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* gnu: fenics: Honor #:tests? flag.Paul A. Patience2022-05-06
| | | | | | | * gnu/packages/simulation.scm (fenics)[arguments]: Adjust custom 'check' phase to honor the #:tests? flag. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: fenics-dolfin: Honor #:tests? flag.Paul A. Patience2022-05-06
| | | | | | | | | * gnu/packages/simulation.scm (fenics-dolfin)[source]: Remove trailing boolean. [arguments]: Adjust custom 'check' phase to honor the #:tests? flag. While here, remove trailing booleans. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add Guix-Modules.Ludovic Courtès2022-05-06
| | | | * gnu/packages/package-management.scm (guix-modules): New variable.
* gnu: monero-gui: Update to 0.17.3.2.Guillaume Le Vaillant2022-05-06
| | | | * gnu/packages/finance.scm (monero-gui): Update to 0.17.3.2.
* gnu: monero: Update to 0.17.3.2.Guillaume Le Vaillant2022-05-06
| | | | | | * gnu/packages/finance.scm (monero): Update to 0.17.3.2. [source]: Remove obsolete part of snippet. [arguments]: Remove trailing booleans.
* gnu: Add dezyne.Jan (janneke) Nieuwenhuizen2022-05-06
| | | | | * gnu/packages/dezyne.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
* gnu: mescc-tools: Update supported-systems.Jan (janneke) Nieuwenhuizen2022-05-06
| | | | | * gnu/packages/mes.scm (mescc-tools)[supported-systems]: Add riscv32-linux, riscv64-linux, remove powerpc64le-linux.
* gnu: links: Use gexps.Efraim Flashner2022-05-06
| | | | * gnu/packages/web-browsers.scm (links)[arguments]: Rewrite using gexps.
* gnu: links: Remove input labels.Efraim Flashner2022-05-06
| | | | * gnu/packages/web-browsers.scm (links)[inputs]: Remove input labels.
* gnu: links: Use configure-flags.Efraim Flashner2022-05-06
| | | | | * gnu/packages/web-browsers.scm (links)[arguments]: Add configure-flags field. Adjust custom 'configure phase to use configure-flags.
* gnu: links: Update to 2.26.Efraim Flashner2022-05-06
| | | | * gnu/packages/web-browsers.scm (links): Update to 2.26.
* gnu: ncdu-2: Update to 2.1.2.Efraim Flashner2022-05-06
| | | | * gnu/packages/ncdu.scm (ncdu-2): Update to 2.1.2.
* gnu: Add python-ipydatawidgets.Ricardo Wurmus2022-05-06
| | | | * gnu/packages/jupyter.scm (python-ipydatawidgets): New variable.
* gnu: Add python-xyzservices.Ricardo Wurmus2022-05-06
| | | | * gnu/packages/python-xyz.scm (python-xyzservices): New variable.
* gnu: Add python-mercantile.Ricardo Wurmus2022-05-06
| | | | * gnu/packages/python-xyz.scm (python-mercantile): New variable.
* gnu: Add python-ipympl.Ricardo Wurmus2022-05-06
| | | | * gnu/packages/jupyter.scm (python-ipympl): New variable.
* gnu: Add python-traittypes.Ricardo Wurmus2022-05-06
| | | | * gnu/packages/python-science.scm (python-traittypes): New variable.
