guix_mirror_bot pushed a change to branch hpc-team
in repository guix.
discard befc332c2a gnu: rocm-cmake: Fix dependency on julia.
discard 918431ee33 gnu: Add openmpi-rocm, an Open MPI variant with ROCm
support.
discard ecf23a281d gnu: openmpi-4: Don't mix quasiquotes with G-exps.
discard 5340c55a77 gnu: hwloc-2: Enable ROCm support.
discard 35309dab65 gnu: hwloc-2: Fix OpenCL linking error for dependents.
discard 236ab124d9 gnu: hwloc: Switch to G-expressions.
discard 35d772e125 gnu: ucx: Activate ROCm support.
discard d5ade8cadf gnu: libfabric: Fix indentation.
discard b1a4d9b024 gnu: libfabric: Activate ROCm support.
discard 7b836daa2b gnu: Add rocm-validationsuite.
discard 4db22deb8a gnu: hwloc-2: Add support for opencl, levelzero and libxml2.
discard 6ae3eaab24 gnu: hwloc-2: Update to 2.13.0.
discard 2bb5c4e2fd gnu: openblas: Use cmake build system.
discard a1bd1a5e73 gnu: vulkan-validationlayers: Update to 1.4.335.0.
discard b3d0baab25 gnu: Add spirv-tools-static.
discard 7f349a22d3 gnu: vulkan-tools: Update to 1.4.335.
discard e815cdec12 gnu: spirv-headers: Update to 1.4.335.0.
discard 0970478d61 gnu: spirv-tools: Update to 1.4.335.0.
discard 86c87d199a gnu: spirv-cross: Update to 1.4.335.0.
discard adf47cd0e2 gnu: glslang: Update to 1.4.335.0.
discard d2abd64a1a gnu: vulkan-headers/no-loader: Update to 1.4.335.0.
discard 7d3248f82d gnu: vulkan-loader: Update to 1.4.335.0.
discard 4690e4396c gnu: vulkan-volk: Update to 1.4.335.0.
discard b05c4d0fe4 gnu: vulkan-utility-libraries: Update to 1.4.335.0.
discard 378f728a5b gnu: shaderc: Update to 2025.5.
discard 640f12b938 maths: openblas: Update to 0.3.31.
discard 9d879fd9e3 maths: openblas: Enable OpenMP support.
add 349fac31e8 gnu: Add kup.
add 0c5244fc9e gnu: Add kde-inotify-survey.
add 7d6e9eebfe gnu: Add kalm.
add bad3b885da gnu: r-dunn-test: Update to 1.3.7.
add 174b346917 gnu: r-ggpicrust2: Update to 2.5.10.
add 14870186c2 gnu: r-model4you: Update to 0.9-9.
add 1397ce89e3 gnu: r-dbplyr: Update to 2.5.2.
add 09a1efc2e8 gnu: r-plotrix: Update to 3.8-14.
add 31b1ce5e00 gnu: r-marginaleffects: Update to 0.32.0.
add 883771c42a gnu: r-mirai: Update to 2.6.0.
add d6e601ca9e gnu: r-httr: Update to 1.4.8.
add c7e2a8959e gnu: r-rcppspdlog: Update to 0.0.27.
add 77879980e3 gnu: r-sp: Update to 2.2-1.
add 13b12803a3 gnu: r-lpsolveapi: Update to 5.5.2.0-17.15.
add 28b586691c gnu: r-psychotools: Update to 0.7-6.
add 1aa4b35d2f gnu: r-trust: Update to 0.1-9.
add 7bb02d7e2c gnu: r-np: Update to 0.60-20.
add 0d035e267d gnu: r-simdesign: Update to 2.23.
add 04b7a2545d gnu: r-later: Update to 1.4.6.
add f85836df40 gnu: r-reticulate: Update to 1.45.0.
add 80af9b6710 gnu: r-flextable: Update to 0.9.11.
add e6d32b8b5d gnu: r-tarchetypes: Update to 0.14.0.
add 7f57d0c538 gnu: r-targets: Update to 1.12.0.
add 741b4124db gnu: r-spdep: Update to 1.4-2.
add 8f415bbb14 gnu: r-haplo-stats: Update to 1.9.8.2.
