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2020-07-16gnu: r-delayedmatrixstats: Update to 1.10.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-delayedmatrixstats): Update to 1.10.1.
2020-07-16gnu: r-rhdf5: Update to 2.32.2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rhdf5): Update to 2.32.2.
2020-07-16gnu: r-variancepartition: Update to 1.18.2.Ricardo Wurmus
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.18.2.
2020-07-16gnu: Add tao.Ricardo Wurmus
* gnu/packages/patches/tao-add-missing-headers.patch, gnu/packages/patches/tao-fix-parser-types.patch: New files. * gnu/local.mk (dist_patch_DATA): Add them. * gnu/packages/audio.scm (tao): New variable.
2020-07-15Revert "gnu: rust: Add SSL native search paths."Tobias Geerinckx-Rice
This reverts commit ba1e4ce2560d51c8ba935e5b5667ba3a0133c694.
2020-07-15gnu: Transmission: Update to 3.0.0.Leo Famulari
* gnu/packages/bittorrent.scm (transmission): Update to 3.0.0. [source]: Remove obsolete patch. * gnu/packages/patches/transmission-CVE-2018-10756.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it.
2020-07-15tests: zabbix: Fix typo in comment.Oleg Pykhalov
* gnu/tests/monitoring.scm (run-zabbix-server-test)[test]: Fix typo in comment.
2020-07-15gnu: zabbix-agentd: Update to 5.0.1.Oleg Pykhalov
* gnu/packages/monitoring.scm (zabbix-agentd): Update to 5.0.1. (arguments)[#:phases]<install-front-end>: Update front-end path.
2020-07-15gnu: bind: Update to 9.16.5.Tobias Geerinckx-Rice
* gnu/packages/dns.scm (isc-bind): Update to 9.16.5.
2020-07-15gnu: python-tinycss2: Fix test failure.Marius Bakke
Fixes <https://bugs.gnu.org/42372>. Reported by Michael Rohleder <mike@rohleder.de>. * gnu/packages/patches/python-tinycss2-flake8-compat.patch: New file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/python-web.scm (python-tinycss2)[source](patches): New field.
2020-07-15gnu: python-shiboken-2, python-pyside-2: Update to 5.14.2.3.Marius Bakke
* gnu/packages/patches/qtbase-absolute-runpath.patch: New file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/qt.scm (qtbase/next): New variable. * gnu/packages/qt.scm (python-shiboken-2): Update to 5.14.2.3. [source](uri): Adjust for tarball rename. [inputs]: Use the default CLANG-TOOLCHAIN. (python-pyside-2)[inputs]: Likewise. (python-pyside-2-tools)[inputs]: Change from QTBASE to QTBASE/NEXT.
2020-07-15gnu: gparted: Use the Glib-or-GTK build system.Tobias Geerinckx-Rice
Fixes <https://issues.guix.gnu.org/38544>. * gnu/packages/disk.scm (gparted)[build-system]: Use glib-or-gtk-build-system.
2020-07-15gnu: protobuf: Update to 3.12.3.Tobias Geerinckx-Rice
* gnu/packages/protobuf.scm (protobuf): Update to 3.12.3.
2020-07-15gnu: rust: Add SSL native search paths.Tobias Geerinckx-Rice
* gnu/packages/rust.scm (rust-1.19)[native-search-paths]: Add entries for SSL_CERT_DIR and SSL_CERT_FILE. Reported by Kimapr[m] in #guix.
2020-07-15gnu: Consistently use license: prefix in (gnu packages mail).Tobias Geerinckx-Rice
* gnu/packages/mail.scm: Don't #:select arbitrary variables from (guix licenses). (anubis, mailutils, nullmailer, fetchmail, mutt, neomutt, gmime) (bogofilter, offlineimap, emacs-mew, mu, alot, notifymuch, notmuch) (python-notmuch, muchsync, getmail, libetpan, compface, claws-mail) (msmtp, exim, dovecot, dovecot-trees, dovecot-libsodium-plugin, isync) (perl-email-abstract, perl-email-address, perl-email-address-xs) (perl-email-date-format, perl-email-messageid, perl-email-mime) (perl-email-mime-contenttype, perl-email-mime-encodings) (perl-email-sender, perl-email-simple, libesmtp, esmtp, fdm, procmail) (khard, perl-mail-spf, perl-mail-authenticationresults, perl-mail-dkim) (dkimproxy, mb2md, mpop, mhonarc, sendmail, opensmtpd, opensmtpd-extras) (python-mailmanclient, python2-django-mailman3, postorius, swaks, alpine) (balsa, afew, pan, urlscan, tnef, mumi, ytnef, public-inbox, sylpheed) [licenses]: Use a license: prefix instead.
