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2019-01-26doc: Update bit about GUIX_LD_WRAPPER_ALLOW_IMPURITIES.Ludovic Courtès
This is a followup to d0a2db47fb550d684c47a0ae3b541a9a71727d9e. * doc/guix.texi (Application Setup)[The GCC toolchain]: Adjust bit about GUIX_LD_WRAPPER_ALLOW_IMPURITIES.
2019-01-26doc: Switch from "GuixSD" to "Guix System".Ludovic Courtès
* doc/guix.texi (Introduction): Add footnote about the change from "GuixSD" to "Guix System". Replace occurrences of "GuixSD" with "Guix System", "Guix", "system", or other appropriate phrases.
2019-01-26doc: Make /dev/kvm note more visible.Ludovic Courtès
Suggested by Giovanni Biscuolo <g@xelera.eu>. * doc/guix.texi (Invoking guix system): Move note about /dev/kvm access to the beginning of the 'vm' action description.
2019-01-26gnu: guix: Remove 'guix-devel' variable.Ludovic Courtès
* gnu/packages/package-management.scm (guix-devel): Remove.
2019-01-25gnu: pepr: Use PYPI-URI.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (pepr)[source]: Use PYPI-URI.
2019-01-25gnu: python2-warpedlmm: Use PYPI-URI.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (python2-warpedlmm)[source]: Use PYPI-URI.
2019-01-25gnu: attic: Use PYPI-URI.Ricardo Wurmus
* gnu/packages/backup.scm (attic)[source]: Use PYPI-URI.
2019-01-25gnu: graphios: Use PYPI-URI.Ricardo Wurmus
* gnu/packages/admin.scm (graphios)[source]: Use PYPI-URI.
2019-01-25gnu: python-sqlalchemy: Use PYPI-URI.Ricardo Wurmus
* gnu/packages/databases.scm (python-sqlalchemy)[source]: Use PYPI-URI.
2019-01-25gnu: python-pyaudio: Use PYPI-URI.Ricardo Wurmus
* gnu/packages/audio.scm (python-pyaudio)[source]: Use PYPI-URI.
2019-01-25gnu: femtolisp: Use INVOKE.Ricardo Wurmus
* gnu/packages/scheme.scm (femtolisp)[arguments]: Remove "bootstrap" phase; use INVOKE and return #T unconditionally.
2019-01-25gnu: linkchecker: Fix most test failures.Christopher Baines
Add a patch to skip more tests that require the network. Along with some other changes, this gets all but of one of the tests passing. The remaining test is broken due to a problem with the Python package in Guix, which is fixed by [1] which is currently on the core-updates branch. This patch doesn't work on core-updates due to python2-miniboa not being present. 1: d453b0e11d3f001a8160a7d126fdbf40e45d5042 * gnu/packages/python.scm (linkchecker)[source]: Add patch. [native-inputs]: Add more inputs required for the tests. [arguments]: Enable the tests, move the 'check phase after 'install. Test using the installed software, and use py.test.
2019-01-25gnu: dealii-openmpi: Setup MPI for tests.Eric Bavier
* gnu/packages/maths.scm (dealii-openmpi)[arguments]: Add 'mpi-setup' phase.
2019-01-25superlu-dist: Upgrade to 6.1.0.Eric Bavier
* gnu/packages/patches/superlu-dist-awpm-grid.patch: New file. * gnu/packages/maths.scm (superlu-dist)[source]: Upgrade to 6.0.0. Remove extraneous 'use-modules' in snippet. [build-system]: Change to cmake-build-system. [propagated-inputs]: Replace pt-scotch with pt-scotch32 to match integer sizes. Add "parmetis" input, from pt-scotch32. Move lapack to ... [inputs]: ...here. Add openblas and combinatorial-blas. [arguments]: Replace 'configure' phase with #:configure-flags. Add 'set-c++-standard' and 'omp-setup' phases. Remove 'create-install-directories, 'check', and 'install' phases, which are now handled by cmake. * gnu/local.mk (dist_patch_DATA): Add patch.
