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* Merge branch 'master' into core-updatesMarius Bakke2018-11-20
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| * gnu: Add missing patch to local.mk.Marius Bakke2018-11-20
| | | | | | | | | | | | This line was removed by accident in 0a41123f01d5d2466d6f533be3644ac8c9a2bdf9. * gnu/local.mk (dist_patch_DATA): Add "clang-3.5-libc-search-path.patch".
| * gnu: libwebp: Update to 1.0.1.Marius Bakke2018-11-20
| | | | | | | | * gnu/packages/image.scm (libwebp): Update to 1.0.1.
| * gnu: fluidsynth: Update to 2.0.2.Marius Bakke2018-11-20
| | | | | | | | * gnu/packages/audio.scm (fluidsynth): Update to 2.0.2.
| * gnu: python-joblib: Update home page.Marius Bakke2018-11-20
| | | | | | | | * gnu/packages/python.scm (python-joblib)[home-page]: Update to current.
| * gnu: python-joblib: Update to 0.13.0.Marius Bakke2018-11-20
| | | | | | | | | | | | | | | | * gnu/packages/python.scm (python-joblib): Update to 0.13.0. [source](snippet): Remove. [arguments]: Remove 'disable-failing-tests' phase. Add custom check phase. [native-inputs]: Remove PYTHON-NOSE, PYTHON-SPHINX, PYTHON-DOCUTILS and PYTHON-NUMPYDOC. Add PYTHON-PYTEST.
| * gnu: python-natsort: Update to 5.4.1.Marius Bakke2018-11-20
| | | | | | | | | | | | | | | | | | * gnu/packages/python.scm (python-natsort): Update to 5.4.1. [arguments]: Add #:modules. Replace 'check' phase with custom pytest invokation. [native-inputs]: Remove PYTHON-PYTEST-CACHE, PYTHON-PYTEST-FLAKES and PYTHON-PYTEST-PEP8. Add PYTHON-PYTEST and PYTHON-PYTEST-MOCK. (python2-natsort)[native-inputs]: Remove PYTHON2-ENUM34 and PYTHON2-MOCK.
| * gnu: z3: Update to 4.8.1.Marius Bakke2018-11-20
| | | | | | | | * gnu/packages/maths.scm (z3): Update to 4.8.1.
| * gnu: z3: Fetch source using git.Marius Bakke2018-11-20
| | | | | | | | * gnu/packages/maths.scm (z3)[source]: Change to GIT-FETCH.
| * gnu: xonotic: Symlink to xonotic data instead of copying into xonotic.Pkill -92018-11-19
| | | | | | | | | | | | | | | | * gnu/packages/games.scm (xonotic)[arguments]: Modify the phase 'install-data so it creates a symlink to xonotic's data instead of copying it into the xonotic package. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| * gnu: Add autotalent.Thorsten Wilms2018-11-19
| | | | | | | | | | | | * gnu/packages/audio.scm (autotalent): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| * gnu: git-when-merged: Fix license.Ludovic Courtès2018-11-19
| | | | | | | | | | | | | | Reported by Mark H Weaver <mhw@netris.org>. * gnu/packages/version-control.scm (git-when-merged)[license]: Change to GPL2+.
| * gnu: r-shinyfiles: Update to 0.7.2.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/web.scm (r-shinyfiles): Update to 0.7.2.
| * gnu: r-mclust: Update to 5.4.2.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/statistics.scm (r-mclust): Update to 5.4.2.
| * gnu: r-openssl: Update to 1.1.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/statistics.scm (r-openssl): Update to 1.1.
| * gnu: r-biocmanager: Update to 1.30.4.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/cran.scm (r-biocmanager): Update to 1.30.4.
| * gnu: r-ggeffects: Update to 0.7.0.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/cran.scm (r-ggeffects): Update to 0.7.0.
| * gnu: r-sjstats: Update to 0.17.2.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/cran.scm (r-sjstats): Update to 0.17.2.
| * gnu: r-ggpubr: Update to 0.2.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/cran.scm (r-ggpubr): Update to 0.2.
| * gnu: r-recipes: Update to 0.1.4.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/cran.scm (r-recipes): Update to 0.1.4.
| * gnu: r-dimred: Update to 0.2.2.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/cran.scm (r-dimred): Update to 0.2.2.
| * gnu: r-ensembldb: Update to 2.6.2.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.2.
