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* gnu: r-geneplotter: Update to 1.58.0.Ricardo Wurmus2018-06-02
| | | | * gnu/packages/bioinformatics.scm (r-geneplotter): Update to 1.58.0.
* gnu: r-copynumber: Update to 1.20.0.Ricardo Wurmus2018-06-02
| | | | * gnu/packages/bioinformatics.scm (r-copynumber): Update to 1.20.0.
* gnu: r-annotate: Update to 1.58.0.Ricardo Wurmus2018-06-02
| | | | * gnu/packages/bioinformatics.scm (r-annotate): Update to 1.58.0.
* gnu: r-qdnaseq: Update to 1.16.0.Ricardo Wurmus2018-06-02
| | | | | * gnu/packages/bioconductor.scm (r-qdnaseq): Update to 1.16.0. [propagated-inputs]: Add r-biocparallel.
* gnu: r-cghcall: Update to 2.42.0.Ricardo Wurmus2018-06-02
| | | | * gnu/packages/bioconductor.scm (r-cghcall): Update to 2.42.0.
* gnu: r-cghbase: Update to 1.40.0.Ricardo Wurmus2018-06-02
| | | | * gnu/packages/bioconductor.scm (r-cghbase): Update to 1.40.0.
* gnu: r-marray: Update to 1.58.0.Ricardo Wurmus2018-06-02
| | | | | * gnu/packages/bioconductor.scm (r-marray): Update to 1.58.0. [propagated-inputs]: Remove r-biobase.
* gnu: r-chippeakanno: Update to 3.14.0.Ricardo Wurmus2018-06-02
| | | | | | * gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.14.0. [propagated-inputs]: Add r-biostrings, r-delayedarray, r-genomicranges, r-iranges, and r-s4vectors.
* gnu: r-ripseeker: Update to 1.20.0.Ricardo Wurmus2018-06-02
| | | | * gnu/packages/bioconductor.scm (r-ripseeker): Update to 1.20.0.
* gnu: r-diffbind: Update to 2.8.0.Ricardo Wurmus2018-06-02
| | | | | | * gnu/packages/bioconductor.scm (r-diffbind): Update to 2.8.0. [propagated-inputs]: Add r-genomicranges, r-ggplot2, and r-summarizedexperiment.
* gnu: r-regioner: Update to 1.12.0.Ricardo Wurmus2018-06-02
| | | | | * gnu/packages/bioconductor.scm (r-regioner): Update to 1.12.0. [propagated-inputs]: Add r-s4vectors.
* gnu: r-hpar: Update to 1.22.2.Ricardo Wurmus2018-06-02
| | | | * gnu/packages/bioconductor.scm (r-hpar): Update to 1.22.2.
* gnu: r-minimal: Update to 3.5.0.Ricardo Wurmus2018-06-02
| | | | | | | | * gnu/packages/statistics.scm (r-with-tests): New variable derived from r-minimal; update to 3.5.0. [arguments]: Build recommended packages. (r-minimal): Inherit from r-with-tests. [arguments]: Disable recommended packages and tests.
* gnu: emacs-elfeed: Update to 3.0.0.Clément Lassieur2018-06-02
| | | | * gnu/packages/emacs.scm (emacs-elfeed): Update to 3.0.0.
* gnu: icecat: Add more fixes from upstream esr52.Mark H Weaver2018-06-01
| | | | | * gnu/packages/gnuzilla.scm (icecat)[source]: Add selected fixes from the upstream mozilla-esr52 repository.
* gnu: qtbase: Fix build on older kernels.Ricardo Wurmus2018-06-01
| | | | | * gnu/packages/qt.scm (qtbase)[arguments]: Add configure flags "-no-feature-getentropy" and "-no-feature-renameat2".
* vm: Use 'with-extensions'.Ludovic Courtès2018-06-01
| | | | | * gnu/system/vm.scm (system-docker-image)[build]: Use 'with-extensions'. Remove 'add-to-load-path' calls.