2020-07-15gnu: opensmtpd-extras: Update to 6.7.1.Tobias Geerinckx-Rice
* gnu/packages/mail.scm (opensmtpd-extras): Update to 6.7.1. [native-inputs]: Remove bison, groff, automake, and autoconf. [inputs]: Remove libasr, perl, lua, and linux-pam. Add mysql. [arguments]: Remove obsolete or ineffective options. [license]: Update.
2020-07-15gnu: opensmtpd-extras: Don't use NAME in source URI.Tobias Geerinckx-Rice
* gnu/packages/mail.scm (opensmtpd-extras)[source]: Hard-code NAME.
2020-07-15system: 'operating-system-root-file-system' raises upon missing root.Ludovic Courtès
* gnu/system.scm (operating-system-root-file-system): Raise when 'find' returns #f.
2020-07-15system: Add 'location' field to <operating-system>.Ludovic Courtès
This allows error messages to include source location info. * gnu/system.scm (<operating-system>)[location]: New field.
2020-07-15services: Add 'system-provenance' procedure.Ludovic Courtès
* gnu/services.scm (sexp->channel, system-provenance): New procedures. * guix/scripts/system.scm (sexp->channel): Remove. (display-system-generation): Use 'system-provenance' instead of parsing the "provenance" file right here.
2020-07-14gnu: Remove python2-pywavelets.Marius Bakke
This package no longer supports Python 2 since the update in 501d89d707a64335731f54e0e28dbf252b31afc7 and has no dependents. * gnu/packages/python-xyz.scm (python2-pywavelets): Remove variable.
2020-07-14gnu: python-pynacl: Update to 1.4.0.Marius Bakke
* gnu/packages/python-crypto.scm (python-pynacl): Update to 1.4.0. [source](snippet): Adjust to fix spurious build requirement. [arguments]: Add #:modules. Replace check phase with custom pytest invocation.
2020-07-14gnu: python-simplejson: Update to 3.17.0.Marius Bakke
* gnu/packages/python-xyz.scm (python-simplejson): Update to 3.17.0.
2020-07-14gnu: python-paramiko: Update to 2.7.1.Marius Bakke
* gnu/packages/python-crypto.scm (python-paramiko): Update to 2.7.1.
2020-07-14gnu: python-bitarray: Update to 1.4.0.Marius Bakke
* gnu/packages/python-xyz.scm (python-bitarray): Update to 1.4.0.
2020-07-14gnu: python-pycurl: Update to 7.43.0.5.Marius Bakke
* gnu/packages/python-web.scm (python-pycurl): Update to 7.43.0.5.
2020-07-14gnu: python-bottle: Update to 0.12.18.Marius Bakke
* gnu/packages/python-web.scm (python-bottle): Update to 0.12.18.
2020-07-14gnu: virt-manager: Remove unused input.Marius Bakke
* gnu/packages/virtualization.scm (virt-manager)[inputs]: Remove PYTHON-IPADDRESS.
2020-07-14gnu: python-txtorcon: Remove unused input.Marius Bakke
* gnu/packages/python-crypto.scm (python-txtorcon)[propagated-inputs]: Remove PYTHON-IPADDRESS.
2020-07-14gnu: silkaj: Remove unused input.Marius Bakke
* gnu/packages/finance.scm (silkaj)[inputs]: Remove PYTHON-IPADDRESS.
2020-07-14gnu: python-docker-py: Remove unused input.Marius Bakke
* gnu/packages/docker.scm (python-docker-py)[inputs]: Remove PYTHON-IPADDRESS.
