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Author SHA1 Message Date
Ricardo Wurmus
60d7bdf53d
gnu: r-tibble: Update to 3.1.4. 
* gnu/packages/statistics.scm (r-tibble): Update to 3.1.4.
 2021-09-30 12:39:45 +02:00
Ricardo Wurmus
3f631e9a6f
gnu: r-knitr: Update to 1.34. 
* gnu/packages/statistics.scm (r-knitr): Update to 1.34.
[propagated-inputs]: Remove r-markdown.
 2021-09-30 12:39:45 +02:00
Ricardo Wurmus
7465095951
gnu: r-stringi: Update to 1.7.4. 
* gnu/packages/statistics.scm (r-stringi): Update to 1.7.4.
 2021-09-30 12:39:45 +02:00
Ricardo Wurmus
81781becae
gnu: r-digest: Update to 0.6.28. 
* gnu/packages/statistics.scm (r-digest): Update to 0.6.28.
 2021-09-30 12:39:45 +02:00
Ricardo Wurmus
b70124ee3f
gnu: r-survival: Update to 3.2-13. 
* gnu/packages/statistics.scm (r-survival): Update to 3.2-13.
 2021-09-30 12:39:45 +02:00
Ricardo Wurmus
924dc71e57
gnu: r-mgcv: Update to 1.8-37. 
* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-37.
 2021-09-30 12:39:44 +02:00
Ricardo Wurmus
669d047e82
gnu: r-nlme: Update to 3.1-153. 
* gnu/packages/statistics.scm (r-nlme): Update to 3.1-153.
 2021-09-30 12:39:44 +02:00
Ricardo Wurmus
2fa8bf608e
gnu: r-lattice: Update to 0.20-45. 
* gnu/packages/statistics.scm (r-lattice): Update to 0.20-45.
 2021-09-30 12:39:44 +02:00
Ricardo Wurmus
e370108436
gnu: r-dt: Update to 0.19. 
* gnu/packages/statistics.scm (r-dt): Update to 0.19.
[source]: Remove minified JavaScript in a snippet.
[arguments]: Minify JavaScript inputs.
[propagated-inputs]: Add r-jquerylib.
[inputs]: Add js-selectize.
[native-inputs]: Add uglifyjs, datatables-plugins, js-nouislider, and all
JavaScript source files.
[licenses]: Remove asl2.0 from the list because selectize is no longer
included.
 2021-09-30 12:39:29 +02:00
Ludovic Courtès
d9dfbf886d
Merge branch 'master' into core-updates-frozen 2021-09-07 14:19:08 +02:00
Ludovic Courtès
b949f34f31
gnu: Use the non-deprecated TeX packages. 
This commit leaves 'dblatex' and 'texlive-hyperref' as users of
deprecated packages, but these have many dependents.

* gnu/packages/bioinformatics.scm (discrover)[native-inputs]: Use
non-deprecated TeX Live packages.
(velvet)[native-inputs]: Likewise.
* gnu/packages/chez.scm (chez-scheme)[native-inputs]: Likewise.
(chez-web)[native-inputs]: Likewise.
* gnu/packages/engineering.scm (fastcap)[native-inputs]: Likewise.
* gnu/packages/guile-xyz.scm (emacsy)[native-inputs]: Likewise.
* gnu/packages/maths.scm (hypre)[native-inputs]: Likewise.
* gnu/packages/music.scm (lilypond)[native-inputs]: Likewise.
* gnu/packages/ocaml.scm (ocaml-bibtex2html)[native-inputs]: Likewise.
* gnu/packages/plotutils.scm (asymptote)[native-inputs]: Likewise.
* gnu/packages/python-xyz.scm (python-numpy-documentation)[native-inputs]:
Likewise.
(python-matplotlib-documentation)[native-inputs]: Likewise.
(python-ipython-documentation)[native-inputs]: Likewise.
(python-nbconvert)[native-inputs]: Likewise.
