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branch core-updates updated (709ca6c -> 8bf8cd9)
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From: |
guix-commits |
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Subject: |
branch core-updates updated (709ca6c -> 8bf8cd9) |
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Date: |
Thu, 30 Apr 2020 17:48:29 -0400 (EDT) |
mbakke pushed a change to branch core-updates
in repository guix.
from 709ca6c gnu: libgc/static-libs: Mark it as hidden.
new 5d9e218 gnu: guile-json: Update to 3.5.0.
add ee8de73 gnu: python-scanpy: Update to 1.4.6.
add ca4b558 gnu: Add rav1e.
add 910bf1f gnu: Add tarsplitter.
add 121191f substitute: Use the same port for multiple request batches.
add d5abb30 substitute: Make http-multiple-get batch size configurable.
add 928dc1b substitute: Close port at the end of http-multiple-get.
add 53aa66c reconfigure: Don't call build-derivations for
upgrade-services test
add f476238 gnu: guile3.0-chickadee: Rename to guile3.0-chickadee.
add ec20858 gnu: Add r-pasilla.
add 3699bcf gnu: Add r-motifdb.
add 886125d gnu: Add r-motifbreakr.
add b58a22e gnu: Add hackneyed-x11-cursors.
add 63daca1 gnu: Add r-snplocs-hsapiens-dbsnp144-grch37.
add 1408e2a gnu: r-snplocs-hsapiens-dbsnp144-grch37: Fix description.
add ef674a2 profiles: Add lowerable <profile> record type.
add cda7511 system: 'operating-system-directory-base-entries' uses
'profile'.
add 45bd913 services: profile: Use a declarative profile.
add 45c84c8 pack: Use a declarative profile.
add 0e5c2d5 services: system: Initial entries are non-monadic.
add ccbc427 channels: Use a declarative profile.
add 3b177a6 gnu: Add loadable module to wireguard-linux-compat.
add 8472c26 gnu: liblinphone: Remove hicolor-icon-theme and murrine
inputs.
add 1ae4325 gnu: liblinphone: Fix the input type of some dependencies.
add 9c63165 gnu: liblinphone: Move documentation and tester to separate
outputs.
add 8521d93 gnu: Add r-reordercluster.
add df6c7f0 gnu: Add r-ecp.
add e8d435f gnu: Add r-ideoviz.
add e658838 gnu: Add r-bezier.
add cb1ab03 gnu: Add r-karyoploter.
add 8ce240f gnu: Add r-bsgenome-hsapiens-ucsc-hg38.
add 320dd11 gnu: Add texlive-inconsolata.
add c170a15 gnu: emacs-org-reveal: Fix syntax error in description.
add d4f86c8 gnu: Add peek.
add 0c0ef9c gnu: Add r-coverageview.
add 415176e gnu: Add r-ggpmisc.
add 9137082 gnu: Add r-inum.
add 06fc1a5 gnu: Add r-cummerbund.
add 4c24186 gnu: Add python-bitarray.
add c43edf6 gnu: Add python-deeptoolsintervals.
add ccf70a8 gnu: Add python-deeptools.
add 639ae3f gnu: Add python-scikit-rebate.
add 2ef4d27 file-systems: mount the PID cgroup filesystem.
add f38ba7b gnu: fldigi: Update to 4.1.12.
add 138896e gnu: herbstluftwm: Update to 0.8.1
add c53886a gnu: ktsuss: Use setuid "su" and "sudo" commands.
add 58a361f gnu: Add wf-recorder.
add f4f4aa6 doc: guix: Fix grammar in "Debugging Build Failures"
add bb6d9e2 gnu: tarsplitter: Fix typo in description (spilt/split).
add 693d0ff gnu: Add sbcl-stumpwm-swm-gaps.
add 78799a6 gnu: Update minimap2 to 2.17.
add 5dfe02c tests: Remove trailing commas in JSON tests.
add 5fbc753 import: crate: Gracefully handle non-existent crates.
