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2017-08-03doc: 'patches' field of <origin> can list file-like objects.•••Fixes <http://bugs.gnu.org/27165>. Reported by sirgazil <sirgazil@zoho.com>. * doc/guix.texi (origin Reference): 'patches' can contain file-like objects. Ludovic Courtès
2017-08-02gnu: glibc@2.22: Fix security issues.•••Fixes CVE-2015-{5180,7547}, CVE-2016-{3075,3706,4429}. * gnu/packages/base.scm (glibc@2.22)[source]: Add patches. * gnu/packages/patches/glibc-CVE-2015-7547.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. Efraim Flashner
2017-08-02gnu: glibc@2.23: Fix CVE-2015-5180, CVE-2016-{3075,3706,4429}.•••* gnu/packages/base.scm (glibc@2.23)[source]: Add patches. * gnu/packages/patches/glibc-CVE-2016-3075.patch, gnu/packages/patches/glibc-CVE-2016-3706.patch, gnu/packages/patches/glibc-CVE-2016-4429.patch: New files. * gnu/local.mk (dist_patch_DATA): Register them. Efraim Flashner
2017-08-02gnu: glibc@2.24: Fix CVE-2015-5180.•••* gnu/packages/base.scm (glibc@2.24)[source]: Add patch. * gnu/packages/patches/glibc-CVE-2015-5180.patch: New file. * gnu/local.mk (dist_patch_DATA): Register it. Efraim Flashner
2017-08-02gnu: python2-conda: Fix build by building with enum34.•••* gnu/packages/package-management.scm (python2-conda): Use 'python2-variant'. [native-inputs]: Add python2-enum34. Leo Famulari
2017-08-02gnu: calibre: Add python2-msgpack as an input.•••* gnu/packages/ebook.scm (calibre)[inputs]: Add python2-msgpack. Manolis Ragkousis
2017-08-02gnu: gcc@4.7: Don't built on aarch64.•••* gnu/packages/gcc.scm (gcc@4.7, gcc@4.8, gcc@4.9)[supported-systems]: New field. Efraim Flashner
2017-08-02gnu: libpng-apng: Be sure to apply the APNG patch.•••* gnu/packages/image.scm (libpng-apng)[arguments]: Check the return status of the patching procedures. Leo Famulari
2017-08-02gnu: libpng-apng: Update to 1.6.28.•••Fixes <https://bugs.gnu.org/27556>. * gnu/packages/image.scm (libpng-apng): Update to 1.6.28. Remove inherit of 'libpng'. [version]: Use own version, remove 'package-version libpng'. [source]: Don't inherit the source of libpng. [arguments]: Update hash of libpng-apng source. Signed-off-by: Leo Famulari <leo@famulari.name> ng0
2017-08-02gnu: eyed3: Update to 0.8, build with python3.•••* gnu/packages/mp3.scm (eyed3): [source] Update to 0.8. [arguments]: Disable tests; don't use python-2. [propagated-inputs]: Add python-six and python-grako. [native-inputs]: Remove. Thomas Danckaert
2017-08-02gnu: Add python-grako•••* gnu/packages/python.scm (python-grako): New variable. Thomas Danckaert
2017-08-02gnu: hdf4: Update to 4.12.13.•••* gnu/packages/maths.scm (hdf4): Update to 4.12.13. Thomas Danckaert
2017-08-02gnu: libvirt: Update to 3.6.0.•••* gnu/packages/virtualization.scm (libvirt): Update to 3.6.0. Tobias Geerinckx-Rice
2017-08-02gnu: libvirt: Use HTTPS.•••* gnu/packages/virtualization.scm (libvirt)[source, home-page]: Use HTTPS. Tobias Geerinckx-Rice
2017-08-02gnu: Add r-rlang.•••* gnu/packages/statistics.scm (r-rlang): New variable. Roel Janssen
2017-08-02gnu: r-deseq2: Update to 1.16.1.•••* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.16.1. Roel Janssen
2017-08-02gnu: r-annotationforge: Update to 1.18.1.•••* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.18.1. Roel Janssen
2017-08-02gnu: r-category: Update to 2.42.1.•••* gnu/packages/bioinformatics.scm (r-category): Update to 2.42.1. Roel Janssen
2017-08-02gnu: r-biocstyle: Update to 2.4.1.•••* gnu/packages/bioinformatics.scm (r-biocstyle): Update to 2.4.1. Roel Janssen
2017-08-02gnu: r-dnacopy: Update to 1.50.1.•••* gnu/packages/bioinformatics.scm (r-dnacopy): Update to 1.50.1. Roel Janssen
2017-08-02gnu: r-iranges: Update to 2.10.2.•••* gnu/packages/bioinformatics.scm (r-iranges): Update to 2.10.2. Roel Janssen
2017-08-02gnu: r-genomeinfodb: Update to 1.12.2.•••* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.12.2. Roel Janssen
2017-08-02gnu: r-variantannotation: Update to 1.22.3.•••* gnu/packages/bioinformatics.scm (r-variantannotation): Update to 1.22.3. Roel Janssen
2017-08-02gnu: r-limma: Update to 3.32.5.•••* gnu/packages/bioinformatics.scm (r-limma): Update to 3.32.5. Roel Janssen
2017-08-02gnu: r-biobase: Update to 2.36.2.•••* gnu/packages/bioinformatics.scm (r-biobase): Update to 2.36.2. Roel Janssen