* gnu: cava: Fix build failureDaniel Meißner2022-05-06
| | | | | | | * gnu/packages/audio.scm (cava)[source]: Remove bundled iniparser. (cava)[inputs]: Add iniparser. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: cava: Use G-expressions.Daniel Meißner2022-05-06
| | | | | | * gnu/packages/audio.scm (cava)[arguments]: Use G-expressions. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: nftables: Update to 1.0.2.kiasoc52022-05-06
| | | | | | | | | * gnu/packages/patches/nftables-fix-makefile.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/linux.scm (nftables): Update to 1.0.2. [source]: Add patch. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: Add python-arpeggio.Vincent Prat2022-05-06
| | | | | | * gnu/packages/python-xyz.scm (python-arpeggio): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: ytfzf: Update to 2.3.Michael Rohleder2022-05-06
| | | | | | | | | | | | * gnu/packages/patches/ytfzf-programs.patch, * gnu/packages/patches/ytfzf-updates.patch: Delete patches. * gnu/local.mk (dist_patch_DATA): Unregister them. * gnu/packages/image-viewers.scm (ytfzf): Update to 2.3. [source]: Delete patches. [arguments]: Remove phase 'patch-script. Add phase 'install-addons, 'wrap-program. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: slurm: Add 21.08.8.Ludovic Courtès2022-05-06
| | | | | * gnu/packages/parallel.scm (slurm): Update to 21.08.8. (slurm-20.11): New variable.
* gnu: slurm: Update to 20.11.9 [fixes CVE-2022-{29500,29501,29502}].Ludovic Courtès2022-05-06
| | | | * gnu/packages/parallel.scm (slurm): Update to 20.11.9.
* gnu: python-ipython: Add missing input.Ricardo Wurmus2022-05-06
| | | | | * gnu/packages/python-xyz.scm (python-ipython)[propagated-inputs]: Add python-decorator.
* gnu: python-traitlets: Update to 5.1.1.Ricardo Wurmus2022-05-06
| | | | | | * gnu/packages/python-xyz.scm (python-traitlets): Update to 5.1.1. [propagated-inputs]: Remove python-ipython-genutils, python-decorator, and python-six.
* gnu: Add python-kneed.Ricardo Wurmus2022-05-06
| | | | * gnu/packages/python-xyz.scm (python-kneed): New variable.
* gnu: Add python-databases.Ricardo Wurmus2022-05-06
| | | | * gnu/packages/databases.scm (python-databases): New variable.
* gnu: python-anyio: Update to 3.5.0.Ricardo Wurmus2022-05-06
| | | | | | | | * gnu/packages/python-xyz.scm (python-anyio): Update to 3.5.0. [arguments]: Remove phase 'fix-compatibility; disable one more test. [propagated-inputs]: Add python-contextvars and python-dataclasses. [native-inputs]: Add python-contextlib2 and python-trio; remove python-iniconfig.
* gnu: python-multipart: Fix test failure due to PyYAML 6.Ricardo Wurmus2022-05-06
| | | | | * gnu/packages/python-xyz.scm (python-multipart)[arguments]: Patch instance of yaml.load.
* gnu: Add byacc.Foo Chuan Wei2022-05-05
| | | | | | * gnu/packages/c.scm (byacc): New variable. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* transformations: Preserve transformation order in package property.Ludovic Courtès2022-05-05
| | | | | | | | | | Fixes <https://issues.guix.gnu.org/54942>. Reported by SeerLite <seerlite@nixnet.email>. * guix/transformations.scm (options->transformation) [package-with-transformation-properties]: Add call to 'reverse'. * tests/transformations.scm ("options->transformation, property order"): New test.
* gnu: b4: Update to 0.8.0.Ludovic Courtès2022-05-05
| | | | * gnu/packages/version-control.scm (b4): Update to 0.8.0.
* gnu: Add n2p2.Pierre-Antoine Bouttier2022-05-05
| | | | | | * gnu/packages/maths.scm (n2p2): New variable. Co-authored-by: Ludovic Courtès <ludo@gnu.org>
* gnu: icedove: Update to 91.9.0 [fixes CVE-2022-1520].Jonathan Brielmaier2022-05-05
| | | | * gnu/packages/gnuzilla.scm (icedove): Update to 91.9.0.
* gnu: python-pari-jupyter: Update to 1.4.1.Andreas Enge2022-05-05
| | | | | * gnu/packages/python-xyz.scm (python-pari-jupyter): Update to 1.4.1. [home-page]: Update after maintainer change.
* gnu: cm: Update to 0.4.0.Andreas Enge2022-05-05
| | | | * gnu/packages/algebra.scm (cm): Update to 0.4.0.