add 4783f372dc gnu: r-ggvis: Update to 0.4.10.
add 7e7703982f gnu: r-xml: Update to 3.99-0.22.
add 48b623b4d7 gnu: r-xgboost: Update to 3.2.0.1.
add 58616381a8 gnu: r-fillpattern: Update to 1.0.3.
add f0ce7a92c1 gnu: r-semtools: Update to 0.5-8.
add f412461880 gnu: r-semplot: Update to 1.1.8.
add ef6bfd17c7 gnu: r-nanoarrow: Update to 0.8.0.
add c93f289b31 gnu: r-igraph: Update to 2.2.2.
add 05ed8067fc gnu: r-vdiffr: Update to 1.0.9.
add 4ef19afdc4 gnu: r-stars: Update to 0.7-1.
add 92bcc5b03d gnu: r-randomforestsrc: Update to 3.5.1.
add bc80b0dd9e gnu: r-gstat: Update to 2.1-5.
add 1bf583dd09 gnu: r-forecast: Update to 9.0.1.
add 8ee03aaf64 gnu: r-nebulosa: Update to 1.20.1.
add eabee0d297 gnu: r-msnid: Update to 1.44.2.
add 98f0003b1b gnu: r-rpostgres: Update to 1.4.10.
add 593256d4c0 gnu: r-stable: Update to 1.1.7.
add 175e5855a5 gnu: r-multcompview: Update to 0.1-11.
add 3b38c99613 gnu: r-tweedie: Update to 3.0.14.
add 0b7719e9f1 gnu: r-unigd: Update to 0.2.0.
add 399969f138 gnu: r-ez: Update to 4.5-0.
add 4240fb7d46 gnu: r-rcolorbrewer: Move to (gnu packages cran).
add ba96de82f8 gnu: r-randomforest: Move to (gnu packages cran).
add adac8c6934 gnu: r-ranger: Move to (gnu packages cran).
add 82177c7500 gnu: r-rann: Move to (gnu packages cran).
add 8b8d0a7550 gnu: r-r-cache: Move to (gnu packages cran).
add 3d8d52d23f gnu: r-r-oo: Move to (gnu packages cran).
add daab4a2229 gnu: r-r-methodss3: Move to (gnu packages cran).
add 40a3bbbf0d gnu: r-r-rsp: Move to (gnu packages cran).
add 35798dfef3 gnu: r-r-utils: Move to (gnu packages cran).
add 952d2905c1 gnu: r-rcpparmadillo: Move to (gnu packages cran).
add 7be144c8f2 gnu: r-rcppeigen: Move to (gnu packages cran).
add 65d6828c51 gnu: r-rcppprogress: Move to (gnu packages cran).
add 17848f9f50 gnu: r-rcurl: Move to (gnu packages cran).
add 95e6194508 gnu: r-readr: Move to (gnu packages cran).
add 122f7df92c gnu: r-reghelper: Move to (gnu packages cran).
add 51bce6f7c7 gnu: r-registry: Move to (gnu packages cran).
add 98ef04b635 gnu: r-rematch: Move to (gnu packages cran).
add 7f92fbe75c gnu: r-rlang: Move to (gnu packages cran).
add 1ca4675b5d gnu: r-rlrsim: Move to (gnu packages cran).
add 003bc33069 gnu: r-rmarkdown: Move to (gnu packages cran).
add 4134861df1 gnu: r-rngtools: Move to (gnu packages cran).
add 508104dc7a gnu: r-robust: Move to (gnu packages cran).
add 265cca0162 gnu: r-robustbase: Move to (gnu packages cran).
add 0118332069 gnu: r-rocr: Move to (gnu packages cran).
add 868c846d04 gnu: r-roxygen2: Move to (gnu packages cran).
add 0666e8f505 gnu: r-rprojroot: Move to (gnu packages cran).
add 7202bcddf2 gnu: r-rrcov: Move to (gnu packages cran).
add 30b2838df4 gnu: r-rsqlite: Move to (gnu packages cran).
add ef1fbeb61a gnu: r-rstudioapi: Move to (gnu packages cran).
add 559bc2611f gnu: r-rtsne: Move to (gnu packages cran).
add 45cffdc087 gnu: r-runit: Move to (gnu packages cran).