2017-08-02gnu: r-annotationdbi: Update to 1.38.2.•••* gnu/packages/bioinformatics.scm (r-annotationdbi): Update to 1.38.2. Roel Janssen
2017-08-02gnu: r-biomart: Update to 2.32.1.•••* gnu/packages/bioinformatics.scm (r-biomart): Update to 2.32.1. Roel Janssen
2017-08-02gnu: r-biocparallel: Update to 1.10.1.•••* gnu/packages/bioinformatics.scm (r-biocparallel): Update to 1.10.1. Roel Janssen
2017-08-02gnu: r-biostrings: Update to 2.44.2.•••* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.44.2. Roel Janssen
2017-08-02gnu: r-delayedarray: Update to 0.2.7.•••* gnu/packages/bioinformatics.scm (r-delayedarray): Update to 0.2.7. Roel Janssen
2017-08-02gnu: r-summarizedexperiment: Update to 1.6.3.•••* gnu/packages/bioinformatics.scm (r-summarizedexperiment): Update to 1.6.3. Roel Janssen
2017-08-02gnu: r-genomicalignments: Update to 1.12.1.•••* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.12.1. Roel Janssen
2017-08-02gnu: r-rtracklayer: Update to 1.36.4.•••* gnu/packages/bioinformatics.scm (r-rtracklayer): Update to 1.36.4. Roel Janssen
2017-08-02gnu: r-genomicfeatures: Update to 1.28.4.•••* gnu/packages/bioinformatics.scm (r-genomicfeatures): Update to 1.28.4. Roel Janssen
2017-08-02gnu: r-copywriter: Update to 2.8.1.•••* gnu/packages/bioinformatics.scm (r-copywriter): Update to 2.8.1. Roel Janssen
2017-08-02gnu: r-sva: Update to 3.24.4.•••* gnu/packages/bioinformatics.scm (r-sva): Update to 3.24.4. Roel Janssen
2017-08-02gnu: r-rsqlite: Update to 2.0.•••* gnu/packages/statistics.scm (r-rsqlite): Update to 2.0. Roel Janssen
2017-08-02gnu: Add r-blob.•••* gnu/packages/statistics.scm (r-blob): New variable. Roel Janssen
2017-08-02gnu: Add r-pkgconfig.•••* gnu/packages/statistics.scm (r-pkgconfig): New variable. Roel Janssen
2017-08-02pull: Honor '--no-grafts'.•••* guix/scripts/pull.scm (guix-pull): Parameterize %GRAFT? as a function of OPTS. Ludovic Courtès
2017-08-02pull: Use the commit ID as the version string.•••* guix/scripts/pull.scm (build-from-source): Add #:commit parameter. Pass it to BUILD. (build-and-install): Add #:commit and pass it to 'build-from-source'. (guix-pull): Pass #:commit to 'build-and-install'. Ludovic Courtès
2017-08-02pull: Fetch source code from Git.•••* guix/scripts/pull.scm (%snapshot-url, with-environment-variable) (with-PATH): Remove. (ensure-guile-git!): New procedure. (%repository-url): New variable. (%default-options): Add 'repository-url' and 'ref'. (show-help, %options): Add '--commit' and '--url'. (temporary-directory, first-directory, interned-then-deleted) (unpack): Remove. (build-from-source): Rename 'tarball' to 'source'. Remove call to 'unpack'. (build-and-install): Rename 'tarball' to 'source'. (honor-lets-encrypt-certificates!, report-git-error): New procedures. (with-git-error-handling): New macro. (guix-pull)[fetch-tarball]: Remove. Wrap body in 'with-git-error-handling'. Rewrite to use 'latest-repository-commit'. * build-aux/build-self.scm (build): Print an error message and exit when GUILE-GIT is #f. * doc/guix.texi (Invoking guix pull): Mention Git. Document '--commit' and '--branch'. Ludovic Courtès
2017-08-02build: Make Guile-Git a hard requirement.•••* configure.ac: Error out when (git) is missing. * doc/guix.texi (Requirements): Mention Guile-Git. * Makefile.am (MODULES): Add guix/git.scm unconditionally. Ludovic Courtès
2017-08-01gnu: re2: Update to 2017-08-01.•••* gnu/packages/regex.scm (re2): Update to 2017-08-01. Marius Bakke
2017-08-01gnu: maim: Update to 5.4.66.•••* gnu/packages/xdisorg.scm (maim): Update to 5.4.66. Marius Bakke
2017-08-01gnu: slop: Update to 7.3.48.•••* gnu/packages/xdisorg.scm (slop): Update to 7.3.48. Marius Bakke
2017-08-01gnu: git: Update to 2.13.4.•••* gnu/packages/version-control.scm (git): Update to 2.13.4. Marius Bakke
2017-08-01gnu: r-foreign: Update hash after upstream tarball change.•••* gnu/packages/statistics.scm (r-foreign): Update hash. The only difference in the tarball is the metadata. The contents are identical. Roel Janssen
2017-08-01gnu: r-foreign: Remove duplicate recipe.•••* gnu/packages/statistics.scm (r-foreign): Remove duplicate recipe. Roel Janssen
2017-08-01graph: Provide access to the package record in the emit functions.•••* guix/graph.scm (export-graph): Pass the node to the emit functions, instead of the node's label. Roel Janssen
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