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2016-09-26profiles: manifest-lookup-package: Optionally match version prefix.Ricardo Wurmus
* guix/profiles.scm (manifest-lookup-package): Optionally filter store item matches by version prefix.
2016-09-26gnu: Add r-txdb-hsapiens-ucsc-hg19-knowngene.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-txdb-hsapiens-ucsc-hg19-knowngene): New variable.
2016-09-26gnu: Add r-grohmm.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-grohmm): New variable.
2016-09-26gnu: Add r-systempiper.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-systempiper): New variable.
2016-09-26gnu: Add r-shortread.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-shortread): New variable.
2016-09-26gnu: Add r-gostats.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gostats): New variable.
2016-09-26gnu: Add r-category.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-category): New variable.
2016-09-26gnu: Add r-gseabase.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-gseabase): New variable.
2016-09-26gnu: Add r-rbgl.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-rbgl): New variable.
2016-09-26gnu: Add r-annotationforge.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotationforge): New variable.
2016-09-26gnu: Add r-batchjobs.Ricardo Wurmus
* gnu/packages/statistics.scm (r-batchjobs): New variable.
2016-09-26gnu: Add r-fail.Ricardo Wurmus
* gnu/packages/statistics.scm (r-fail): New variable.
2016-09-26gnu: Add r-bbmisc.Ricardo Wurmus
* gnu/packages/statistics.scm (r-bbmisc): New variable.
2016-09-26gnu: Add r-checkmate.Ricardo Wurmus
* gnu/packages/statistics.scm (r-checkmate): New variable.
2016-09-26gnu: Add r-backports.Ricardo Wurmus
* gnu/packages/statistics.scm (r-backports): New variable.
2016-09-26gnu: Add r-sendmailr.Ricardo Wurmus
* gnu/packages/statistics.scm (r-sendmailr): New variable.
2016-09-26gnu: Add r-pheatmap.Ricardo Wurmus
* gnu/packages/statistics.scm (r-pheatmap): New variable.
2016-09-26gnu: Add r-matrix.Ricardo Wurmus
* gnu/packages/statistics.scm (r-matrix): New variable.
2016-09-26gnu: Add r-deseq2.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-deseq2): New variable.
2016-09-26gnu: Add r-genefilter.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-genefilter): New variable.
2016-09-26gnu: Add r-hmisc.Ricardo Wurmus
* gnu/packages/statistics.scm (r-hmisc): New variable.
2016-09-26gnu: Add r-geneplotter.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-geneplotter): New variable.
2016-09-26gnu: Add r-annotate.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (r-annotate): New variable.
2016-09-26gnu: Add r-rpart.Ricardo Wurmus
* gnu/packages/statistics.scm (r-rpart): New variable.
2016-09-26gnu: Add r-rjson.Ricardo Wurmus
* gnu/packages/web.scm (r-rjson): New variable.
2016-09-26gnu: Add r-hwriter.Ricardo Wurmus
* gnu/packages/web.scm (r-hwriter): New variable.
2016-09-26gnu: tcc: Disable build on MIPS.Ricardo Wurmus
* gnu/packages/c.scm (tcc)[supported-systems]: Disable build on mips64el.
2016-09-25gnu: Add optipng.Arun Isaac
* gnu/packages/image.scm (optipng): New variable. Signed-off-by: Kei Kebreau <kei@openmailbox.org>
2016-09-26system: Don't emit a GRUB 'search' command when passed a GRUB file name.Ludovic Courtès
Reported by Tomáš Čech <tcech@suse.com> at <http://debbugs.gnu.org/cgi/bugreport.cgi?bug=20067#26>. * gnu/system/grub.scm (grub-root-search): Don't emit anything when FILE is a string that does not denote an absolute file name.
2016-09-25gnu: epiphany: Drop NSS and libwnck.Ricardo Wurmus
These dependencies were dropped in Epiphany 3.21.x. * gnu/packages/gnome.scm (epiphany)[inputs]: Remove "nss" and "libwnck".
2016-09-25gnu: epiphany: Update to 3.22.0.Ricardo Wurmus
* gnu/packages/gnome.scm (epiphany): Update to 3.22.0.