add deee09590e gnu: r-rversions: Move to (gnu packages cran).
add 728222ef7a gnu: r-vpc: Move to (gnu packages cran).
add 10eae73bc6 gnu: r-segmented: Move to (gnu packages cran).
add 461e3feaac gnu: r-sfsmisc: Move to (gnu packages cran).
add 873ab88f39 gnu: r-simr: Move to (gnu packages cran).
add f82a5e3a0c gnu: r-sn: Move to (gnu packages cran).
add de5988f5d4 gnu: r-snow: Move to (gnu packages cran).
add efea94fa45 gnu: r-sourcetools: Move to (gnu packages cran).
add 8861b359ed gnu: r-sparsem: Move to (gnu packages cran).
add 57d805506d gnu: r-statmod: Move to (gnu packages cran).
add 57e31e46c3 gnu: r-synchronicity: Move to (gnu packages cran).
add aab3612f8d gnu: r-tclust: Move to (gnu packages cran).
add 782f6f1fab gnu: r-testthat: Move to (gnu packages cran).
add b0ff234c69 gnu: r-tibble: Move to (gnu packages cran).
add 8662f4fbca gnu: r-tidyr: Move to (gnu packages cran).
add 2283d0f242 gnu: r-tidyselect: Move to (gnu packages cran).
add c9942b9c85 gnu: r-tmvnsim: Move to (gnu packages cran).
add 4ca3126412 gnu: r-trimcluster: Move to (gnu packages cran).
add c2a92688a9 gnu: r-tsne: Move to (gnu packages cran).
add ee0a9f27b9 import/cran: Fix import of packages in single quotes.
add 34df487128 gnu: r-cytoml: Update list of ignored native inputs.
add 647958d69a import/cran: Use sets instead of lset-union.
add d2c5f0fd59 import/cran: Uniquify inputs.
add 0a9c3f1338 gnu: r-animalcules: Update to 1.26.1.
add c87d544fab gnu: r-biomart: Update to 2.66.1.
add b89d732d11 build-system/r: Add build phase to skip tests.
add 2a9edf766c gnu: r-httr2: Replace custom phase with #:skipped-tests.
add 850f39a1a2 gnu: r-cutpointr: Replace custom phase with #:skipped-tests.
add ff26db7570 gnu: r-gfonts: Replace custom phase with #:skipped-tests.
add 820ebc0350 gnu: r-readr: Replace custom phase with #:skipped-tests.
add 4498ca3ad5 gnu: r-vcr: Replace custom phase with #:skipped-tests.
add 1550831eba gnu: r-tailor: Replace custom phase with #:skipped-tests.
add 63ede74078 gnu: r-ggdist: Replace custom phase with #:skipped-tests.
add 56e8a87a7b gnu: r-datawizard: Replace custom phase with
#:skipped-tests.
add 7399d58586 gnu: r-bslib: Replace custom phase with #:skipped-tests.
add 272395cd52 gnu: r-trycatchlog: Replace custom phase with
#:skipped-tests.
add c9acc88769 gnu: r-rstpm2: Enable all tests.
add 00200fdefc gnu: r-mi: Enable all tests.
add 0c7552f717 gnu: r-workflows: Replace custom phase with #:skipped-tests.
add 85289d3d7c gnu: r-lintr: Replace custom phase with #:skipped-tests.
add 82c6def8f5 gnu: r-flextable: Replace custom phase with #:skipped-tests.
add 5574c903f4 gnu: r-bindr: Replace custom phase with #:skipped-tests.
add aa23a17d10 gnu: r-data-tree: Replace custom phase with #:skipped-tests.
add a496f62ae0 gnu: r-bedr: Replace custom phase with #:skipped-tests.
add ec87bbbf69 gnu: r-proxyc: Replace custom phase with #:skipped-tests.
add 484f1efbdc gnu: r-arrow: Replace custom phase with #:skipped-tests.
add 5bb61ded37 gnu: r-seqminer: Add missing inputs.
add 785f3e5307 gnu: r-seqminer: Replace custom phase with #:skipped-tests.
add 74d0223f01 gnu: r-options: Replace custom phase with #:skipped-tests.
add b037d56288 gnu: r-glmmtmb: Replace custom phase with #:skipped-tests.
