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* gnu: Add WarpedLMM.Ricardo Wurmus2015-07-02
| | | | * gnu/packages/bioinformatics.scm (python2-warpedlmm): New variable.
* gnu: r: Set default pager.Ricardo Wurmus2015-07-02
| | | | | * gnu/packages/statistics.scm (r)[arguments]: Add phase "set-default-pager" to avoid "false" as a default pager.
* environment: Define 'GUIX_ENVIRONMENT'.Ludovic Courtès2015-07-01
| | | | | | | * guix/scripts/environment.scm (create-environment): Define 'GUIX_ENVIRONMENT'. * doc/guix.texi (Invoking guix environment): Document it. * gnu/system/shadow.scm (default-skeletons): Adjust 'PS1' depending on whether 'GUIX_ENVIRONMENT' is defined.
* gnu: powertabeditor: Replace "gcc" with "libiberty".Ricardo Wurmus2015-07-01
| | | | | * gnu/packages/music.scm (powertabeditor)[inputs]: Replace "gcc" with "libiberty".
* gnu: Add Hydrogen.Ricardo Wurmus2015-07-01
| | | | * gnu/packages/music.scm (hydrogen): New variable.
* gnu: linux-libre: Update to 4.1.1.Mark H Weaver2015-07-01
| | | | * gnu/packages/linux.scm (linux-libre): Update to 4.1.1.
* gnu: git: Add inputs for send-email.Eric Bavier2015-06-30
| | | | | | | | | * gnu/packages/version-control.scm (package-transitive-propagated-labels*) (package-propagated-input-refs): New procedures. (git)[inputs]: Add perl-authen-sasl, perl-net-smtp-ssl, and perl-io-socket-ssl. [outputs]: Add send-email output. [arguments]: Add #:modules argument with srfi-1. In 'split phase, wrap git-send-email.
* gnu: Add perl-authen-sasl.Eric Bavier2015-06-30
| | | | * gnu/packages/web.scm (perl-authen-sasl): New variable.
* gnu: Add perl-gssapi.Eric Bavier2015-06-30
| | | | * gnu/packages/web.scm (perl-gssapi): New variable.
* gnu: Add perl-net-smtp-ssl.Eric Bavier2015-06-30
| | | | * gnu/packages/web.scm (perl-net-smtp-ssl): New variable.
* gnu: curl: Disable test that fails on Hydra.Mark H Weaver2015-06-30
| | | | * gnu/packages/curl.scm (arguments): Disable test 1510.
* gnu: curl: Update to 7.43.0.Mark H Weaver2015-06-30
| | | | * gnu/packages/curl.scm (curl): Update to 7.43.0.
* gnu: Add deal.II.Eric Bavier2015-06-29
| | | | | | * gnu/packages/maths.scm (dealii, dealii-openmpi): New variables. * gnu/packages/patches/dealii-p4est-interface.patch: New patch. * gnu-system.am (dist_patch_DATA): Add it.
* gnu: Add SLEPc.Eric Bavier2015-06-29
| | | | | * gnu/packages/maths.scm (slepc, slepc-complex, slepc-openmpi) (slepc-complex-openmpi): New variables.
* gnu: Add arpack-ng-openmpi.Eric Bavier2015-06-29
| | | | * gnu/packages/maths.scm (arpack-ng-openmpi): New variable.
* gnu: petsc: Upgrade to 3.6.0.Eric Bavier2015-06-29
| | | | | | * gnu/packages/maths.scm (petsc): Upgrade to 3.6.0. * gnu/packages/patches/petsc-fix-threadcomm.patch: Delete patch. * gnu-system.am (dist_patch_DATA): Remove it.
* gnu: Add MUMPS.Eric Bavier2015-06-29
| | | | | | | * gnu/packages/maths.scm (mumps, mumps-metis, mumps-openmpi) (mumps-metis-openmpi): New variables. * gnu/packages/patches/mumps-build-parallelism.patch: New patch. * gnu-system.am (dist_patch_DATA): Add it.
* gnu: Add METIS.Eric Bavier2015-06-29
| | | | * gnu/packages/maths.scm (metis): New variable.
* gnu: Add p4est.Eric Bavier2015-06-29
| | | | * gnu/packages/maths.scm (p4est, p4est-openmpi): New variables.
* gnu: Add ScaLAPACK.Eric Bavier2015-06-29
| | | | * gnu/packages/maths.scm (scalapack): New variable.
* gnu: scotch, pt-scotch: Build esmumps libraries.Eric Bavier2015-06-29
| | | | | | | * gnu/packages/maths.scm (scotch)[arguments]: Add 'build-esmumps phase. Install esmumps libraries and headers in 'install phase. (pt-scotch)[arguments]: Build ptesmumps in 'build phase. Add make parallelism.
* gnu: scotch, pt-scotch: Use modify-phases.Eric Bavier2015-06-29
| | | | * gnu/packages/maths.scm (scotch, pt-scotch)[arguments]: Use modify-phases.
* gnu: Update scotch to 6.0.4.Eric Bavier2015-06-29
| | | | | | | | | * gnu/packages/maths.scm (scotch): Update to 6.0.4. [arguments]: Add -fPIC to CFLAGS. * gnu/packages/patches/scotch-test-threading.patch: Adjust patch for a new set of test fixes. * gnu/packages/patches/pt-scotch-build-parallelism.patch: New patch. * gnu-system.am (dist_patch_DATA): Add it.
* gnu: openmpi: Upgrade to 1.8.5.Eric Bavier2015-06-29
| | | | | | * gnu/packages/mpi.scm (openmpi): Upgrade to 1.8.5. [native-inputs]: Add perl. [arguments]: Add configure flags for thread support.