* gnu: ungoogled-chromium: Update to 101.0.4951.54-1.Marius Bakke2022-05-03
| | | | | * gnu/packages/chromium.scm (%chromium-version): Set to 101.0.4951.54. (%ungoogled-origin, ungoogled-chromium): Update hashes.
* gnu: icecat: Update to 91.9.0-guix0-preview1 [security fixes].Mark H Weaver2022-05-03
| | | | | | | | Includes fixes for CVE-2022-29909, CVE-2022-29911, CVE-2022-29912, CVE-2022-29914, CVE-2022-29916, and CVE-2022-29917. * gnu/packages/gnuzilla.scm (%icecat-version, %icecat-build-id): Update. (icecat-source): Update gnuzilla commit, base version, and hashes.
* gnu: dealii: Update to 9.3.3.Paul A. Patience2022-05-03
| | | | | | | | | | * gnu/packages/maths.scm (dealii): Update to 9.3.3. * gnu/packages/patches/dealii-fix-compiliation-with-boost-1.78.patch: Delete file. * gnu/packages/patches/dealii-fix-sundials.patch: Delete file. * gnu/local.mk (dist_patch_DATA): Adjust accordingly. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: dealii: Add SUNDIALS dependency.Paul A. Patience2022-05-03
| | | | | | | | * gnu/packages/maths.scm (dealii)[propagated-inputs]: Add sundials-5. Reformat list to clarify comment. (dealii-openmpi)[propagated-inputs]: Add sundials-openmpi-5. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: dealii-openmpi: Remove input labels.Paul A. Patience2022-05-03
| | | | | | | * gnu/packages/maths.scm (dealii-openmpi)[inputs]: Remove labels. [propagated-inputs]: Same. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: dealii: Remove trailing booleans.Paul A. Patience2022-05-03
| | | | | | | | | * gnu/packages/maths.scm (dealii)[snippet]: Remove trailing boolean (and therefore the 'begin'). [native-inputs, inputs]: Reindent. [arguments]<#:phases>: Remove trailing boolean. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: sundials: Add 5.8.0.Paul A. Patience2022-05-03
| | | | | | | * gnu/packages/maths.scm (sundials-5, sundials-openmpi-5): New variables. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: sundials: Update to 6.2.0.Paul A. Patience2022-05-03
| | | | | | * gnu/packages/maths.scm (sundials): Update to 6.2.0. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: sundials-openmpi: Add HYPRE dependency.Paul A. Patience2022-05-03
| | | | | | | | | * gnu/packages/maths.scm (sundials-openmpi)[propagated-inputs]: Add hypre-openmpi. [arguments]<#:configure-flags>: Add -DENABLE_HYPRE, -DHYPRE_INCLUDE_DIR and -DHYPRE_LIBRARY_DIR. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: sundials: Fix various issues.Paul A. Patience2022-05-03
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This commit fixes various issues. First, some of SUNDIALS's CMake variables were renamed at some point between 5.2.0 and 5.7.0, in particular KLU_ENABLE, which was changed to ENABLE_KLU. Since sundials-julia is essentially SUNDIALS 5.2.0, its configure flags need to be different from those of the sundials package. Second, commit 61bcd648ca215e3d8e75b3a3f49bfb94d66f7c79, which updated SUNDIALS to 6.1.1, accidentally completely disabled PETSc support for sundials-openmpi (PETSc is supported only with MPI) by removing the relevant configure flags. Third, SUNDIALS's default index size is 64 bits, but PETSc's is 32 bits, and they need to be the same; this issue is discussed in the next three paragraphs. The default index size in SUNDIALS 3.1.1 (which was the sundials package's version previous to the aforementioned commit) was also 64 bits (though it was configured through the SUNDIALS_INDEX_TYPE CMake variable, which could take the values INT64_T or INT32_T), but SUNDIALS's configure