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* gnu: Use license: prefix in shellutils.scm.Brendan Tildesley2019-05-06
| | | | | | * gnu/packages/shellutils.scm Use license: prefix in all packages. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: zimg: Fix license field to refer to license:wtfpl2.Brendan Tildesley2019-05-06
| | | | | | * gnu/packages/image.scm (zimg): Fix license field to refer to license:wtfpl2. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: gcc@9: Fix limits.h include for cross builds.Carl Dong2019-05-06
| | | | | | | | | | | | This allows us to supply gcc-9 as an optional argument to cross-gcc, successfully constructing gcc-9-based cross-compilers. * gnu/packages/gcc.scm (gcc-9)[source](patches): Add "gcc-9-asan-fix-limits-include.patch". * gnu/packages/patches/gcc-9-asan-fix-limits-include.patch: New file. * gnu/local.mk (dist_patch_DATA): Add the patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: cross-base: Apply gcc 8 patch to gcc >= 8.Carl Dong2019-05-06
| | | | | | | | * gnu/packages/cross-base.scm (cross-gcc): Apply gcc 8 patch to gcc >= 8. * gnu/packages/patches/gcc-8-cross-environment-variables.patch: New file. * gnu/local.mk (dist_patch_DATA): Add the patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: gcc: Add 9.1.0.Carl Dong2019-05-06
| | | | | | | | | * gnu/packages/gcc.scm (gcc-9): New variable. * gnu/packages/commencement.scm (gcc-toolchain-9): New variable. * gnu/packages/patches/gcc-9-strmov-store-file-names.patch: New file. * gnu/local.mk (dist_patch_DATA): Add the patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: linux-libre: Update to 5.0.13.Mark H Weaver2019-05-06
| | | | | * gnu/packages/linux.scm (%linux-libre-version): Update to 5.0.13. (%linux-libre-hash): Update hash.
* gnu: linux-libre@4.19: Update to 4.19.40.Mark H Weaver2019-05-06
| | | | | * gnu/packages/linux.scm (%linux-libre-4.19-version): Update to 4.19.40. (%linux-libre-4.19-hash): Update hash.
* gnu: linux-libre@4.14: Update to 4.14.116.Mark H Weaver2019-05-06
| | | | | * gnu/packages/linux.scm (%linux-libre-4.14-version): Update to 4.14.116. (%linux-libre-4.14-hash): Update hash.
* gnu: linux-libre@4.9: Update to 4.9.173.Mark H Weaver2019-05-06
| | | | * gnu/packages/linux.scm (linux-libre-4.9): Update to 4.9.173.
* build: go-build-system: Follow-up to commit f42e4ebb56.Maxim Cournoyer2019-05-05
| | | | | | | | This follows commit f42e4ebb56, which made it so that the unpack phase return value could be left unspecified. * guix/build/go-build-system.scm (unpack): Ensure that the value returned upon a successful completion of the phase is #t.
* build: go-build-system: Follow-up commit.Maxim Cournoyer2019-05-05
| | | | | | | | There was an extraneous pair of parens in commit 7e84d3eef7. Thanks for Mark Weaver for reporting the issue. * guix/build/go-build-system.scm (unpack): Remove the extraneous pair of parentheses surrounding the `display' function call.
* gnu: docker: Refer to xz by its absolute path.Maxim Cournoyer2019-05-05
| | | | | * gnu/packages/docker.scm (docker)[inputs]: Add xz. [phases]{patch-paths}: Patch the reference to xz.
* gnu: docker: Patch the reference to the docker proxy.Maxim Cournoyer2019-05-05
| | | | | | * gnu/packages/docker.scm (docker)[inputs]: Add docker-libnetwork-cmd-proxy. * gnu/packages/docker.scm (docker)[phases]{patch-paths}: Patch proxy.go to refer to the docker-proxy binary by its absolute path.
* gnu: docker: Optimize substitution macros.Maxim Cournoyer2019-05-05
| | | | | | | | | | | This change halves the time needed to patch the paths. * gnu/packages/docker.scm (docker)[phases]{patch-paths}: Allow passing multiple SOURCE-TEXT, PACKAGE and RELATIVE-PATH tuples so that the rewrite rules can be generated and processed by a single use of the SUBSTITUTE* macro. Rename SUBSTITUTE-LOOKPATH to SUBSTITUTE-LOOKPATH* and substitute-Command to SUBSTITUTE-COMMAND* to denote the change. Adapt the uses of SUBSTITUTE-LOOKPATH* and SUBSTITUTE-COMMAND*.