2019-01-25scotch: Upgrade to 6.0.6.Eric Bavier
* gnu/packages/maths.scm (scotch): Upgrade to 6.0.6. [source]: Remove patches that have been fixed upstream. [arguments]: Add 'install-metis' phase. [outputs]: New field. (pt-scotch, pt-scotch32)[arguments]: Add 'mpi-setup' phase. Use 'invoke'. * gnu/packages/patches/scotch-graph-diam-64.patch, gnu/packages/patches/scotch-graph-induce-type-64.patch, gnu/packages/patches/scotch-test-threading.patch: Delete files. * gnu/packages/patches/scotch-integer-declarations.patch: New file. * gnu/local.mk (dist_patch_DATA): Adjust as necessary.
2019-01-25gnu: Add Combinatorial BLAS.Eric Bavier
* gnu/packages/maths.scm (combinatorial-blas): New variable. * gnu/packages/patches/combinatorial-blas-awpm.patch, gnu/packages/patches/combinatorial-blas-io-fix.patch: New files * gnu/local.mk(dist_patch_DATA): Add them.
2019-01-25linux-modules: module-soft-dependencies: Remove colon from section names.Danny Milosavljevic
Follow-up to 1a5f46621b44aa1458ad7acd4eca5fe1d4574f92. * gnu/build/linux-modules.scm (module-soft-dependencies): Remove colon from section names.
2019-01-25linux-modules: Add module-soft-dependencies.Danny Milosavljevic
* gnu/build/linux-modules.scm (not-softdep-whitespace): New variable. (module-soft-dependencies): New procedure.
2019-01-25gnu: Add stepmania.Nicolas Goaziou
* gnu/packages/games.scm (stepmania): * gnu/packages/video.scm (ffmpeg-for-stepmania): New variables.
2019-01-25gnu: kcoreaddons: Fix broken test.Ricardo Wurmus
* gnu/packages/kde-frameworks.scm (kcoreaddons)[arguments]: Add build phase "fix-broken-test".
2019-01-25gnu: infiniband-diags: Remove custom bootstrap phase.Ricardo Wurmus
* gnu/packages/fabric-management.scm (infiniband-diags)[arguments]: Remove "autotools" phase.
2019-01-25gnu: gpgme: Update to 1.12.0.Ricardo Wurmus
* gnu/packages/gnupg.scm (gpgme): Update to 1.12.0.
2019-01-25gnu: gpgme: Add patch to fix qgpgme tests.Ricardo Wurmus
* gnu/packages/gnupg.scm (gpgme)[source]: Add upstream patch.
2019-01-25gnu: pcb-rnd: Use INVOKE.Ricardo Wurmus
* gnu/packages/engineering.scm (pcb-rnd)[arguments]: Use INVOKE.
2019-01-25gnu: proplib: Use INVOKE.Ricardo Wurmus
* gnu/packages/embedded.scm (proplib)[arguments]: Use INVOKE.
2019-01-25gnu: jimtcl: Use INVOKE.Ricardo Wurmus
* gnu/packages/embedded.scm (jimtcl)[arguments]: Use INVOKE.
2019-01-25gnu: greenisland: Use INVOKE.Ricardo Wurmus
* gnu/packages/display-managers.scm (greenisland)[arguments]: Use INVOKE in check phase.
2019-01-25gnu: assword: Use INVOKE.Ricardo Wurmus
* gnu/packages/password-utils.scm (assword)[arguments]: Use INVOKE.
2019-01-25gnu: python-oslosphinx: Use INVOKE.Ricardo Wurmus
* gnu/packages/openstack.scm (python-oslosphinx)[arguments]: Use INVOKE.
2019-01-25gnu: python-reno: Use INVOKE.Ricardo Wurmus
* gnu/packages/openstack.scm (python-reno)[arguments]: Use INVOKE. [native-inputs]: Replace "git" with "git-minimal".
2019-01-25gnu: Add ghc-libmpd.Gabriel Hondet
* gnu/packages/haskell.scm (ghc-libmpd): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-01-25weather: Add '--coverage'.Ludovic Courtès
* guix/scripts/weather.scm (show-help, %options): Add '--coverage'. (package-partition-boundary, package->output-mapping) (substitute-oracle, report-package-coverage-per-system) (report-package-coverage): New procedures. (guix-weather): Honor '--coverage'. * doc/guix.texi (Invoking guix weather): Document it.