add 22b59fbb0e gnu: r-latex2exp: Replace custom phase with #:skipped-tests.
add 7c2abf053f gnu: r-phangorn: Replace custom phase with #:skipped-tests.
add 492ad617d2 gnu: r-rsconnect: Replace custom phase with #:skipped-tests.
add 308f1c1cb7 gnu: r-mosaic: Replace custom phase with #:skipped-tests.
add 764a5ee76b gnu: r-rvenn: Replace custom phase with #:skipped-tests.
add 9681cd9c7c gnu: r-lightgbm: Replace custom phase with #:skipped-tests.
add 90a69aefe0 gnu: r-caretensemble: Replace custom phase with
#:skipped-tests.
add 0741844d93 gnu: r-voltron: Replace custom phase with #:skipped-tests.
add 8422a6a819 gnu: r-ecosolver: Update to 0.6.1.
add 88866d490d gnu: r-bb: Update to 2026.1.0.
add ba6cc1c2fc gnu: r-flare: Update to 1.8.
add cc6460e9ef gnu: r-ggiraph: Update to 0.9.5.
add be7c94bcb3 gnu: r-effects: Update to 4.2-5.
add 96d16cd98f gnu: r-fuzzyjoin: Update to 0.1.8.
add 183a944fbb gnu: r-readr: Update to 2.2.0.
add 6bdfff7e9c gnu: r-gap: Update to 1.14.
add 48bba7023e gnu: r-relations: Update to 0.6-16.
add f5040f3fcc gnu: r-laplacesdemon: Update to 16.1.8.
add b54b08478a gnu: r-tseries: Update to 0.10-60.
add 634def0e6a gnu: r-dofuture: Update to 1.2.1.
add c7f537f956 gnu: r-ncmisc: Update to 1.3.1.
add d0332ac8a0 gnu: r-fmesher: Update to 0.7.0.
add 4f23cb8a5b gnu: r-tm: Update to 0.7-18.
add 1000d7c933 gnu: r-huge: Update to 1.4.
add af0768ec56 gnu: r-future-apply: Update to 1.20.2.
add dd8d702e8b gnu: r-rms: Update to 8.1-1.
add b347030c73 gnu: r-mlbench: Update to 2.1-7.
add 5f5b212ba4 gnu: r-gridtext: Update to 0.1.6.
add 75ffac3027 gnu: r-clue: Update to 0.3-67.
add 240b0f758c gnu: r-ada: Update to 2.0-5.1.
add da2292b1ae gnu: r-rselenium: Update to 1.7.10.
add 5af61f3b81 gnu: r-lobstr: Update to 1.2.0.
add ece79a9a15 gnu: r-mlr3misc: Update to 0.20.0.
add 6d4f233888 gnu: r-mlr3: Update to 1.4.0.
add 5078c8982e gnu: r-paws-common: Update to 0.8.9.
add 587b92ab43 gnu: r-fauxpas: Update to 0.6.0.
add a474a05a16 gnu: r-iotools: Update to 0.4-0.
add fe3b37f4ee gnu: python-pytorch-for-r-torch: Use python-build-system.
add 73552caf33 gnu: r-argparser: Update to 0.7.3.
add 83c182d01a gnu: r-smoof: Update to 1.7.0.
add af098c450d gnu: r-dbi: Update to 1.3.0.
add fc71085207 gnu: r-vcfr: Update to 1.16.0.
add 3c4a61e01a gnu: r-ggrepel: Update to 0.9.7.
add 10626ab706 gnu: r-ggiraph: Update to 0.9.6.
add 2e93de38df gnu: r-ggalluvial: Update to 0.12.6.
add 3cc00473d4 gnu: r-sn: Update to 2.1.3.
add a9d4a33ca7 gnu: r-snowflakeauth: Update to 0.2.2.
add 9a5904d107 gnu: r-caliberrfimpute: Update to 1.0-8.
add 254a1fa8a0 gnu: r-pls: Update to 2.9-0.
add 630dc64779 gnu: r-useful: Update to 1.2.7.
add 438298fe70 gnu: r-ips: Update to 0.0.13.
add 006931b7d1 gnu: r-scatterplot3d: Update to 0.3-45.