* gnu: docker: Make macros use a relative path as argument.Maxim Cournoyer2019-05-05
| | | | | | * gnu/packages/docker.scm (docker)[phases]: Move implementation detail inside the SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND macros definition, so that the relative path argument can be given as a relative path.
* gnu: docker: Harmonize LookPath regexes.Maxim Cournoyer2019-05-05
| | | | | | * gnu/packages/docker.scm (docker)[phases]: In the patch-paths phase, update the regexes used by SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND to match at the start of the word, like it's done later.
* gnu: docker: Cleanup extraneous comments.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker): Remove "parenthesis-balancing" comments.
* gnu: docker: Fix indentation.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker): Fix indentation using Emacs.
* services: docker: Add new fields to support proxy.Maxim Cournoyer2019-05-05
| | | | | | | | | | The Docker proxy enables inter-container and outside-to-container loopback, and is required by the Docker registry server. * gnu/services/docker.scm (docker-configuration)[proxy, enable-proxy?]: Add fields. (docker-shepherd-service): Use them. (serialize-boolean): New function.
* gnu: Add docker-libnetwork-cmd-proxy.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker-libnetwork-cmd-proxy): New variable.
* gnu: Add docker-libnetwork.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker-libnetwork): New private variable.
* gnu: Add go-netlink.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/linux.scm (go-netlink): New variable.
* gnu: Add go-netns.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/networking.scm (go-netns): New variable.
* gnu: Add go-sctp.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/networking.scm (go-sctp): New variable.
* build: go-build-system: Ensure uniform unpacking directory.Maxim Cournoyer2019-05-05
| | | | | | | | | | | Depending on whether the source is a directory or an archive, we strip the source directory or preserve it, respectively. This change makes it so that whether the type of the source, it is unpacked at the expected location given by the IMPORT-PATH of the Go build system. * guix/build/go-build-system.scm: Add the (ice-9 ftw) module. (unpack): Add inner procedure to maybe strip the top level directory of an archive, document it and use it.
* build: go-build-system: Use WHEN for side-effect conditionals.Maxim Cournoyer2019-05-05
| | | | | * guix/build/go-build-system.scm (unpack): Replace single branch `if' by `when'.
* build: go-build-system: Re-ident.Maxim Cournoyer2019-05-05
| | | | * guix/build/go-build-system.scm (unpack): Fix indentation.
* gnu: r-chippeakanno: Update to 3.18.0.Ricardo Wurmus2019-05-06
| | | | | * gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.18.0. [propagated-inputs]: Add r-rtracklayer.
* gnu: r-arrmnormalization: Update to 1.24.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-arrmnormalization): Update to 1.24.0.
* gnu: r-progeny: Update to 1.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-progeny): Update to 1.6.0.
* gnu: r-rbowtie2: Update to 1.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-rbowtie2): Update to 1.6.0.
* gnu: r-zfpkm: Update to 1.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-zfpkm): Update to 1.6.0.
* gnu: r-webbioc: Update to 1.56.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-webbioc): Update to 1.56.0.
* gnu: r-widgettools: Update to 1.62.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-widgettools): Update to 1.62.0.
* gnu: r-wiggleplotr: Update to 1.8.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-wiggleplotr): Update to 1.8.0.
* gnu: r-wrench: Update to 1.2.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-wrench): Update to 1.2.0.
* gnu: r-xcms: Update to 3.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-xcms): Update to 3.6.0.
* gnu: r-massspecwavelet: Update to 1.50.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-massspecwavelet): Update to 1.50.0.
* gnu: r-xbseq: Update to 1.16.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-xbseq): Update to 1.16.0.
* gnu: r-roar: Update to 1.20.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-roar): Update to 1.20.0.
* gnu: r-yarn: Update to 1.10.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yarn): Update to 1.10.0.
* gnu: r-quantro: Update to 1.18.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-quantro): Update to 1.18.0.
* gnu: r-yaqcaffy: Update to 1.44.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yaqcaffy): Update to 1.44.0.
* gnu: r-simpleaffy: Update to 2.60.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-simpleaffy): Update to 2.60.0.
* gnu: r-gcrma: Update to 2.56.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-gcrma): Update to 2.56.0.
* gnu: r-yapsa: Update to 1.10.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yapsa): Update to 1.10.0.
* gnu: r-somaticsignatures: Update to 2.20.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-somaticsignatures): Update to 2.20.0.
* gnu: r-gtrellis: Update to 1.16.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.16.0.
* gnu: r-yamss: Update to 1.10.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yamss): Update to 1.10.0.
* gnu: r-ebimage: Update to 4.26.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-ebimage): Update to 4.26.0.
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