* bootloader: grub: Use 'with-extensions'.Ludovic Courtès2018-06-01
| | | | | | | * gnu/bootloader/grub.scm (svg->png): Use 'with-extensions'. Remove 'add-to-load-path' calls. * gnu/build/svg.scm: Use (rsvg) and (cairo) the normal way. Remove 'module-autoload!' calls.
* bootloader: grub: Simplify 'svg->png'.Ludovic Courtès2018-06-01
| | | | | * gnu/bootloader/grub.scm (svg->png): Remove now unneeded #:guile-for-build argument.
* tests: ssh: Use 'with-extensions'.Ludovic Courtès2018-06-01
| | | | | * gnu/tests/ssh.scm (run-ssh-test)[test]: Wrap body in 'with-extensions'. Remove %load-path manipulation code.
* gnu: rust: Add support for building 32-bit packages on 64-bit hosts.Robin Templeton2018-06-01
| | | | | | | | | | * gnu/packages/rust.scm (rust-bootstrap, rust-1.23): Use nix-system->gnu-triplet to determine the system type. (rust-1.19): Use readelf instead of nm in the atomic-lock-free test. (rust-1.23): Disable the cargo_test_env test. Disable parallel execution of tests. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add git-annex.Timothy Sample2018-06-01
| | | | | | * gnu/packages/version-control.scm (git-annex): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add ghc-disk-free-space.Timothy Sample2018-06-01
| | | | | | * gnu/packages/haskell.scm (ghc-disk-free-space): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: ghc-psqueues: Allow building with newer versions of QuickCheck.Timothy Sample2018-06-01
| | | | | | | * gnu/packages/haskell.scm (ghc-psqueues)[arguments]: Add configure flag to allow newer versions of QuickCheck. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add ghc-safesemaphore.Timothy Sample2018-06-01
| | | | | | * gnu/packages/haskell.scm (ghc-safesemaphore): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add ghc-esqueleto.Timothy Sample2018-06-01
| | | | | | * gnu/packages/haskell.scm (ghc-esqueleto): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add ghc-ifelse.Timothy Sample2018-06-01
| | | | | | * gnu/packages/haskell.scm (ghc-ifelse): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add ghc-feed.Timothy Sample2018-06-01
| | | | | | * gnu/packages/haskell.scm (ghc-feed): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add ghc-bloomfilter.Timothy Sample2018-06-01
| | | | | | * gnu/package/haskell.scm (ghc-bloomfilter): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* services: Add hpcguix-web.Rouby Pierre-Antoine2018-06-01
| | | | | | | | | | | | * gnu/service/web.scm (<hpcguix-web-configuration>): New record-type. (%hpcguix-web-accounts): New variable. (%hpcguix-web-activation,hpcguix-web-shepherd-service, hpcguix-web-service-type): New procedures. * gnu/tests/web.scm (run-hpcguix-web-server-test): New procedure. (%hpcguix-web-specs, %hpcguix-web-os, %test-hpcguix-web): New variable. * doc/guix.texi (Web Services): Add 'hpcguix-web'. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add hpcguix-web.Rouby Pierre-Antoine2018-06-01
| | | | | | * gnu/package/web.scm (hpcguix-web): New variable. Signed-off-by: Ludovic Courtès <ludovic.courtes@inria.fr>
* marionette: Add 'wait-for-tcp-port'.Ludovic Courtès2018-06-01
| | | | | | * gnu/build/marionette.scm (wait-for-tcp-port): New procedure. * gnu/tests/dict.scm (run-dicod-test)["connect inside"]: Use it instead of the inline loop.
* gnu: emacs-w3m: Update and allow builds with Emacs 26.Ludovic Courtès2018-06-01
| | | | | | | | | * gnu/packages/emacs.scm (emacs-w3m)[source]: Grab the source from github.com. [native-inputs]: Add TEXINFO. [arguments]: Add 'support-emacs!' phase. In 'patch-exec-paths' phase, make w3m.el and w3m-image.el writable. Remove substitution for 'w3m-image-viewer', which no longer exists.