| * gnu: r-msnbase: Update to 2.8.1.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.1.
| * gnu: r-genomeinfodb: Update to 1.18.1.Roel Janssen2018-11-19
| | | | | | | | * gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.18.1.
| * gnu: Add clojure-algo-monads.Alex Vong2018-11-19
| | | | | | | | * gnu/packages/lisp.scm (clojure-algo-monads): New public variable.
| * gnu: Add clojure-tools-macro.Alex Vong2018-11-19
| | | | | | | | * gnu/packages/lisp.scm (clojure-tools-macro): New public variable.
| * gnu: Add clojure-algo-generic.Alex Vong2018-11-19
| | | | | | | | * gnu/packages/lisp.scm (clojure-algo-generic): New public variable.
| * gnu: Add clojure-core-match.Alex Vong2018-11-19
| | | | | | | | * gnu/packages/lisp.scm (clojure-core-match): New public variable.
| * gnu: Add clojure-instaparse.Alex Vong2018-11-19
| | | | | | | | * gnu/packages/lisp.scm (clojure-instaparse): New public variable.
| * build-system: Add 'clojure-build-system'.Alex Vong2018-11-19
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * guix/build-system/clojure.scm, guix/build/clojure-build-system.scm: New files. * guix/build/clojure-utils.scm (@*, @@*): New macros. (%source-dirs, %test-dirs, %compile-dir, %main-class, %omit-source?, %aot-include, %aot-exclude, %tests?, %test-include, %test-exclude, %clojure-regex): New variables. (package-name->jar-names, canonicalize-relative-path, find-files*, file-sans-extension, relative-path->clojure-lib-string, find-clojure-libs, compiled-from?, include-list\exclude-list, eval-with-clojure, create-jar): New procedures. * Makefile.am (MODULES): Add them. * doc/guix.texi (Build Systems): Document 'clojure-build-system'.
| * guix: Add clojure-utils.Alex Vong2018-11-19
| | | | | | | | | | | | * guix/build/clojure-utils.scm: New file. * gnu/packages/lisp.scm (clojure)[arguments]: Use it. * Makefile.am (MODULES): Add it.
| * gnu: clojure: Use (guix build java-utils) to simplify build phases.Alex Vong2018-11-19
| | | | | | | | | | * gnu/packages/lisp.scm (clojure)[arguments]: Use 'ant-build-javadoc', 'install-jars' and 'install-javadoc' in build phases.
| * gnu: clojure: Refactor to ensure there's a single list of libraries.Alex Vong2018-11-19
| | | | | | | | | | | | | | This avoids having to update multiple lists. * gnu/packages/lisp.scm (clojure)[native-inputs]: Use new local variable. [arguments]: Adjust build phases accordingly.
| * gnu: clojure: Remove 'remove-archives' snippet.Alex Vong2018-11-19
| | | | | | | | | | | | | | | | | | This is no longer needed since clojure now makes official source releases in github. * gnu/packages/lisp.scm (clojure)[source]: Remove it. [native-inputs]: Remove it in 'submodule'. [arguments]: Adjust 'unpack-submodule-sources' phase accordingly.
| * gnu: clojure: Move from java to lisp.Alex Vong2018-11-19
| | | | | | | | | | * gnu/packages/java.scm (clojure): Move from here... * gnu/packages/lisp.scm (clojure): ...to here.
| * gnu: python-kivy: Update to 1.10.1Jovany Leandro G.C2018-11-19
| | | | | | | | | | | | * gnu/packages/python.scm (python-kivy): Update to 1.10.1. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
| * gnu: help2man: Add 1.47.8.Ludovic Courtès2018-11-19
| | | | | | | | * gnu/packages/man.scm (help2man/latest): New variable.
| * gnu: fuse-exfat: Update to 1.3.0.Ludovic Courtès2018-11-19
| | | | | | | | * gnu/packages/linux.scm (fuse-exfat): Update to 1.3.0.
| * gnu: diffoscope: Update to 105.Ludovic Courtès2018-11-19
| | | | | | | | * gnu/packages/package-management.scm (diffoscope): Update to 105.
| * guix system: Fix 'init'.Ludovic Courtès2018-11-19
| | | | | | | | | | | | | | | | Fixes a regression introduced in 52ee4479ef26826a53b9929cd00ca7738be687b1, whereby 'install' would now be passed a <computed-file> object instead of a derivation. * guix/scripts/system.scm (install): Call 'lower-object' on BOOTCFG.