2016-09-25gnu: python-virtualenv: Update to 15.0.3.Ricardo Wurmus
* gnu/packages/python.scm (python-virtualenv): Update to 15.0.3. [arguments]: Disable failing test.
2016-09-25gnu: linux-libre: Update to 4.7.5.Mark H Weaver
* gnu/packages/linux.scm (linux-libre): Update to 4.7.5.
2016-09-25gnu: linux-libre@4.4: Update to 4.4.22.Mark H Weaver
* gnu/packages/linux.scm (linux-libre-4.4): Update to 4.4.22.
2016-09-25gnu: Add pam-krb5John Darrington
* gnu/packages/admin.scm (pam-krb5): New variable.
2016-09-24gnu: privoxy: Update to 3.0.26.Efraim Flashner
* gnu/packages/tor.scm (privoxy): Update to 3.0.26. [home-page]: Use https.
2016-09-24gnu: tor: Update to 0.2.8.8.Efraim Flashner
* gnu/packages/tor.scm (tor): Update to 0.2.8.8. [source]: Update source url. [home-page]: Use https.
2016-09-24system: grub.cfg uses correct file names when store is not in root partition.Carlos Sánchez de La Lama
Fixes <http://bugs.gnu.org/24346>. Reported by csanchezdll@gmail.com (Carlos Sánchez de La Lama). * guix/scripts/system.scm (previous-grub-entries): Get the initrd file name from PARAMS. * gnu/system.scm (operating-system-grub.cfg): Use 'operating-system-initrd-file' to retrieve the initrd file name. * gnu/system/grub.scm (strip-mount-point): New procedure. (grub-configuration-file)[entry->gexp]: Call 'strip-mount-point' for LINUX and INITRD. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
2016-09-24system: 'read-boot-parameters' reads the 'initrd' parameter.Ludovic Courtès
* gnu/system.scm (<boot-parameters>)[initrd]: New field. (read-boot-parameters): Read the 'initrd' element and fill in the 'initrd' field of the result.
2016-09-24gnu: Add gforth.ng0
* gnu/packages/gforth.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. Co-authored-by: 宋文武 <iyzsong@gmail.com>
2016-09-24gnu: Add gnome-calculator.Rene Saavedra
* gnu/packages/gnome.scm (gnome-calculator): New variable. Signed-off-by: Kei Kebreau <kei@openmailbox.org>
2016-09-23gnu: Add cmark.Erik Edrosa
* gnu/packages/markdown.scm (cmark): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
2016-09-23gnu: Add enet.ng0
* gnu/packages/networking.scm (enet): New variable. Signed-off-by: Leo Famulari <leo@famulari.name>
2016-09-23gnu: flashrom: Update to 0.9.9Danny Milosavljevic
* gnu/packages/flashing-tools.scm (flashrom): Update to 0.9.9. [source]: Use HTTPS URL. Remove "flashrom-use-libftdi1.patch". [aruments]: Add 'CONFIG_ENABLE_LIBUSB0_PROGRAMMERS=no' to #:make-flags. * gnu/packages/patches/flashrom-use-libftdi1.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Remove it. Signed-off-by: Leo Famulari <leo@famulari.name>
2016-09-23gnu: Add nickle.ng0
* gnu/packages/nickle.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it. Signed-off-by: Leo Famulari <leo@famulari.name>
2016-09-23gnu: orpheus: Use 'modify-phases'.Efraim Flashner
* gnu/packages/orpheus.scm (orpheus)[arguments]: Use the 'modify-phases' syntax.
2016-09-23gnu: orpheus: Fix build on mips64el.Efraim Flashner
* gnu/packages/orpheus.scm (orpheus)[arguments]: On mips64el, pass "--host=mips64el-unknown-linux-gnu" to ./configure.
2016-09-23gnu: giac-xcas: Update to 1.2.2-81.Nicolas Goaziou
* gnu/packages/algebra.scm (giac-xcas): Update to 1.2.2-81. Signed-off-by: Leo Famulari <leo@famulari.name>
2016-09-23gnu: r-curl: Respect CURL_CA_BUNDLE variable.Ricardo Wurmus
* gnu/packages/web.scm (r-curl)[arguments]: Add phase "allow-CURL_CA_BUNDLE".
2016-09-23gnu: sra-tools: Update to 2.7.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.7.0.
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