(python-pypandoc)[native-inputs]: Likewise.
* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Likewise.
* gnu/packages/tex.scm (texlive-pstool)[propagated-inputs]: Likewise.
(teximpatient)[native-inputs]: Likewise.
(texlive-latex-pgf)[propagated-inputs]: Likewise.
(texlive-beamer)[propagated-inputs]: Likewise.
 2021-09-06 22:02:15 +02:00
Marius Bakke
c4133c43c7
Merge branch 'master' into core-updates-frozen 
Conflicts:
	gnu/packages/algebra.scm
	gnu/packages/games.scm
	gnu/packages/golang.scm
	gnu/packages/kerberos.scm
	gnu/packages/mail.scm
	gnu/packages/python.scm
	gnu/packages/ruby.scm
	gnu/packages/scheme.scm
	gnu/packages/tex.scm
	gnu/packages/tls.scm
	gnu/packages/version-control.scm
 2021-08-12 00:30:27 +02:00
Thiago Jung Bauermann
2b6bf23c60
gnu: texlive-latex-base: Propagate ‘texlive-latex-l3backend’ 
Some packages need files from ‘texlive-latex-l3backend’ – which is a
supporting package of LaTeX3 – so propagate it from ‘texlive-latex-base’.

* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Remove
‘texlive-latex-l3backend’ from the texlive union.
* gnu/packages/tex.scm (texlive-latex-base)[propagated-inputs]: Add
‘texlive-latex-l3backend’.
(texlive-latex-xkeyval)[native-inputs]: Remove ‘texlive-latex-l3backend’.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
 2021-08-03 18:18:45 +02:00
Marius Bakke
b029be2ee0
Merge branch 'master' into core-updates-frozen 
Conflicts:
	gnu/packages/bioinformatics.scm
	gnu/packages/cmake.scm
	gnu/packages/curl.scm
	gnu/packages/emacs-xyz.scm
	gnu/packages/gpodder.scm
	gnu/packages/music.scm
	gnu/packages/patches/glibc-bootstrap-system.patch
	gnu/packages/python-xyz.scm
	gnu/packages/shells.scm
	gnu/packages/statistics.scm
 2021-07-29 22:34:57 +02:00
Ricardo Wurmus
5a1ce6cf70
gnu: r-matrixstats: Update to 0.60.0. 
* gnu/packages/statistics.scm (r-matrixstats): Update to 0.60.0.
 2021-07-29 17:11:09 +02:00
Ricardo Wurmus
2c625a4969
gnu: r-e1071: Update to 1.7-8. 
* gnu/packages/statistics.scm (r-e1071): Update to 1.7-8.
 2021-07-29 17:11:09 +02:00
Ricardo Wurmus
8437710bbf
gnu: r-with-tests: Add missing TeX Live packages. 
* gnu/packages/statistics.scm (r-with-tests)[native-inputs]: Add
texlive-grfext and texlive-latex-l3backend to the texlive union.
 2021-07-29 13:51:01 +02:00
Ricardo Wurmus
e2ca38e611
gnu: r-ranger: Update to 0.13.1. 
* gnu/packages/statistics.scm (r-ranger): Update to 0.13.1.
 2021-07-28 22:26:55 +02:00
Ricardo Wurmus
8934c48d41
gnu: r-blob: Update to 1.2.2. 
* gnu/packages/statistics.scm (r-blob): Update to 1.2.2.
 2021-07-28 22:26:55 +02:00
Ricardo Wurmus
a30bcf6600
gnu: r-rcpparmadillo: Update to 0.10.6.0.0. 
* gnu/packages/statistics.scm (r-rcpparmadillo): Update to 0.10.6.0.0.
 2021-07-28 22:26:55 +02:00
Ricardo Wurmus
92c837f426
gnu: r-readr: Update to 2.0.0. 
* gnu/packages/statistics.scm (r-readr): Update to 2.0.0.
