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* gnu: r-annotationhub: Update to 2.12.1.Ricardo Wurmus2018-09-09
| | | | * gnu/packages/bioinformatics.scm (r-annotationhub): Update to 2.12.1.
* gnu: r-chippeakanno: Update to 3.14.2.Ricardo Wurmus2018-09-09
| | | | * gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.2.
* gnu: Update texmaker to 5.0.2.Roel Janssen2018-09-09
| | | | * gnu/packages/tex.scm (texmaker): Update to 5.0.2.
* gnu: ghostscript: Update replacement to 9.24 [security fixes].Marius Bakke2018-09-09
| | | | | | | | | | | | | | | | | | The following CVEs are fixed with this release: CVE-2018-15908, CVE-2018-15909, CVE-2018-15910, CVE-2018-15911, CVE-2018-16509, CVE-2018-16510, CVE-2018-16511, CVE-2018-16513, CVE-2018-16539, CVE-2018-16540, CVE-2018-16541, CVE-2018-16542, CVE-2018-16543. * gnu/packages/patches/ghostscript-CVE-2018-10194.patch: Delete file. * gnu/packages/patches/ghostscript-CVE-2018-16509.patch, gnu/packages/patches/ghostscript-bug-699708.patch: New files. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. * gnu/packages/ghostscript.scm (ghostscript/fixed): Update to 9.24. [source](patches): Remove 'ghostscript-CVE-2018-10194.patch' and 'ghostscript-runpath.patch'. Add 'ghostscript-CVE-2018-16509.patch' and 'ghostscript-bug-699708.patch'. [arguments]: Add LDFLAGS to #:configure-flags, and a phase to create output directory.
* gnu: jbig2dec: Replace with 0.15 [security fixes].Marius Bakke2018-09-09
| | | | | * gnu/packages/image.scm (jbig2dec-0.15): New public variable. (jbig2dec)[replacement]: New field.
* gnu: OpenBLAS: Update source URI.Marius Bakke2018-09-09
| | | | | * gnu/packages/maths.scm (openblas)[source](uri): Use the more stable SourceForge mirror.
* gnu: openal: Update to 1.19.0.Marius Bakke2018-09-09
| | | | * gnu/packages/audio.scm (openal): Update to 1.19.0.
* gnu: glm: Update to 0.9.9.1.Marius Bakke2018-09-09
| | | | * gnu/packages/maths.scm (glm): Update to 0.9.9.1.
* gnu: msmtp: Remove unneeded input.Marius Bakke2018-09-09
| | | | | * gnu/packages/mail.scm (msmtp)[inputs]: Remove LIBIDN, which is only required when using OpenSSL (or GnuTLS sans IDN support).
* gnu: msmtp: Update to 1.8.0.Marius Bakke2018-09-09
| | | | * gnu/packages/mail.scm (msmtp): Update to 1.8.0.
* gnu: libsoup: Update to 2.64.0.Marius Bakke2018-09-09
| | | | | * gnu/packages/gnome.scm (libsoup): Update to 2.64.0. [inputs]: Add LIBPSL.
* gnu: mpfr: Update home page.Marius Bakke2018-09-09
| | | | * gnu/packages/multiprecision.scm (mpfr)[home-page]: Use HTTPS.
* gnu: julia: Update objconv input.Marius Bakke2018-09-09
| | | | | * gnu/packages/julia.scm (julia)[inputs]: Update the hash of "objconv", which does not have a stable URL. Add a file name and use HTTPS while at it.
* gnu: cloc: Update to 1.78.Tobias Geerinckx-Rice2018-09-09
| | | | | * gnu/packages/code.scm (cloc): Update to 1.78. [source]: Update URI.
* gnu: signify: Update to 24.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/crypto.scm (signify): Update to 24.
* gnu: musl: Update to 1.1.20.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/musl.scm (musl): Update to 1.1.20.
* gnu: perl-pegex: Update to 0.67.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-pegex): Update to 0.67.
* gnu: perl-config-autoconf: Update to 0.317.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-config-autoconf): Update to 0.317.
* gnu: perl-extutils-installpaths: Update to 0.012.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-extutils-installpaths): Update to 0.012.
* gnu: perl-extutils-helpers: Update to 0.026.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-extutils-helpers): Update to 0.026.
* gnu: perl-getopt-long-descriptive: Update to 0.103.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-getopt-long-descriptive): Update to 0.103.
* gnu: perl-namespace-clean: Update to 0.27.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-namespace-clean): Update to 0.27.
* gnu: perl-datetime: Update to 1.50.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-datetime): Update to 1.50.
* gnu: perl-params-validate: Update to 1.29.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/perl.scm (perl-params-validate): Update to 1.29.
* gnu: links: Update to 2.17.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/web-browsers.scm (links): Update to 2.17.
* gnu: aircrack-ng: Update to 1.3.Tobias Geerinckx-Rice2018-09-09
| | | | | | | | | * gnu/packages/networking.scm (aircrack-ng): Update to 1.3. [native-inputs]: Add autoconf, automake, libtool, and which. [inputs]: Add libpcap. [arguments]: Use conventional --options in #:configure-flags. Restore ‘configure’ phase. Add ‘patch-evalrev’ and customise ‘bootstrap’ phases. Simplify ‘absolutize-tools’ phase.