* gnu: sddm: Fix CMake build.Stefan Stefanović2018-06-01
| | | | | | | | * gnu/packages/display-managers.scm (sddm): Fix CMake build. * gnu/local.mk (dist_patch_DATA): Register it. * gnu/packages/patches/sddm-fix-build-with-qt-5.11-1024.patch: New file. Signed-off-by: Rutger Helling <rhelling@mykolab.com>
* gnu: prosody: Update to 0.10.2 [fixes CVE-2018-10847].Leo Famulari2018-05-31
| | | | * gnu/packages/messaging.scm (prosody): Update to 0.10.2.
* gnu: Add emacs-zotxt.Konrad Hinsen2018-05-31
| | | | | | * gnu/packages/emacs.scm (emacs-zotxt): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add emacs-org-caldav.Konrad Hinsen2018-05-31
| | | | | | * gnu/packages/emacs.scm (emacs-org-caldav): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add python-bigfloat.Konrad Hinsen2018-05-31
| | | | | | | * gnu/packages/python.scm (python-bigfloat, python2-bigfloat): New variables. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: bear: Fix python path.Fis Trivial2018-05-31
| | | | | | | * gnu/packages/build-tools.scm (bear) [inputs]: Add python-wrapper. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* system: 'read-boot-parameters' provides a more meaningful warning.Ludovic Courtès2018-05-31
| | | | | | | 'system' here was bound to Guile's 'system' procedure. * gnu/system.scm (read-boot-parameters): Fix argument for fallback warning.
* file-systems: Always wait for devices to show up.Ludovic Courtès2018-05-31
| | | | | | | | | | Previously, 'canonicalize-device-spec' would wait for devices when they were specified as a label or UUID, but would not wait when the user passed a "/dev" file name directly. This could cause problems when the /dev node takes a while to show up. * gnu/build/file-systems.scm (canonicalize-device-spec): Add 'resolve' call in the 'string?' case.
* gnu: r-servr: Update to 0.10.Ricardo Wurmus2018-05-31
| | | | | * gnu/packages/web.scm (r-servr): Update to 0.10. [native-inputs]: Remove r-rcpp.
* gnu: r-seurat: Update to 2.3.1.Ricardo Wurmus2018-05-31
| | | | | * gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.1. [propagated-inputs]: Remove r-gridextra; add r-reticulate.
* gnu: r-shiny: Update to 1.1.0.Ricardo Wurmus2018-05-31
| | | | | | * gnu/packages/web.scm (r-shiny): Update to 1.1.0. [source]: Fetch from git. [propagated-inputs]: Add r-crayon.
* gnu: r-rjson: Update to 0.2.19.Ricardo Wurmus2018-05-31
| | | | * gnu/packages/web.scm (r-rjson): Update to 0.2.19.
* gnu: r-htmltable: Update to 1.12.Ricardo Wurmus2018-05-31
| | | | * gnu/packages/web.scm (r-htmltable): Update to 1.12.
* gnu: r-directlabels: Update to 2018.05.22.Ricardo Wurmus2018-05-31
| | | | * gnu/packages/statistics.scm (r-directlabels): Update to 2018.05.22.
* gnu: r-ranger: Update to 0.10.0.Ricardo Wurmus2018-05-31
| | | | * gnu/packages/statistics.scm (r-ranger): Update to 0.10.0.
* gnu: r-tclust: Update to 1.4-1.Ricardo Wurmus2018-05-31
| | | | * gnu/packages/statistics.scm (r-tclust): Update to 1.4-1.
* gnu: r-caret: Update to 6.0-80.Ricardo Wurmus2018-05-31
| | | | * gnu/packages/statistics.scm (r-caret): Update to 6.0-80.
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