[propagated-inputs]: Remove r-bh; add r-tzdb and r-vroom.
 2021-07-28 22:26:55 +02:00
Ricardo Wurmus
8c7483196a
gnu: r-tibble: Update to 3.1.3. 
* gnu/packages/statistics.scm (r-tibble): Update to 3.1.3.
 2021-07-28 22:26:55 +02:00
Ricardo Wurmus
ee2bae9385
gnu: r-pryr: Update to 0.1.5. 
* gnu/packages/statistics.scm (r-pryr): Update to 0.1.5.
[propagated-inputs]: Add r-lobstr and r-rcpp.
[native-inputs]: Remove r-rcpp.
 2021-07-28 22:26:55 +02:00
Ricardo Wurmus
5fb96b16a4
gnu: r-stringi: Update to 1.7.3. 
* gnu/packages/statistics.scm (r-stringi): Update to 1.7.3.
 2021-07-28 22:26:55 +02:00
Lars-Dominik Braun
9ac9bc6051
gnu: r-with-tests: Hardcode path to coreutils’ rm 
When running R in a container like this

	guix environment --no-cwd -C --ad-hoc r-minimal -- Rscript -e 'Sys.timezone()'

it would print an additional line

	sh: rm: command not found

before exiting.

* gnu/packages/statistics.scm (r-with-tests) [#:phases]: Add substitute*
to patch call to `rm` and rename phase to reflect what it does now.
 2021-07-28 22:26:19 +02:00
Ricardo Wurmus
2a775745d7
gnu: r-xml: Update to 3.99-0.7. 
* gnu/packages/statistics.scm (r-xml): Update to 3.99-0.7.
 2021-08-24 12:28:12 +02:00
Ricardo Wurmus
871c81d0e6
gnu: r-rsqlite: Update to 2.2.8. 
* gnu/packages/statistics.scm (r-rsqlite): Update to 2.2.8.
 2021-08-24 12:28:12 +02:00
Ricardo Wurmus
e626540d41
gnu: r-rmarkdown: Update to 2.10. 
* gnu/packages/statistics.scm (r-rmarkdown): Update to 2.10.
 2021-08-24 12:28:12 +02:00
Ricardo Wurmus
5b7813fd09
gnu: r-readr: Update to 2.0.1. 
* gnu/packages/statistics.scm (r-readr): Update to 2.0.1.
 2021-08-24 12:28:11 +02:00
Ricardo Wurmus
ccdcb67353
gnu: r-r6: Update to 2.5.1. 
* gnu/packages/statistics.scm (r-r6): Update to 2.5.1.
 2021-08-24 12:28:11 +02:00
Ricardo Wurmus
54b95b640d
gnu: r-survival: Update to 3.2-12. 
* gnu/packages/statistics.scm (r-survival): Update to 3.2-12.
 2021-08-24 12:28:11 +02:00
Ricardo Wurmus
14c3871720
gnu: r-with-tests: Update to 4.1.1. 
* gnu/packages/statistics.scm (r-with-tests): Update to 4.1.1.
 2021-08-24 12:28:04 +02:00
Lars-Dominik Braun
196f171c55
gnu: Add r-datasaurus. 
* gnu/packages/statistics.scm (r-datasaurus): New variable.
 2021-08-06 09:59:27 +02:00
Ludovic Courtès
bc64d9554b
gnu: Use 'search-input-file' when looking for executables. 
* gnu/packages/admin.scm (isc-dhcp): Use 'search-input-file' when
looking for executables.
* gnu/packages/audio.scm (ableton-link): Likewise.
* gnu/packages/benchmark.scm (fio): Likewise.
* gnu/packages/bioinformatics.scm (roary): Likewise.
(ngless): Likewise.
* gnu/packages/boost.scm (boost-for-irods): Likewise.
* gnu/packages/bootloaders.scm (grub): Likewise.
(grub-efi): Likewise.
* gnu/packages/chemistry.scm (inchi): Likewise.