* gnu: aircrack-ng: Use HTTPS.Tobias Geerinckx-Rice2018-09-09
| | | | * gnu/packages/networking.scm (aircrack-ng)[source, home-page]: Use HTTPS.
* gnu: perl: Improve description.宋文武2018-09-09
| | | | | | Fixes <https://bug.gnu.org/32650>. * gnu/packages/perl.scm (perl)[description]: Use description from 'perlintro'.
* tests: base: Add Guile-Gcrypt & co. to the search path.Ludovic Courtès2018-09-08
| | | | | | | | | | Fixes a regression introduced in ca719424455465fca4b872c371daf2a46de88b33, whereby (gcrypt hash) would not be found in the system under test, leading to a failure of the "/run/current-system is a GC root" test. * gnu/tests/base.scm (run-basic-test)[guix&co]: New variable. [test]: Add all of GUIX&CO to %LOAD-PATH.
* services: nginx: 'stop' returns #f.Ludovic Courtès2018-09-08
| | | | | | | | Previously we'd return #t, which the Shepherd would consider a failure to stop the service. * gnu/services/web.scm (nginx-shepherd-service): In 'nginx-action', return #f when stopping the service.
* services: nginx: Don't read PID file when passed a custom config file.Ludovic Courtès2018-09-08
| | | | | | | | Fixes <https://bugs.gnu.org/32665>. * gnu/services/web.scm (nginx-shepherd-service): Check whether FILE is true and don't read the PID file if it is; use 'read-pid-file' instead of a potentially endless loop.
* gnu: mes: Update to 0.17.1.Jan Nieuwenhuizen2018-09-08
| | | | | | | * gnu/packages/patches/mes-nyacc-0.86.0.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/mes.scm (mes): Update to 0.17.1, depend on latest Nyacc 0.86.0. (nyacc-for-mes): Remove.
* gnu: nyacc: Update to 0.86.0.Jan Nieuwenhuizen2018-09-08
| | | | | | * gnu/packages/patches/nyacc-binary-literals.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/mes.scm (nyacc): Update to 0.86.0, add patch.
* gnu: Add frotz, frotz-dumb-terminal, and frotz-sdl.Benjamin Slade2018-09-08
| | | | | | | * gnu/packages/games.scm (frotz, frotz-dumb-terminal, frotz-sdl): New variables. Signed-off-by: Kei Kebreau <kkebreau@posteo.net>
* gnu: linux-libre: Update to 4.18.6.Mark H Weaver2018-09-07
| | | | | * gnu/packages/linux.scm (%linux-libre-version): Update to 4.18.6. (%linux-libre-hash): Update hash.
* gnu: linux-libre@4.14: Update to 4.14.68.Mark H Weaver2018-09-07
| | | | | * gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.68. (%linux-libre-4.14-hash): Update hash.
* gnu: linux-libre@4.9: Update to 4.9.125.Mark H Weaver2018-09-07
| | | | * gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.125.
* gnu: linux-libre@4.4: Update to 4.4.154.Mark H Weaver2018-09-07
| | | | * gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.154.
* services: 'instantiate-missing-services' reaches fixed point.Ludovic Courtès2018-09-07
| | | | | | | | | Fixes a bug whereby services indirectly depended on would not be automatically instantiated. * gnu/services.scm (instantiate-missing-services): Loop back when the length of ADJUSTED is greater than that of INSTANCES. * tests/services.scm ("instantiate-missing-services, indirect"): New test.
* gnu: diffoscope: Update to 100.Ludovic Courtès2018-09-07
| | | | * gnu/packages/package-management.scm (diffoscope): Update to 100.
* gnu: indent: Add version 2.2.12.Ludovic Courtès2018-09-07
| | | | * gnu/packages/code.scm (indent-2.2.12): New variable.
* gnu: gdb: Update to 8.2.Ludovic Courtès2018-09-07
| | | | * gnu/packages/gdb.scm (gdb): Update to 8.2.
* gnu: guile-json: Update to 1.2.0.Ludovic Courtès2018-09-07
| | | | | * gnu/packages/guile.scm (guile-json): Update to 1.2.0. [license]: Change to GPL3+.
* gnu: Add r-ggformula.pimi2018-09-07
| | | | | | * gnu/packages/cran.scm (r-ggformula): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add r-mosaiccore.pimi2018-09-07
| | | | | | * gnu/packages/cran.scm (r-mosaiccore): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add r-ggstance.pimi2018-09-07
| | | | | | gnu/packages/cran.scm (r-ggstance): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add r-abctools.pimi2018-09-07
| | | | | | * gnu/packages/cran.scm (r-abctools): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add r-abcrf.pimi2018-09-07
| | | | | | * gnu/packages/cran.scm (r-abcrf): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add r-abcp2.pimi2018-09-07
| | | | | | * gnu/packages/cran.scm (r-abcp2): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: emacs-ess: Update to 17.11.Alex Branham2018-09-07
| | | | | | | | | | | * gnu/packages/emacs.scm (emacs-ess): Update to 17.11 [url]: Use github for https [snippet]: update julia-mode substitution, only build info doc, bypass failing test [propagated-inputs]: Add emacs-julia-mode [description]: Mention that ESS supports Julia and JAGS (which replaces OpenBUGS) [arguments]: Remove 'set-home' phase. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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