add 47f82b3 guix: edit: Make nano the default editor.
add 619f918 doc: Update url to singularity before link rot occurs.
add 8990932 gnu: stellarium: Update to 0.20.1.
add c1dc785 gnu: r-with-tests, r-minimal: Update to 4.0.0.
add 288ab90 gnu: r-foreign: Update to 0.8-78.
add 666d979 gnu: r-tibble: Update to 3.0.1.
add 568d1d7 gnu: r-dbplyr: Update to 1.4.3.
add 7ef5f77 gnu: r-xml2: Update to 1.3.2.
add 67aced6 gnu: r-withr: Update to 2.2.0.
add 0e30039 gnu: r-plotrix: Update to 3.7-8.
add d29cd83 gnu: r-purrr: Update to 0.3.4.
add befa394 gnu: Add r-ingredients.
add 50f298a gnu: Add r-ibreakdown.
add 92f5ed2 gnu: r-shinyfiles: Update to 0.8.0.
add d911e22 gnu: r-powerlaw: Update to 0.70.6.
add 4c0cf66 gnu: r-ff: Update to 2.2-14.2.
add 92d81a5 gnu: r-distillery: Update to 1.0-7.
add 839c39b gnu: r-broom: Update to 0.5.6.
add e965442 gnu: r-tsp: Update to 1.1-10.
add f1f77bb gnu: r-tinytex: Update to 0.22.
add 35f84a7 gnu: r-insight: Update to 0.8.3.
add 09bb872 gnu: r-raster: Update to 3.1-5.
add 27588b3 gnu: r-emmeans: Update to 1.4.6.
add 09410f1 gnu: r-bayestestr: Update to 0.6.0.
add e2a50e5 gnu: r-ggeffects: Update to 0.14.3.
add 71c0a61 gnu: r-rgl: Update to 0.100.54.
add d62d838 gnu: r-protviz: Update to 0.6.4.
add fbcbf8d gnu: r-future: Update to 1.17.0.
add c6eb1fe gnu: r-etm: Update to 1.1.
add 5123ec7 gnu: r-future-apply: Update to 1.5.0.
add bf4e440 gnu: r-sf: Update to 0.9-2.
add 838ec25 gnu: r-optparse: Update to 1.6.6.
add 1816cb2 gnu: r-rex: Update to 1.2.0.
add 8165bf6 gnu: r-dalex: Update to 1.2.0.
add 5ffe706 gnu: r-systemfonts: Update to 0.2.0.
add 169f9fe gnu: Add r-qgam.
add e1fe5e9 gnu: r-abtest: Update to 0.2.1.
add 2c439ca gnu: r-fda: Update to 5.1.4.
add 1d9e71e gnu: r-stopwords: Update to 2.0.
add ed720ab gnu: r-topicmodels: Update to 0.2-11.
add cda0683 gnu: r-seurat: Update to 3.1.5.
add 9c726c4 gnu: r-hdf5array: Update to 1.14.4.
add 0877b74 gnu: kaldi: Update to 0-2.d4791c0.
add b3cf5f8 gnu: gst-kaldi-nnet2-online: Update to 0-2.cb227ef.
add d9e9a26 gnu: python-scikit-learn: Make python-joblib a propagated
input.
add 0ae8505 gnu: hpcguix-web: Use guile3.0-guix.
add 79c4fb4 gnu: Add hackrf.
add 62d45e4 gnu: gnuradio-osmosdr: Add hackrf support.
add ef3cc2d gnu: Add emacs-trashed.
add eac71f5 gnu: sbcl-cl-cffi-gtk-gobject: Link source to parent to
reduce closure size.
add 6a7f366 gnu: sbcl-cl-cffi-gtk-gio: Link source to parent to reduce
closure size.
add 8f46a9d gnu: sbcl-cl-cffi-gtk-cairo: Link source to parent to reduce
closure size.
add d27f033 gnu: sbcl-cl-cffi-gtk-pango: Link source to parent to reduce
closure size.