add 4a986edafb gnu: r-raceid: Update to 0.4.0.
add fccc16a8ca gnu: r-simdesign: Update to 2.24.
add 664cdfa867 gnu: r-later: Update to 1.4.7.
add 6410d6eedb gnu: r-ggpubr: Update to 0.6.3.
add 9c1409c6cf gnu: r-survey: Update to 4.5.
add e1d942c302 gnu: r-tweedie: Update to 3.0.16.
add 859e2a6702 gnu: r-testit: Update to 0.16.
add 3efb038254 gnu: r-sf: Update to 1.1-0.
add 48859d6578 gnu: r-arrow: Update to 23.0.1.1.
add ee1e0456f8 gnu: r-xtable: Update to 1.8-8.
add af22ab5465 gnu: r-graphlayouts: Update to 1.2.3.
add 8226504427 gnu: r-actcd: Update to 1.4-0.
add 3a82f24dbb gnu: r-univoutl: Update to 0.5.0.
add 2a222b9a06 gnu: r-consrank: Update to 3.0.
add ca6f3ce0ed gnu: r-survminer: Update to 0.5.2.
add f8f491eedc gnu: r-seqminer: Update to 9.9.
add ccd6830df7 gnu: r-mlr3viz: Update to 0.11.0.
add 6d21b264f8 gnu: r-eyelinker: Update to 0.2.2.
add 108eff6437 gnu: apache-arrow: Update to 23.0.1.
add 5022deef41 gnu: r-survcomp: Update to 1.60.1.
add 28c5a19bbf gnu: r-illuminahumanmethylationepicv2anno-20a1-hg38: Update
to 1.0.1.
add 2fcfbdf8fc gnu: r-illuminahumanmethylationepicv2manifest: Update to
1.0.1.
add f68c9af97e gnu: r-systempiperdata: Update to 2.14.5.
add a4d999679d gnu: r-gsva: Update to 2.4.5.
add 2c1330d185 gnu: r-mutationalpatterns: Update to 3.20.1.
add cb9cd82cda gnu: r-scdblfinder: Update to 1.24.10.
add 0bd81e3871 gnu: r-scran: Update to 1.38.1.
add 618c3ef6ce gnu: r-countrycode: Update to 1.7.0.
add b98e5688d0 gnu: r-openssl: Update to 2.3.5.
add bbb0d98023 gnu: r-rcppnumerical: Update to 0.7-0.
add 6a68f90cde gnu: r-rmumps: Update to 5.2.1-37.
add 03c49ae43b gnu: r-xts: Update to 0.14.2.
add 7324348ad4 gnu: r-magick: Update to 2.9.1.
add c8a52fdadf gnu: r-tweedie: Update to 3.0.17.
add 19173b61fa gnu: r-emojifont: Update to 0.6.0.
add c7fff0f04c gnu: r-tidypredict: Update to 1.1.0.
add 2d278cd633 gnu: r-mlr3mbo: Update to 1.0.0.
add ad3f600de7 gnu: r-mlr3misc: Update to 0.21.0.
add dec734b79c gnu: r-mlr3: Update to 1.5.0.
add ae42df5e95 gnu: r-bbotk: Update to 1.9.0.
add 5fa6a48f34 gnu: r-antiword: Update to 1.3.5.
add de3df4a1a0 gnu: r-aster: Disable vignettes.
add d2079b3643 gnu: r-mlr3cluster: Disable one test.
add eaab307c5c gnu: Add r-msdatahub.
add b63a857c57 gnu: Add r-scp.
add 39258e011e gnu: Add r-scpdata.
add 9d6313f064 gnu: Add r-numbers.
add bdb8bf0b91 gnu: Add r-conf-design.
add 385c3e0208 gnu: Add r-doe-base.
add 12598e0399 gnu: Add r-wrapr.
add ddadd8f3b5 gnu: Add r-vtreat.
add 884eab7f29 gnu: Add r-smotefamily.
add db2079e278 gnu: r-mlr3cluster: Update to 0.3.0.
add ce19272009 gnu: r-geosphere: Update to 1.6-5.
add ef55e9b373 gnu: r-blackbox: Update to 1.1.54.
add 3121530634 gnu: r-clarabel: Update to 0.11.2.