| * gnu: Add libfdk 'FDK AAC' library.Leo Famulari2018-11-18
| | | | | | | | * gnu/packages/audio.scm (libfdk): New variable.
| * guix system: Clarify 'perform-action'.Ludovic Courtès2018-11-18
| | | | | | | | | | * guix/scripts/system.scm (perform-action): Move non-monadic local variables outside the 'mlet' form.
| * guix system: De-monadify bootloader installation script.Ludovic Courtès2018-11-18
| | | | | | | | | | | | | | | | | | * guix/scripts/system.scm (bootloader-installer-derivation): Rename to... (bootloader-installer-script): ... this. Use 'scheme-file' instead of 'gexp->file'. (perform-action): Adjust accordingly. Move 'lower-object' call to the point where DRVS is computed.
| * guix system: Simplify bootloader package handling.Ludovic Courtès2018-11-18
| | | | | | | | | | | | | | * guix/scripts/system.scm (perform-action): Remove 'bootloader-package' variable. Pass (bootloader-package bootloader) as the 2nd argument to 'bootloader-installer-derivation'. Remove BOOTLOADER-PACKAGE from DRVS since it's redundant.
| * vm: Remove explicit calls to 'operating-system-derivation'.Ludovic Courtès2018-11-18
| | | | | | | | | | | | | | * gnu/system/vm.scm (iso9660-image): Change 'os-drv' to 'os' and remove call to 'operating-system-derivation'. (system-qemu-image): Likewise. (system-qemu-image/shared-store): Likewise.
| * system: De-monadify 'operating-system-bootcfg'.Ludovic Courtès2018-11-18
| | | | | | | | | | | | | | | | | | * gnu/system.scm (operating-system-bootcfg): Remove 'mlet*' and 'lower-object' call. * gnu/system/vm.scm (system-disk-image) (system-qemu-image/shared-store): Adjust accordingly. * guix/scripts/system.scm (perform-action): Add 'lower-object' call for BOOTCFG.
| * system: Please Emacs.Ludovic Courtès2018-11-18
| | | | | | | | | | * gnu/system.scm (operating-system-bootcfg): Remove opening parenthesis at the beginning of the line in the docstring to placate Emacs.
| * system: De-monadify 'operating-system-boot-parameters'.Ludovic Courtès2018-11-18
| | | | | | | | | | | | | | * gnu/system.scm (operating-system-boot-parameters): Turn to direct style instead of monadic. (operating-system-bootcfg): Adjust accordingly. (operating-system-boot-parameters-file): Likewise.
| * linux-initrd: Return file-like objects instead of monadic values.Ludovic Courtès2018-11-18
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This is an incompatible change visible to users via the 'initrd' field of 'operating-system'. However, assuming the user's 'initrd' value tail-calls to 'raw-initrd' or 'base-initrd', the switch to non-monadic style is invisible. * gnu/system/linux-initrd.scm (expression->initrd): Use 'computed-file' instead of 'gexp->derivation'. (raw-initrd, base-initrd): Adjust docstring to mention non-monadic return. * gnu/system/vm.scm (expression->derivation-in-linux-vm): Adjust accordingly. * gnu/system.scm (operating-system-directory-base-entries) (operating-system-initrd-file) (operating-system-boot-parameters): Adjust accordingly. * doc/guix.texi (operating-system Reference) (Initial RAM Disk): Update.
| * system: Simplify kernel argument handling.Ludovic Courtès2018-11-18
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * gnu/system.scm (bootable-kernel-arguments): Remove 'kernel-arguments' parameter and return only the base list of kernel arguments. Rename 'system.drv' to 'system'. (operating-system-kernel-arguments): Adjust accordingly and remove 'system.drv' parameter. (read-boot-parameters-file): Adjust accordingly. Remove 'if params' since dominating code assumed PARAMS is always true. (operating-system-boot-parameters): Remove 'system.drv' parameter; add #:system-kernel-arguments? instead and honor it. (operating-system-bootcfg): Adjust accordingly. (operating-system-boot-parameters-file): Likewise. * gnu/system/vm.scm (system-qemu-image/shared-store-script): Remove 'os-drv' variable. Adjust call to 'operating-system-kernel-arguments'.
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