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2019-10-06gnu: r-seurat: Update to 3.1.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-seurat): Update to 3.1.1. [propagated-inputs]: Add r-httr.
2019-10-06gnu: r-rsamtools: Update to 2.0.2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rsamtools): Update to 2.0.2.
2019-10-06gnu: r-biomart: Update to 2.40.5.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.40.5.
2019-10-06gnu: emacs-helm-ag: Fix version.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-helm-ag): Fix version.
2019-10-06gnu: Add emacs-helm-org.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-helm-org): New variable.
2019-10-06gnu: emacs-helm: Update to 3.5.0.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-helm): Update to 3.5.0.
2019-10-06gnu: nss-pam-ldapd: Update to 0.9.11.Ricardo Wurmus
* gnu/packages/openldap.scm (nss-pam-ldapd): Update to 0.9.11. [inputs]: Replace python-2 with python.
2019-10-06gnu: Add mloop.Ricardo Wurmus
* gnu/packages/music.scm (mloop): New variable.
2019-10-06gnu: guile-studio: Update to 0-2.4d63f3d.Ricardo Wurmus
* gnu/packages/guile-xyz.scm (guile-studio): Update to 0-2.4d63f3d.
2019-10-06gnu: icedtea-7: Fix build on i686-linux.Ricardo Wurmus
* gnu/packages/java.scm (icedtea-7)[arguments]: Use "i386" lib directory when the system is "i686-linux".
2019-10-06gnu: jamvm-1-bootstrap: Fix segfault in bootstrap JVM.Ricardo Wurmus
* gnu/packages/java.scm (jamvm-1-bootstrap)[arguments]: Add configure flags: --disable-int-caching, --enable-runtime-reloc-checks, and --enable-ffi. [inputs]: Add libffi.
2019-10-06gnu: emacs-hackernews: Update to 0.5.0-2.2362d7b.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-hackernews): Update to 0.5.0-2.2362d7b.
2019-10-06gnu: emacs-undo-propose-el: Update to 3.0.0-3.f80baee.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-undo-propose-el): Update to 3.0.0-3.f80baee.
2019-10-06gnu: emacs-evil-mc: Update to 0.0.3-2.1cabb86.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-evil-mc): Update to 0.0.3-2.1cabb86.
2019-10-06gnu: Add cl-goject-introspection.Pierre Neidhardt
* gnu/packages/lisp.scm (cl-goject-introspection, sbcl-cl-gobject-introspection): New variables.
2019-10-06services: shepherd: Compile service files.Ludovic Courtès
This reduces resident memory for PID 1 from 29.8MiB to 28.7MiB right after boot on a bare-bones system (x86_64-linux). * gnu/services/shepherd.scm (scm->go): New procedure. (shepherd-configuration-file)[config]: Call it and use 'load-compiled' instead of 'primitive-load'.
2019-10-06services: udev: Explicitly depend on (gnu build linux-boot).Ludovic Courtès
* gnu/services/base.scm (udev-shepherd-service): Wrap 'start' method in 'with-imported-modules'.
2019-10-06services: agetty: Explicitly depend on (gnu build linux-boot).Ludovic Courtès
* gnu/services/base.scm (default-serial-port): Wrap in 'with-imported-modules'.
2019-10-06system: Add 'mount' and 'umount' to '%setuid-programs'.Ludovic Courtès
Fixes <https://bugs.gnu.org/37569>. Reported by Diego Nicola Barbato <dnbarbato@posteo.de>. * gnu/system.scm (%setuid-programs): Add "mount" and "umount" from util-linux.
2019-10-06gnu: Add cl-random-forest.Guillaume Le Vaillant
* gnu/packages/machine-learning.scm (sbcl-cl-random-forest, cl-random-forest, ecl-cl-random-forest): New variables.
2019-10-06gnu: Add cl-online-learning.Guillaume Le Vaillant
* gnu/packages/machine-learning.scm (sbcl-cl-online-learning, cl-online-learning, ecl-cl-online-learning): New variables.
2019-10-06gnu: Add cl-libsvm-format.Guillaume Le Vaillant
* gnu/packages/machine-learning.scm (sbcl-cl-libsvm-format, cl-libsvm-format, ecl-cl-libsvm-format): New variables.
2019-10-06gnu: Add cl-store.Guillaume Le Vaillant
* gnu/packages/lisp.scm (sbcl-cl-store, cl-store, ecl-cl-store): New variables.
2019-10-06gnu: sbcl-hu.dwim.asdf: Update to 20190521.Guillaume Le Vaillant
* gnu/packages/lisp.scm (sbcl-hu.dwim.asdf): Update to 20190521. [uri]: Fetch more recent version from Quicklisp.
2019-10-06gnu: sbcl-alexandria: Update to 1.0.0.Guillaume Le Vaillant
* gnu/packages/lisp.scm (sbcl-alexandria): Update to 1.0.0. [native-inputs]: Add rt.