add b5ef92c126 gnu: r-osqp: Update to 1.0.0.
add 18d61976d7 gnu: r-lhs: Update to 1.2.1.
add ca6852fee8 gnu: r-mlrmbo: Update to 1.1.6.
add b5735cab88 gnu: r-mlr3pipelines: Update to 0.11.0.
add 55637c3886 gnu: r-gsva: Update to 2.4.6.
add 93cf0c54e3 gnu: r-phyloseq: Update to 1.54.1.
add b63649a69c gnu: r-cvxr: Disable one test.
add f3a42d40e0 gnu: r-rcppml/devel: Update to 0.5.6-3.2beac65.
add e994eb8b64 gnu: r-singlet: Update to 0.99.8-1.ef4a374.
new a741446be8 maths: openblas: Enable OpenMP support.
new e98033c14d maths: openblas: Update to 0.3.31.
new fdf1288555 gnu: shaderc: Update to 2025.5.
new bbaa0804cb gnu: vulkan-utility-libraries: Update to 1.4.335.0.
new 70c09b4e6d gnu: vulkan-volk: Update to 1.4.335.0.
new 85f4895e22 gnu: vulkan-loader: Update to 1.4.335.0.
new d5eb854138 gnu: vulkan-headers/no-loader: Update to 1.4.335.0.
new c7cdfa0573 gnu: glslang: Update to 1.4.335.0.
new f5410d5f50 gnu: spirv-cross: Update to 1.4.335.0.
new f656ec9dc2 gnu: spirv-tools: Update to 1.4.335.0.
new 0264bd62c2 gnu: spirv-headers: Update to 1.4.335.0.
new cd67d8810c gnu: vulkan-tools: Update to 1.4.335.
new 4770f49162 gnu: Add spirv-tools-static.
new c899172c26 gnu: vulkan-validationlayers: Update to 1.4.335.0.
new 27ac3b63da gnu: openblas: Use cmake build system.
new 5530176da5 gnu: hwloc-2: Update to 2.13.0.
new f07fb9176c gnu: hwloc-2: Add support for opencl, levelzero and libxml2.
new e6ec72836d gnu: Add rocm-validationsuite.
new 7adc499768 gnu: libfabric: Activate ROCm support.
new e8917228b9 gnu: libfabric: Fix indentation.
new b4aedb76ef gnu: ucx: Activate ROCm support.
new a33f2287f1 gnu: hwloc: Switch to G-expressions.
new 5fd47682ee gnu: hwloc-2: Fix OpenCL linking error for dependents.
new 5c603b85dc gnu: hwloc-2: Enable ROCm support.
new 7852f73a48 gnu: openmpi-4: Don't mix quasiquotes with G-exps.
new 397fa5a6ac gnu: Add openmpi-rocm, an Open MPI variant with ROCm
support.
new 0717bec58d gnu: rocm-cmake: Fix dependency on julia.
This update added new revisions after undoing existing revisions.
That is to say, some revisions that were in the old version of the
branch are not in the new version. This situation occurs
when a user --force pushes a change and generates a repository
containing something like this:
* -- * -- B -- O -- O -- O (befc332c2a)
\
N -- N -- N refs/heads/hpc-team (0717bec58d)
You should already have received notification emails for all of the O
revisions, and so the following emails describe only the N revisions
from the common base, B.
Any revisions marked "omit" are not gone; other references still
refer to them. Any revisions marked "discard" are gone forever.
The 27 revisions listed above as "new" are entirely new to this
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Summary of changes:
gnu/packages/bioconductor.scm | 178 ++-
gnu/packages/bioinformatics.scm | 24 +-
gnu/packages/cran.scm | 2686 +++++++++++++++++++++++++++++--------
gnu/packages/databases.scm | 4 +-
gnu/packages/kde-systemtools.scm | 83 ++
gnu/packages/kde-utils.scm | 38 +
gnu/packages/machine-learning.scm | 9 +-
gnu/packages/statistics.scm | 1608 ++--------------------
guix/build-system/r.scm | 6 +-
guix/build/r-build-system.scm | 34 +-
guix/import/cran.scm | 60 +-
tests/import/cran.scm | 7 +-
12 files changed, 2542 insertions(+), 2195 deletions(-)