2019-01-25refresh: Better account for private and generated packages.Ludovic Courtès
Until now, private and generated packages (e.g., those created by 'texlive-union') we missing from the list passed to 'node-back-edges', which would lead to inaccurate dependent counts. Previously we'd get: $ guix refresh -l texlive-fonts-cm Building the following 80 packages would ensure 116 dependent packages are rebuilt: … Now we have: $ Building the following 240 packages would ensure 597 dependent packages are rebuilt: … * guix/scripts/refresh.scm (list-dependents): Call 'package-closure'.
2019-01-25refresh: Fix format string that would lead '-l' to print incorrect numbers.Ludovic Courtès
The skip "~*" argument was misplaced, leading the number of dependents to be skipped (instead of the number of covering packages.) Thus, we'd get: $ guix refresh -l ocaml4.02-ppx-deriving@4.1 Building the following package would ensure 1 dependent packages are rebuilt: bap@1.3.0 instead of: Building the following package would ensure 26 dependent packages are rebuilt: bap@1.3.0 * guix/scripts/refresh.scm (list-dependents): Move "~*" in the right place, to skip (length covering) rather than (length dependents).
2019-01-25weather: Ignore deprecated packages but not hidden packages.Ludovic Courtès
* guix/scripts/weather.scm (all-packages): Pass #:select? to 'fold-packages'.
2019-01-25packages: Add 'package-closure'.Ludovic Courtès
* guix/packages.scm (package-closure): New procedure. * tests/packages.scm ("package-closure"): New test.
2019-01-25gnu: python-pyopenssl: Update to 19.0.0.Ricardo Wurmus
* gnu/packages/python-crypto.scm (python-pyopenssl): Update to 19.0.0. [arguments]: Use INVOKE.
2019-01-25gnu: python2-pyqt-4: Use INVOKE.Ricardo Wurmus
* gnu/packages/qt.scm (python2-pyqt-4)[arguments]: Use INVOKE.
2019-01-25gnu: qwt: Use INVOKE.Ricardo Wurmus
* gnu/packages/qt.scm (qwt)[arguments]: Use INVOKE.
2019-01-25gnu: ldb: Use INVOKE.Ricardo Wurmus
* gnu/packages/samba.scm (ldb)[arguments]: Use INVOKE.
2019-01-25gnu: tevent: Use INVOKE.Ricardo Wurmus
* gnu/packages/samba.scm (tevent)[arguments]: Use INVOKE.
2019-01-25gnu: talloc/static: Use INVOKE.Ricardo Wurmus
* gnu/packages/samba.scm (talloc/static)[arguments]: Use INVOKE in the build phase.
2019-01-25gnu: tre: Use INVOKE.Ricardo Wurmus
* gnu/packages/regex.scm (tre)[arguments]: Use INVOKE.
2019-01-25gnu: python-rdflib: Use PYPI-URI.Ricardo Wurmus
* gnu/packages/rdf.scm (python-rdflib)[source]: Use PYPI-URI. [arguments]: Use INVOKE in commented build phase.
2019-01-25gnu: ocaml-utop: Use INVOKE.Ricardo Wurmus
* gnu/packages/ocaml.scm (ocaml-utop)[arguments]: Use INVOKE.
2019-01-25gnu: ocaml-zed: Use INVOKE.Ricardo Wurmus
* gnu/packages/ocaml.scm (ocaml-zed)[arguments]: Use INVOKE in build phases.
2019-01-25gnu: ocaml-zarith: Use INVOKE.Ricardo Wurmus
* gnu/packages/ocaml.scm (ocaml-zarith)[arguments]: Use INVOKE.
2019-01-25gnu: camlp4-4.02: Use INVOKE.Ricardo Wurmus
* gnu/packages/ocaml.scm (camlp4-4.02)[arguments]: Use INVOKE in build phases.
2019-01-25gnu: ocaml-4.01: Use INVOKE.Ricardo Wurmus
* gnu/packages/ocaml.scm (ocaml-4.01)[arguments]: Use INVOKE in build phases.
2019-01-25gnu: ocaml-4.02: Use INVOKE.Ricardo Wurmus
* gnu/packages/ocaml.scm (ocaml-4.02)[arguments]: Use INVOKE in build phases.
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