* gnu/packages/dictionaries.scm (ding): Likewise.
* gnu/packages/dlang.scm (ldc): Likewise.
* gnu/packages/education.scm (childsplay): Likewise.
* gnu/packages/emacs-xyz.scm (emacs-hyperbole): Likewise.
(emacs-haskell-mode): Likewise.
(emacs-auctex): Likewise.
(emacs-ggtags): Likewise.
(emacs-graphviz-dot-mode): Likewise.
(emacs-flycheck-grammalecte): Likewise.
(emacs-counsel-notmuch): Likewise.
(emacspeak): Likewise.
(emacs-exwm): Likewise.
(emacs-exwm-x): Likewise.
(emacs-treemacs): Likewise.
(emacs-telega): Likewise.
(emacs-exiftool): Likewise.
* gnu/packages/emulators.scm (higan): Likewise.
* gnu/packages/engineering.scm (freehdl): Likewise.
(librepcb): Likewise.
* gnu/packages/entr.scm (entr): Likewise.
* gnu/packages/file-systems.scm (libeatmydata): Likewise.
(xfstests): Likewise.
(mergerfs): Likewise.
(mergerfs-tools): Likewise.
* gnu/packages/finance.scm (monero-gui): Likewise.
* gnu/packages/flashing-tools.scm (flashrom): Likewise.
* gnu/packages/fontutils.scm (fontforge): Likewise.
* gnu/packages/game-development.scm (python2-renpy): Likewise.
* gnu/packages/games.scm (opensurge): Likewise.
(xboard): Likewise.
(hyperrogue): Likewise.
(flare-game): Likewise.
(chessx): Likewise.
* gnu/packages/geo.scm (grass): Likewise.
* gnu/packages/glib.scm (glib): Likewise.
* gnu/packages/gnome.scm (mm-common): Likewise.
(network-manager-openvpn): Likewise.
(network-manager-vpnc): Likewise.
(network-manager-openconnect): Likewise.
(apostrophe): Likewise.
* gnu/packages/gnupg.scm (pius): Likewise.
(jetring): Likewise.
* gnu/packages/gnuzilla.scm (icedove): Likewise.
* gnu/packages/golang.scm (go-1.4): Likewise.
* gnu/packages/graphviz.scm (xdot): Likewise.
* gnu/packages/guile-xyz.scm (jupyter-guile-kernel): Likewise.
* gnu/packages/haskell-xyz.scm (ghc-hindent): Likewise.
* gnu/packages/ibus.scm (ibus): Likewise.
* gnu/packages/image.scm (phockup): Likewise.
* gnu/packages/irc.scm (quassel): Likewise.
* gnu/packages/java.scm (drip): Likewise.
(ant-bootstrap): Likewise.
(tla2tools): Likewise.
* gnu/packages/julia.scm (julia): Likewise.
* gnu/packages/less.scm (lesspipe): Likewise.
* gnu/packages/libreoffice.scm (libreoffice): Likewise.
* gnu/packages/linux.scm (fuse): Likewise.
(lm-sensors): Likewise.
(bluez): Likewise.
(fakeroot): Likewise.
(inputattach): Likewise.
* gnu/packages/lisp-xyz.scm (sbcl-cl-diskspace): Likewise.
* gnu/packages/lisp.scm (lisp-repl-core-dumper): Likewise.
* gnu/packages/lua.scm (fennel): Likewise.
* gnu/packages/lxde.scm (spacefm): Likewise.
* gnu/packages/mail.scm (public-inbox): Likewise.
* gnu/packages/maths.scm (hdf-java): Likewise.
(maxima): Likewise.
(frama-c): Likewise.
* gnu/packages/messaging.scm (libgadu): Likewise.
* gnu/packages/music.scm (denemo): Likewise.
(curseradio): Likewise.
* gnu/packages/netpbm.scm (netpbm): Likewise.
* gnu/packages/networking.scm (blueman): Likewise.