script didn't warn of any incompatibility with PETSc's 32-bit indices. I don't know if this was an accidental omission from the configure script or if SUNDIALS's index size didn't have to correspond to PETSc's at the time. Keeping 64-bit indices in SUNDIALS would require adding a package for PETSc with 64-bit indices (using the --with-64-bit-indices configure flag), possibly named petsc64-openmpi (to follow the style of the SCOTCH packages, i.e., scotch, scotch32, etc., though there the unadorned package name represents the 64-bit version, unlike the unadorned petsc), which would in turn require a package for METIS with 64-bit indices (using IDXTYPEWIDTH=64). However, SUNDIALS is an optional dependency of deal.II, both of which have PETSc as an optional dependency, and deal.II's index size (which defaults to 32 bits) must match PETSc's. In other words, the current deal.II package can build with SUNDIALS only if SUNDIALS has 32-bit indices. Furthermore, users needing 64-bit indices in SUNDIALS probably also need them in PETSc and other libraries. If and when 64-bit indices are deemed necessary, we can add all the package variations at once (for SUNDIALS, PETSc, METIS, deal.II and any others). * gnu/packages/maths.scm (sundials)[source]: Reuse version in URL. [native-inputs]: Capitalize and punctuate comment. [inputs]: Remove petsc, now unnecessary gfortran, and obsolete comment. Move TODO item to sundials-openmpi. [arguments]<#:configure-flags>: Add -DSUNDIALS_INDEX_SIZE=32 to match PETSc's 32-bit indices. Remove obsolete -DEXAMPLES_ENABLE_F77, -DEXAMPLES_ENABLE_F90 and -DFCMIX_ENABLE. Mention new but currently unusable -DBUILD_FORTRAN_MODULE_INTERFACE and -DEXAMPLES_ENABLE_F2003. Rename KLU_ENABLE to ENABLE_KLU. (sundials-openmpi): Use package/inherit. [inputs]: Move openmpi and petsc-openmpi from here... [propagated-inputs]: ...to here. Clarify comment. [arguments]<#:configure-flags>: Add -DENABLE_PETSC and -DPETSC_DIR, the equivalents of which were accidentally removed in commit 61bcd648ca215e3d8e75b3a3f49bfb94d66f7c79. <#:phases>: Replace a tab with spaces. [synopsis]: Replace OpenMPI with MPI to conform to other package synopses. (sundials-julia)[inputs]: Add gfortran. [arguments]<#:configure-flags>: Set only, and manually, -DCMAKE_C_FLAGS, -DSUNDIALS_INDEX_SIZE, -DKLU_ENABLE, -DKLU_INCLUDE_DIR, -DKLU_LIBRARY_DIR and -DLAPACK_ENABLE instead of inheriting from the sundials package, because some of SUNDIALS's CMake variables have changed name. [synopsis]: Capitalize “LAPACK”. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* gnu: petsc-openmpi: Fix header inclusions.Paul A. Patience2022-05-03
| | | | | | | * gnu/packages/maths.scm (petsc-openmpi)[arguments]: Add 'patch-header-inclusions' phase. Signed-off-by: Ludovic Courtès <ludo@gnu.org>
* services: pipefs: Correctly handle lack of extensions.Ludovic Courtès2022-05-03
| | | | | | | | | | | | | | Previously, in the absence of extensions of 'pipefs-service-type', we'd get a wrong-type-arg exception while folding services: In gnu/services/nfs.scm: 134:37 1 (_ #<<pipefs-configuration> mount-point: "/var/lib/nfs…> …) In ice-9/boot-9.scm: 1685:16 0 (raise-exception _ #:continuable? _) In procedure car: Wrong type argument in position 1 (expecting pair): () * gnu/services/nfs.scm (pipefs-service-type)[extend]: Gracefully handle the case where VALUES is the empty list, as done in 'gss-service-type'.
* gnu: Mutt: Update to 2.2.4.Leo Famulari2022-05-02
| | | | * gnu/packages/mail.scm (mutt): Update to 2.2.4.
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