2020-07-14gnu: rust-xdg-2.2: Fix typo and indentation.Nicolas Goaziou
* gnu/packages/crates-io.scm (rust-xdg-2.2): Fix indentation. [description]: Add missing final dot.
2020-07-14gnu: flightgear: Update to 2018.3.5.Nicolas Goaziou
* gnu/packages/games.scm (flightgear): (simgear): Update to 2018.3.5.
2020-07-14gnu: ppsspp: Name git checkouts.Tobias Geerinckx-Rice
* gnu/packages/emulators.scm (ppsspp)[inputs]: Use GIT-FILE-NAME for in-line git origins.
2020-07-14gnu: Add emacs-counsel-notmuch.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-counsel-notmuch): New variable.
2020-07-14gnu: Add emacs-flycheck-ledger.Morgan Smith
* gnu/packages/emacs-xyz.scm (emacs-flycheck-ledger): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2020-07-14gnu: Add emacs-literate-calc-mode.Morgan Smith
* gnu/packages/emacs-xyz.scm (emacs-literate-calc-mode): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2020-07-14gnu: Add emacs-org-drill.Morgan Smith
* gnu/packages/emacs-xyz.scm (emacs-org-drill): New variable. Signed-off-by: Nicolas Goaziou <mail@nicolasgoaziou.fr>
2020-07-14gnu: emacs-paren-face: Update to 1.0.6.Nicolas Goaziou
* gnu/packages/emacs-xyz.scm (emacs-paren-face): Update to 1.0.6. [synopsis, description]: Fix typo.
2020-07-14gnu: font-gnu-freefont: Update to 13.0.03.Efraim Flashner
* gnu/packages/fonts.scm (font-gnu-unifont): Update to 13.0.03.
2020-07-14gnu: libzip: Update to 1.7.2.Tobias Geerinckx-Rice
* gnu/packages/compression.scm (libzip): Update to 1.7.2.
2020-07-14gnu: mutt: Update to 1.14.6.Tobias Geerinckx-Rice
* gnu/packages/mail.scm (mutt): Update to 1.14.6.
2020-07-14gnu: mbedtls-apache-for-hiawatha: Fix.Tobias Geerinckx-Rice
There's already a custom embedtls-apache variant for Hiawatha. Fix it instead of enabling threading for embedtls-apache. * gnu/packages/tls.scm (embedtls-for-hiawatha): Fix usage of SUBSTITUTE-KEYWORD-ARGUMENTS. Disable -Wformat-signedness. (embedtls-for-hiawatha): Remove ‘enable-features’ phase.
2020-07-14gnu: usb-modeswitch: Use CC-FOR-TARGET.Tobias Geerinckx-Rice
* gnu/packages/usb-modeswitch.scm (usb-modeswitch)[arguments]: Use CC-FOR-TARGET.
2020-07-14gnu: usb-modeswitch: Update to 2.6.1.Tobias Geerinckx-Rice
* gnu/packages/usb-modeswitch.scm (usb-modeswitch): Update to 2.6.1.
2020-07-14gnu: hiawatha: Update to 10.11.Tobias Geerinckx-Rice
* gnu/packages/web.scm (hiawatha): Update to 10.11.
2020-07-14gnu: mbedtls-apache: Update to 2.23.0 [security fixes].Tobias Geerinckx-Rice
* gnu/packages/tls.scm (mbedtls-apache): Update to 2.23.0. [source]: Use GIT-FETCH and GIT-FILE-NAME. [arguments]: Make source files writable. Enable threading.
2020-07-14gnu: singularity: Refer to egrep.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (singularity)[arguments]: Rename ‘patch-reference-to-squashfs-tools’ to ‘patch-references’ and add egrep. Reported by slimjim on #guix.
2020-07-14gnu: urlscan: Edit description.Tobias Geerinckx-Rice
* gnu/packages/mail.scm (urlscan)[description]: Replace inappropriate @code{}.
2020-07-14gnu: fping: Edit description.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (fping)[description]: Fix a typo & mark it up.
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