* gnu: hwloc: Move numactl to inputs.Eric Bavier2015-06-29
| | | | | | * gnu/packages/mpi.scm (hwloc)[propagated-inputs]: Move numactl from here... [inputs]: ...to here. [arguments]: New 'refine-libnuma' phase.
* gnu: hwloc: Upgrade to 1.10.1.Eric Bavier2015-06-29
| | | | | | | | | * gnu/packages/patches/hwloc-gather-topology-lstopo.patch: New patch. * gnu/packages/mpi.scm (hwloc): Upgrade to 1.10.1. [source]: Use patch. [propagated-inputs]: Remove libpci. [inputs]: Add libpciaccess. * gnu-system.am (dist_patch_DATA): Add patch.
* gnu: python-mccabe: Fix license field.Eric Bavier2015-06-29
| | | | | * gnu/packages/python.scm (python-mccabe)[license]: 'expat' -> 'license:expat'.
* gnu: Add python-flake8.Cyril Roelandt2015-06-30
| | | | * gnu/packages/python.scm (python-flake8, python2-flake8): New variables.
* gnu: Add python-mccabe.Cyril Roelandt2015-06-30
| | | | * gnu/packages/python.scm (python-mccabe, python2-mccabe): New variables.
* gnu: Add python-pyflakes.Cyril Roelandt2015-06-30
| | | | * gnu/packages/python.scm (python-pyflakes, python2-pyflakes): New variables.
* gnu: Add python-pep8.Cyril Roelandt2015-06-30
| | | | * gnu/packages/python.scm (python-pep8, python2-pep8): New variables.
* gnu: withershins: Use new "libiberty" package.Ricardo Wurmus2015-06-29
| | | | | * gnu/packages/code.scm (withershins)[inputs]: Replace "gcc" with "libiberty". [arguments]: Simplify "find-libiberty" phase.
* gnu: Add libiberty.Ricardo Wurmus2015-06-29
| | | | * gnu/packages/gcc.scm (make-libiberty, libiberty): New variables.
* gnu: r: Update to 3.2.1.Ricardo Wurmus2015-06-29
| | | | | | * gnu/packages/statistics.scm (r): Update to 3.2.1. * gnu/packages/patches/r-fix-15899.patch: Remove file. * gnu-system.am (dist_patch_DATA): Remove it.
* gnu: Add Blast+.Ricardo Wurmus2015-06-29
| | | | * gnu/packages/bioinformatics.scm (blast+): New variable.
* gnu: global: Update to 6.5.Ludovic Courtès2015-06-29
| | | | * gnu/packages/code.scm (global): Update to 6.5.
* gnu: help2man: Update to 1.47.1.Ludovic Courtès2015-06-29
| | | | * gnu/packages/man.scm (help2man): Update to 1.47.1.
* gnu: parallel: Update to 20150622.Ludovic Courtès2015-06-29
| | | | * gnu/packages/parallel.scm (parallel): Update to 20150622.
* gnu: screen: Update to 4.3.1.Ludovic Courtès2015-06-29
| | | | * gnu/packages/screen.scm (screen): Update to 4.3.1.
* gnu: texinfo: Add version 6.0.Ludovic Courtès2015-06-29
| | | | * gnu/packages/texinfo.scm (texinfo-6): New variable.
* gnu: gcc-4.8: Update to 4.8.5.Ludovic Courtès2015-06-29
| | | | * gnu/packages/gcc.scm (gcc-4.8): Update to 4.8.5.
* gnu: Add plink.Ricardo Wurmus2015-06-29
| | | | | * gnu/packages/bioinformatics.scm (plink): New variable. * gnu/packages/patches/plink-1.07-unclobber-i.patch: New file.
* gnu: synergy: Upgrade to 1.7.3.Eric Bavier2015-06-28
| | | | | | | | | * gnu/packages/synergy.scm (synergy)[version]: Upgrade to 1.7.3 [source]: Use github for source download. Add snippet to remove bundled source and binaries. [inputs]: Add openssl. [arguments]: Copy example configuration files to out during 'install phase.
* gnu: Add sfarkxtc.Ricardo Wurmus2015-06-28
| | | | * gnu/packages/compression.scm (sfarkxtc): New variable.
* gnu: Add sfarklib.Ricardo Wurmus2015-06-28
| | | | * gnu/packages/compression.scm (sfarklib): New variable.
* gnu: Add Guitarix.Ricardo Wurmus2015-06-28
| | | | * gnu/packages/audio.scm (guitarix): New variable.
* gnu: ardour: Update to 4.1.Ricardo Wurmus2015-06-28
| | | | * gnu/packages/audio.scm (ardour): Update to 4.1.
* gnu: Add libtar.Ricardo Wurmus2015-06-28
| | | | * gnu/packages/compression.scm (libtar): New variable.
* gnu: Add pv.Claes Wallin2015-06-27
| | | | | | | * gnu/package/pv.scm (pv): New file. * gnu-system.am (GNU_SYSTEM_MODULES): Add it. Signed-off-by: Alex Kost <alezost@gmail.com>
* gnu: Refer to 'gcc' instead of 'gcc-4.9'.Ludovic Courtès2015-06-26
| | | | | | | | | | * gnu/packages/commencement.scm (gcc-boot0, cross-gcc-wrapper, libstdc++, gcc-final): Refer to GCC instead of GCC-4.9. * gnu/packages/cross-base.scm (%xgcc): New variable. (cross-gcc-arguments, cross-gcc): Refer to %XGCC instead of GCC-4.9. * gnu/packages/llvm.scm (clang-from-llvm): Refer to GCC instead of GCC-4.9. * gnu/packages/make-bootstrap.scm (package-with-relocatable-glibc, %gcc-static, %gcc-stripped): Likewise.
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