add 2666a33 gnu: sbcl-cl-cffi-gtk-gdk-pixbuf: Link source to parent to
reduce closure size.
add 80d8c00 gnu: sbcl-cl-cffi-gtk-gdk: Link source to parent to reduce
closure size.
add 143eaa8 gnu: sbcl-cl-cffi-gtk: Link source to parent to reduce
closure size.
add 8ac4be5 gnu: ecl: Update to 20.4.24.
add 83812f3 gnu: Add kbdd-0.7.1
add 9a2fcb6 gnu: Add c-blosc.
add 0b2c883 gnu: Add hdf5-blosc.
add 545e12f gnu: Add variant-tools.
add 085948f gnu: ungoogled-chromium: Update to 81.0.4044.129-0.c2a89fb
[security fixes].
add b3d0419 gnu: Add emacs-toml-mode.
add f15d324 gnu: emacs-sx: Update to 20191229.
add 9615c85 gnu: emacs-evil-org: Update to 1.0.2.
add 3b33e0e gnu: kakoune: Update to 2020.01.16.
add ae0f26b gnu: lv2: Update to 1.18.0.
add b2c1d4a gnu: Add emacs-magit-annex.
add abbca23 gnu: Add emacs-wide-int.
add a663b70 gnu: emacs-telega: Build with emacs-wide-int on 32-bit
systems.
add 19e1f12 gnu: emacs-telega: Test Emacs environment on startup.
add a84b7a4 gnu: sbcl-parenscript: Update to 2.7.1.
add 2711223 gnu: sbcl: Update to 2.0.4.
add cd8c419 gnu: valgrind: Update source uri.
add 0b25812 gnu: openldap: Fix CVE-2020-12243.
add ce0f1b1 gnu: guix: Update to 619f918.
add 1797fe1 gnu: guile-json: Update to 3.5.0.
add e4aa9ab doc: Mention that PulseAudio service overrides user
configuration.
add f93eebb gnu: Add xnec2c.
add ae1a0f7 tests: install: Increase virtual machine RAM.
add be3abf2 tests: install: Fix gui-installed-os test.
add cf48083 gnu: gnuradio: Fix search paths for third-party blocks.
add add3e16 gnu: ikiwiki: Fetch sources from git repository.
add 732ffac gnu: ikiwiki: Build perl inputs for target architecture.
add b7392ec gnu: ikiwiki: Propagate some inputs.
add cf47084 gnu: ikiwiki: Add missing inputs.
add 2933cdf gnu: ikiwiki: Translate documentation.
add da6539d gnu: ikiwiki: Update to 3.20200202.3.
add 4f0f46e gnu: zrythm: Update to 0.8.333.
add 8fe681b gnu: Add edid-decode.
add 1228c2a gnu: kaldi-gstreamer-server: Update to 0-2.f68cab4.
add e979cea gnu: Remove python2-ws4py-for-kaldi-gstreamer-server.
add 27cb52a gnu: gnome-calendar: Propagate evolution-data-server.
add 39a96b9 gnu: Add python-restructuredtext-lint.
add d08782d gnu: Add python-port-for.
add d0e0b86 gnu: Add python-livereload.
add ff5ca61 gnu: Add python-doc8.
add e9f93cd gnu: Add python-sphinx-autobuild.
add c537d2b tests: install: Fix device usage.
add 373c0dc gnu: Add emacs-twittering-mode.
add 6d25f29 gnu: Add emacs-ryo-modal.
add 1cc9947 gnu: Add emacs-kakoune.
add 587ccf4 gnu: emacs-vterm: Update to 0-1.e63bd65.
add 19987f5 gnu: foo2zjs: Update to 20200426.
add f224a8b gnu: OpenLDAP: Update to 2.4.50 [fixes
CVE-2019-{13057,13565}].
add 4b800bf gnu: python-aiosqlite: Update to 0.12.0.
add 510472f gnu: python-pypika: Update to 0.37.2.
add b9d96ed gnu: python-tortoise-orm: Update to 0.16.7 [security fixes].
