-URI.
 2019-01-28 13:40:16 +01:00
Ricardo Wurmus 6571bba06b
gnu: python2-jsonrpclib: Use PYPI-URI. 
* gnu/packages/python-xyz.scm (python2-jsonrpclib)[source]: Use PYPI-URI.
 2019-01-28 12:24:26 +01:00
Ricardo Wurmus 0ca1d040d7
gnu: python-pykafka: Use PYPI-URI. 
* gnu/packages/python-xyz.scm (python-pykafka)[source]: Use PYPI-URI.
 2019-01-28 12:24:26 +01:00