(squid): Likewise.
(aircrack-ng): Likewise.
* gnu/packages/node.scm (node): Likewise.
(node-llparse-frontend-bootstrap): Likewise.
(node-llparse-bootstrap): Likewise.
(llhttp-bootstrap): Likewise.
(node-lts): Likewise.
* gnu/packages/ocaml.scm (ocaml-4.11): Likewise.
(opam): Likewise.
(ocaml-graph): Likewise.
* gnu/packages/orpheus.scm (orpheus): Likewise.
* gnu/packages/password-utils.scm (password-store): Likewise.
* gnu/packages/python.scm (pypy3): Likewise.
* gnu/packages/qt.scm (qt5ct): Likewise.
* gnu/packages/radio.scm (libosmo-dsp): Likewise.
* gnu/packages/ruby.scm (ruby-pandoc-ruby): Likewise.
* gnu/packages/rust.scm (rust-1.30): Likewise.
* gnu/packages/screen.scm (byobu): Likewise.
* gnu/packages/statistics.scm (r-with-tests): Likewise.
* gnu/packages/suckless.scm (surf): Likewise.
* gnu/packages/syndication.scm (gfeeds): Likewise.
* gnu/packages/telephony.scm (mumble): Likewise.
* gnu/packages/terminals.scm (alacritty): Likewise.
* gnu/packages/tex.scm (texlive-bin): Likewise.
* gnu/packages/uml.scm (plantuml): Likewise.
* gnu/packages/version-control.scm (python-git-multimail): Likewise.
(gitolite): Likewise.
(hg-commitsigs): Likewise.
(git-when-merged): Likewise.
(git-imerge): Likewise.
(gita): Likewise.
* gnu/packages/video.scm (you-get): Likewise.
* gnu/packages/vim.scm (eovim): Likewise.
* gnu/packages/virtualization.scm (qemu): Likewise.
(virt-manager): Likewise.
(criu): Likewise.
* gnu/packages/vpn.scm (strongswan): Likewise.
(xl2tpd): Likewise.
* gnu/packages/wm.scm (i3lock-fancy): Likewise.
* gnu/packages/wxwidgets.scm (python-wxpython): Likewise.
(python2-wxpython): Likewise.
* gnu/packages/xdisorg.scm (autorandr): Likewise.
* gnu/packages/xorg.scm (hackneyed-x11-cursors): Likewise.
(v86d): Likewise.
(mkfontdir): Likewise.
(xpra): Likewise.
 2021-07-24 16:23:23 +02:00
Ludovic Courtès
6ea7297ea4
gnu: Use 'search-input-directory' when looking for tzdata. 
* gnu/packages/backup.scm (duplicity)[arguments]: Use
'search-input-directory' for "share/zoneinfo".
* gnu/packages/bioinformatics.scm (pigx-rnaseq): Likewise.
(pigx-bsseq): Likewise.
* gnu/packages/calcurse.scm (calcurse): Likewise.
* gnu/packages/calendar.scm (date): Likewise.
* gnu/packages/compression.scm (lhasa): Likewise.
* gnu/packages/cran.scm (r-rstan): Likewise.
* gnu/packages/django.scm (python-django): Likewise.
* gnu/packages/dlang.scm (ldc-bootstrap): Likewise.
* gnu/packages/finance.scm (ledger): Likewise.
* gnu/packages/glib.scm (glib): Likewise.
* gnu/packages/golang.scm (go-1.4): Likewise.
(go-1.14): Likewise.
* gnu/packages/kde-frameworks.scm (kcalendarcore): Likewise.
(kdelibs4support): Likewise.
* gnu/packages/kodi.scm (kodi): Likewise.
* gnu/packages/mail.scm (mu): Likewise.
* gnu/packages/perl.scm (perl-libtime-parsedate): Likewise.
* gnu/packages/python-xyz.scm (python-robotframework): Likewise.
(python-dparse): Likewise.