add e118837 gnu: Add aspell-dict-pl.
add c5c25b3 gnu: magic-wormhole-mailbox-server: Update to 0.4.1.
add 718c883 gnu: magic-wormhole-transit-relay: Update to 0.2.1.
add fb5bb6b gnu: Magic Wormhole: Update to 0.12.0.
add fd65311 gnu: Add sbcl-stumpwm-pass.
add 145df67 doc: cookbook: Rename stumpwm package to current state.
add ad27367 gnu: python-psutil: Update to 5.7.0.
add 88f8a7c gnu: Add python-voluptuous.
add 7e3ddb6 gnu: Add python-cmd2.
add 37130ec gnu: Remove python2-pyflakes-0.8.1.
add a655924 gnu: Replace python-pyflakes-0.8.1 with python-pyflakes-1.2.
add 7fea8e0 gnu: Remove python2-flake8-2.5.
add 7b0e0fd gnu: python-flake8-2.5: Update to 2.6.2.
add 851a3a7 gnu: python-hacking: Update to 1.1.0.
add 5bc7857 gnu: linux-libre@4.19: Update to 4.19.119.
add 09b87e5 gnu: linux-libre@5.6: Update to 5.6.8.
add 89ea041 gnu: linux-libre: Update to 5.4.36.
add f03e5ca gnu: gnuradio: Fix runtime python environment for plugins.
add 1b73fbd gnu: Add r-rserve.
add ed33317 gnu: Add python2-weave.
add 4a148c6 gnu: python2-warpedlmm: Fix build.
add 7395047 gnu: Add python-tornado-6.
add cb44af2 gnu: kaldi-gstreamer-server: Use Tornado 6.
add 46d07f8 gnu: kaldi-gstreamer-server: Fix bug.
add cf1ae79 gnu: python2-pysnptools: Update to 0.4.11.
add 61fc72d gnu: Add zbackup.
add 4ac3996 gnu: Add missing module import.
add e174231 gnu: Add one more missing module import.
add eca648b gnu: Add miniasm.
add 0590673 gnu: r-pkgbuild: Update to 1.0.7.
add 0ec790f gnu: r-proxy: Update to 0.4-24.
add 78b6868 gnu: r-rootsolve: Update to 1.8.2.1.
add b5ea7af gnu: r-usethis: Update to 1.6.1.
add 1514fa8 gnu: r-arm: Update to 1.11-1.
add 7d1e02c gnu: r-dalex: Update to 1.2.1.
add 8dfa9ab gnu: r-ggfortify: Update to 0.4.10.
add aa180e9 gnu: r-systemfonts: Update to 0.2.1.
add d7a29bd gnu: r-graphlayouts: Update to 0.7.0.
add 2a749c8 gnu: r-univoutl: Update to 0.2.
add c54b410 gnu: r-kutils: Update to 1.70.
add 1b6434a gnu: r-boot: Update to 1.3-25.
add b2c9523 gnu: r-mass: Update to 7.3-51.6.
add 175ec5e gnu: r-class: Update to 7.3-17.
add 1cf9a5c gnu: r-foreign: Update to 0.8-79.
add 9c31388 gnu: r-kernsmooth: Update to 2.23-17.
add aad9233 gnu: r-nnet: Update to 7.3-14.
add 599f2b5 gnu: r-spatial: Update to 7.3-12.
add 0ffd970 gnu: r-rcpparmadillo: Update to 0.9.870.2.0.
add 2459974 gnu: r-vgam: Update to 1.1-3.
add 192177b gnu: sbcl-osicat: Fix library path.
add 194cb75 gnu: libntlm: Update to 1.6 [fixes CVE-2019-17455].
add 2a94f72 gnu: MPD: Update to 0.21.23.
add ac4fefb gnu: diffoscope: Update to 143.
add 6c7a39c doc: Bootloader Configuration: Fix an obsolete example.
add 229f4fa gnu: emacs-toml-mode: Fix syntax error in description.
new 8bf8cd9 Merge branch 'master' into core-updates
The 2 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "add" were already present in the repository and have only
been added to this reference.