2019-10-06gnu: ecl: Do not compile the deprecated MIT-RT.Guillaume Le Vaillant
Compiling the rt bundled with ECL prevents the ecl-rt package from compiling properly, as ECL thinks it has already been compiled. * gnu/packages/lisp.scm (ecl)[arguments]: Add '--without-rt' to 'configure-flags'.
2019-10-06gnu: Add chanl.Guillaume Le Vaillant
* gnu/packages/lisp.scm (sbcl-chanl, cl-chanl, ecl-chanl): New variables.
2019-10-06gnu: Remove rust-clippy.Efraim Flashner
This was added by accident in 14f3a7e37314451b9b93d7b7536f3ae3dec1ed68. * gnu/packages/crates-io.scm (rust-clippy): Remove variable.
2019-10-06gnu: endless-sky: Update to 0.9.10.Timotej Lazar
* gnu/packages/games.scm (endless-sky): Update to 0.9.10. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-10-06gnu: zabbix: Update to 4.2.7.Giovanni Biscuolo
* gnu/packages/monitoring.scm: (zabbix) Update to 4.2.7. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-10-06gnu: Update python-pastel to 0.1.1.tlecarrour@easter-eggs.com
* gnu/packages/graphics.scm (python-pastel): Update to 0.1.1. [arguments]: Add custom 'check phase. [description]: Simplify description. Signed-off-by: Efraim Flashner <efraim@flashner.co.il>
2019-10-06gnu: waybar: Update to 0.8.0.Efraim Flashner
* gnu/packages/wm.scm (waybar): Update to 0.8.0.
2019-10-06gnu: r-data-table: Update to 1.12.4.Tobias Geerinckx-Rice
* gnu/packages/statistics.scm (r-data-table): Update to 1.12.4. [inputs]: Add zlib.
2019-10-06gnu: python-mnemonic: Update to 0.19.Tobias Geerinckx-Rice
* gnu/packages/finance.scm (python-mnemonic): Update to 0.19.
2019-10-06gnu: r-gamlss-dist: Update to 5.1-5.Tobias Geerinckx-Rice
* gnu/packages/cran.scm (r-gamlss-dist): Update to 5.1-5.
2019-10-06gnu: python-traitlets: Update to 4.3.3.Tobias Geerinckx-Rice
* gnu/packages/python-xyz.scm (python-traitlets): Update to 4.3.3.
2019-10-06gnu: r-pegas: Update to 0.12.Tobias Geerinckx-Rice
* gnu/packages/cran.scm (r-pegas): Update to 0.12.
2019-10-06gnu: rust-miniz-oxide: Update to 0.3.3.Tobias Geerinckx-Rice
* gnu/packages/crates-io.scm (rust-miniz-oxide): Update to 0.3.3.
2019-10-06gnu: rust-openssl-sys: Update to 0.9.50.Tobias Geerinckx-Rice
* gnu/packages/crates-io.scm (rust-openssl-sys): Update to 0.9.50.
2019-10-06gnu: r-polspline: Update to 1.1.16.Tobias Geerinckx-Rice
* gnu/packages/cran.scm (r-polspline): Update to 1.1.16.
2019-10-06gnu: perl-test-tcp: Update to 2.21.Tobias Geerinckx-Rice
* gnu/packages/web.scm (perl-test-tcp): Update to 2.21.
2019-10-06gnu: perl-test-mockobject: Update to 1.20191002.Tobias Geerinckx-Rice
* gnu/packages/perl-check.scm (perl-test-mockobject): Update to 1.20191002.
2019-10-06gnu: lua-luv: Update to 1.30.1-1.Tobias Geerinckx-Rice
* gnu/packages/lua.scm (lua-luv): Update to 1.30.1-1.
2019-10-06gnu: lua-libmpack: Update to 1.0.8.Tobias Geerinckx-Rice
* gnu/packages/serialization.scm (lua-libmpack): Update to 1.0.8.
2019-10-06gnu: perl-html-form: Update to 6.05.Tobias Geerinckx-Rice
* gnu/packages/web.scm (perl-html-form): Update to 6.05.
2019-10-06gnu: quaternion: Update to 0.0.9.4c.Tobias Geerinckx-Rice
* gnu/packages/messaging.scm (quaternion): Update to 0.0.9.4c.
2019-10-06gnu: libqmatrixclient: Update to 0.5.2.Tobias Geerinckx-Rice
* gnu/packages/messaging.scm (libqmatrixclient): Update to 0.5.2.
2019-10-06gnu: lua-libmpack: Don't use unstable tarball.Tobias Geerinckx-Rice
* gnu/packages/serialization.scm (lua-libmpack)[source]: Use GIT-FETCH and GIT-FILE-NAME.
2019-10-06gnu: libmpack: Don't use unstable tarball.Tobias Geerinckx-Rice
* gnu/packages/serialization.scm (libmpack)[source]: Use GIT-FETCH and GIT-FILE-NAME. (lua-libmpack)[arguments]: Adjust ‘unpack-mpack-sources’ phase.
2019-10-05gnu: emacs-org-tanglesync: Update to 0.6-2.d99181f.Brian Leung
* gnu/packages/emacs-xyz.scm (emacs-org-tanglesync): Update to 0.6-2.d99181f.
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