* gnu/packages/rrdtool.scm (rrdtool): Likewise.
* gnu/packages/statistics.scm (r-with-tests): Likewise.
* gnu/packages/vim.scm (vim): Likewise.
* gnu/packages/virtualization.scm (ganeti): Likewise.
* gnu/packages/vpn.scm (strongswan): Likewise.
* gnu/packages/xfce.scm (xfce4-panel): Likewise.
* gnu/packages/mate.scm (libmateweather): Use 'search-input-file' for
"share/zoneinfo/zone.tab".
 2021-07-24 16:23:22 +02:00
Lars-Dominik Braun
2925d84196
gnu: Add r-glinternet. 
* gnu/packages/statistics.scm (r-glinternet): New variable.
 2021-07-21 13:36:07 +02:00
Lars-Dominik Braun
f711ba28d2
gnu: Add r-naniar. 
* gnu/packages/statistics.scm (r-naniar): New variable.
 2021-07-21 13:36:07 +02:00
Lars-Dominik Braun
f6802a9247
gnu: Add r-norm. 
* gnu/packages/statistics.scm (r-norm): New variable.
 2021-07-21 13:36:07 +02:00
Ludovic Courtès
0e47fcced4
Merge branch 'master' into core-updates 2021-07-18 19:50:01 +02:00
Ricardo Wurmus
6db1afed3d
gnu: r-car: Update to 3.0-11. 
* gnu/packages/statistics.scm (r-car): Update to 3.0-11.
 2021-07-10 21:35:36 +02:00
Ricardo Wurmus
762b1de334
gnu: r-lme4: Update to 1.1-27.1. 
* gnu/packages/statistics.scm (r-lme4): Update to 1.1-27.1.
 2021-07-10 21:35:36 +02:00
Ricardo Wurmus
c7e86b9af6
gnu: r-quantreg: Update to 5.86. 
* gnu/packages/statistics.scm (r-quantreg): Update to 5.86.
 2021-07-10 21:35:36 +02:00
Ricardo Wurmus
4e7bf05978
gnu: r-plotly: Update to 4.9.4.1. 
* gnu/packages/statistics.scm (r-plotly): Update to 4.9.4.1.
 2021-07-10 21:35:36 +02:00
Ricardo Wurmus
85738e4566
gnu: r-mvtnorm: Update to 1.1-2. 
* gnu/packages/statistics.scm (r-mvtnorm): Update to 1.1-2.
 2021-07-10 21:35:36 +02:00
Ricardo Wurmus
3a68bf166d
gnu: r-glmnet: Update to 4.1-2. 
* gnu/packages/statistics.scm (r-glmnet): Update to 4.1-2.
 2021-07-10 21:35:36 +02:00
Ricardo Wurmus
01d2ac1b7b
gnu: r-rmarkdown: Update to 2.9. 
* gnu/packages/statistics.scm (r-rmarkdown): Update to 2.9.
 2021-07-10 21:35:35 +02:00
Ricardo Wurmus
47ffcaf1d6
gnu: r-devtools: Update to 2.4.2. 
* gnu/packages/statistics.scm (r-devtools): Update to 2.4.2.
 2021-07-10 21:35:35 +02:00
Ricardo Wurmus
88d0cc0e77
gnu: r-ade4: Update to 1.7-17. 
* gnu/packages/statistics.scm (r-ade4): Update to 1.7-17.
[propagated-inputs]: Remove r-progress.
 2021-07-10 21:35:35 +02:00
Ricardo Wurmus
b5912cdea5
gnu: r-dplyr: Update to 1.0.7. 
* gnu/packages/statistics.scm (r-dplyr): Update to 1.0.7.
 2021-07-10 21:35:35 +02:00
Ricardo Wurmus
7dd5f33d31
gnu: r-testthat: Update to 3.0.4. 
* gnu/packages/statistics.scm (r-testthat): Update to 3.0.4.
 2021-07-10 21:35:35 +02:00