Summary of changes:
doc/guix-cookbook.texi | 7 +-
doc/guix.texi | 15 +-
gnu/local.mk | 4 +-
gnu/packages/admin.scm | 14 +-
gnu/packages/aspell.scm | 8 +
gnu/packages/astronomy.scm | 4 +-
gnu/packages/audio.scm | 4 +-
gnu/packages/backup.scm | 41 +-
gnu/packages/bioconductor.scm | 278 +-
gnu/packages/bioinformatics.scm | 169 +-
gnu/packages/chromium.scm | 8 +-
gnu/packages/compression.scm | 65 +-
gnu/packages/cran.scm | 427 ++-
gnu/packages/crates-io.scm | 3941 ++++++++++++++++++++--
gnu/packages/cups.scm | 4 +-
gnu/packages/databases.scm | 28 +-
gnu/packages/diffoscope.scm | 11 +-
gnu/packages/emacs-xyz.scm | 192 +-
gnu/packages/emacs.scm | 11 +
gnu/packages/game-development.scm | 2 +-
gnu/packages/gnome.scm | 5 +-
gnu/packages/gsasl.scm | 4 +-
gnu/packages/guile.scm | 17 +-
gnu/packages/hardware.scm | 37 +
gnu/packages/linphone.scm | 52 +-
gnu/packages/linux.scm | 12 +-
gnu/packages/lisp-xyz.scm | 140 +-
gnu/packages/lisp.scm | 41 +-
gnu/packages/machine-learning.scm | 75 +-
gnu/packages/magic-wormhole.scm | 12 +-
gnu/packages/maths.scm | 41 +-
gnu/packages/mpd.scm | 4 +-
gnu/packages/music.scm | 7 +-
gnu/packages/openldap.scm | 15 +
gnu/packages/openstack.scm | 19 +-
gnu/packages/package-management.scm | 4 +-
gnu/packages/patches/emacs-telega-test-env.patch | 14 +
gnu/packages/patches/guile-json-cross.patch | 54 -
gnu/packages/python-science.scm | 35 +-
gnu/packages/python-web.scm | 112 +-
gnu/packages/python-xyz.scm | 285 +-
gnu/packages/radio.scm | 138 +-
gnu/packages/rust-apps.scm | 51 +-
gnu/packages/sphinx.scm | 48 +-
gnu/packages/statistics.scm | 87 +-
gnu/packages/tex.scm | 26 +
gnu/packages/text-editors.scm | 4 +-
gnu/packages/valgrind.scm | 6 +-
gnu/packages/video.scm | 155 +-
gnu/packages/vpn.scm | 31 +-
gnu/packages/web.scm | 58 +-
gnu/packages/wm.scm | 95 +-
gnu/packages/xdisorg.scm | 38 +
gnu/packages/xorg.scm | 62 +
gnu/services.scm | 13 +-
gnu/services/docker.scm | 3 +-
gnu/system.scm | 41 +-
gnu/system/file-systems.scm | 3 +-
gnu/system/linux-container.scm | 6 +-
gnu/tests/install.scm | 9 +-
gnu/tests/reconfigure.scm | 16 +-
guix/channels.scm | 4 +-
guix/import/crate.scm | 14 +-
guix/profiles.scm | 36 +
guix/scripts/edit.scm | 7 +-
guix/scripts/pack.scm | 33 +-
guix/scripts/substitute.scm | 8 +-
tests/crate.scm | 23 +-
tests/gem.scm | 2 +-
tests/profiles.scm | 13 +-
tests/pypi.scm | 7 +-
71 files changed, 6320 insertions(+), 935 deletions(-)
create mode 100644 gnu/packages/patches/emacs-telega-test-env.patch
delete mode 100644 gnu/packages/patches/guile-json-cross.patch
- branch core-updates updated (709ca6c -> 8bf8cd9),
guix-commits <=