| Commit message (Collapse) | Author | Age |
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* gnu/packages/statistics.scm (r-digest): Update to 0.6.12.
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* gnu/packages/statistics.scm (r-survival): Update to 2.41-3.
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* gnu/packages/statistics.scm (r-mgcv): Update to 1.8-17.
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* gnu/packages/statistics.scm (r-matrix): Update to 1.2-8.
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* gnu/packages/statistics.scm (r-lattice): Update to 0.20-35.
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* gnu/packages/statistics.scm (r-rprojroot): Update to 1.2.
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* gnu/packages/statistics.scm (r-tidyr): Update to 0.6.1.
[propagated-inputs]: Add "r-tibble".
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* gnu/packages/statistics.scm (r-roxygen2): Update to 6.0.1.
[propagated-inputs]: Add "r-commonmark", "r-desc", "r-r6", and "r-xml2".
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* gnu/packages/statistics.scm (r-commonmark): New variable.
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* gnu/packages/statistics.scm (r-desc): New variable.
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* gnu/packages/statistics.scm (r-readr): Update to 1.1.0.
[propagated-inputs]: Remove "r-curl".
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* gnu/packages/statistics.scm (r-tibble): Update to 1.3.0.
[propagated-inputs]: Remove "r-assertthat".
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* gnu/packages/bioinformatics.scm, gnu/packages/emacs.scm,
gnu/packages/haskell.scm, gnu/packages/libffi.scm, gnu/packages/lisp.scm,
gnu/packages/ocaml.scm, gnu/packages/openstack.scm, gnu/packages/python.scm,
gnu/packages/ruby.scm, gnu/packages/shells.scm, gnu/packages/statistics.scm,
gnu/packages/xdisorg.scm: Use HTTPS URLs for all packages with a home-page on
GitHub.
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Most conflicts are from 6fd52309b8f52c9bb59fccffac53e029ce94b698.
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All HTTP gnu.org (and supported subdomain) HOME-PAGEs changed to HTTPS.
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* gnu/packages/statistics.scm (r-cairo): New variable.
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Fixes <https://bugs.gnu.org/25598>.
* gnu/packages/statistics.scm (r-minimal)[arguments]: Add remaining
reproducibility fixes to "build-reproducibly" phase.
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* gnu/packages/statistics.scm (r): Rename to...
(r-minimal): ...this new variable.
(r-with-recommended-packages): Rename to...
(r): ...this.
* guix/build-system/r.scm (default-r): Reference r-minimal.
* gnu/packages/emacs.scm (emacs-ess)[inputs],
gnu/packages/machine-learning.scm (shogun)[inputs],
gnu/packages/python.scm (python-rpy2)[inputs],
gnu/packages/bioinformatics.scm (ribotaper)[inputs],
(couger)[propagated-inputs],
(roary)[inputs],
(rsem)[inputs],
(rcas-web)[inputs]: Change "r" to "r-minimal".
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* gnu/packages/statistics.scm (r-with-recommended-packages): New variable.
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* gnu/packages/statistics.scm (r)[arguments]: Rename phase
"build-recommended-packages-reproducibly" to "build-reproducibly"; add
configure flag "--without-recommended-packages".
* guix/import/cran.scm (default-r-packages): Remove recommended packages.
* gnu/packages/python.scm (python-rpy2)[inputs]: Add r-survival.
* gnu/packages/bioinformatics.scm (r-ape)[propagated-inputs]: Add r-lattice
and r-nlme.
(r-vegan)[propagated-inputs]: Add r-mass.
(r-genefilter)[propagated-inputs]: Add r-survival.
(r-grohmm)[propagated-inputs]: Add r-mass.
(r-bioccheck)[propagated-inputs]: Add r-codetools.
(r-summarizedexperiment)[propagated-inputs]: Add r-matrix.
(r-topgo)[propagated-inputs]: Add r-lattice.
(r-sva)[propagated-inputs]: Add r-mgcv.
(r-raremetals2)[propagated-inputs]: Add r-mass.
(r-vsn)[propagated-inputs]: Add r-lattice.
(r-pcamethods)[propagated-inputs]: Add r-mass.
* gnu/packages/bioinformatics.scm (r-ggplot2)[propagated-inputs]: Add r-mass.
(r-locfit)[propagated-inputs]: Add r-lattice.
(r-coda)[propagated-inputs]: Add r-lattice.
(r-irlba)[propagated-inputs]: Add r-matrix.
(r-glmnet)[propagated-inputs]: Add r-matrix.
(r-e1071)[propagated-inputs]: Add r-class.
(r-spams)[propagated-inputs]: Add r-lattice and r-matrix.
(r-hmisc)[propagated-inputs]: Add r-cluster, r-foreign, r-lattice, r-nnet, and
r-rpart.
(r-zoo)[propagated-inputs]: Add r-lattice.
(r-mixtools)[propagated-inputs]: Add r-boot and r-mass.
(r-flexmix)[propagated-inputs]: Add r-lattice and r-nnet.
(r-prabclus)[propagated-inputs]: Add r-mass.
(r-fpc)[propagated-inputs]: Add r-class, r-cluster, and r-mass.
(r-rcppeigen)[propagated-inputs]: Add r-matrix.
(r-matrixmodels)[propagated-inputs]: Add r-matrix.
(r-lme4)[propagated-inputs]: Add r-mass and r-nlme.
(r-pbkrtest)[propagated-inputs]: Add r-mass and r-matrix.
(r-car)[propagated-inputs]: Add r-mass, r-mgcv, and r-nnet.
(r-tclust)[propagated-inputs]: Add r-cluster.
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* gnu/packages/statistics.scm (r-survival): Move up to set of recommended R
packages.
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* gnu/packages/statistics.scm (r-spatial): New variable.
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* gnu/packages/statistics.scm (r-rpart): Move up to the set of recommended
packages.
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* gnu/packages/machine-learning.scm (r-nnet): Move from here...
* gnu/packages/statistics.scm (r-nnet): ...to here because the other
recommended R packages are here.
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* gnu/packages/statistics.scm (r-mgcv): Move up to set of recommended R
packages.
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* gnu/packages/statistics.scm (r-nlme): New variable.
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* gnu/packages/statistics.scm (r-matrix): Move to set of recommended R
packages.
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* gnu/packages/statistics.scm (r-lattice): Move to the set of recommended R
packages.
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* gnu/packages/statistics.scm (r-kernsmooth): New variable.
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* gnu/packages/statistics.scm (r-foreign): New variable.
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* gnu/packages/statistics.scm (r-codetools): New variable.
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* gnu/packages/statistics.scm (r-cluster): New variable.
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* gnu/packages/statistics.scm (r-class): New variable.
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* gnu/packages/statistics.scm (r-mass): New variable.
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* gnu/packages/statistics.scm (r-boot): New variable.
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The package tarball was updated in place, resulting in a change in the hash
value. We decided to bump the version to 1.27.1-1 instead of keeping the
version at upstream's 1.27.1.
* gnu/packages/statistics.scm (r-hexbin): Update to 1.27.1-1.
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* gnu/packages/bioinformatics.scm (r-tsne): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-ranger): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-tclust): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-sn): New variable.
Co-authored-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-numderiv): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-mnormt): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-rcppprogress): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-caret): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-car): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-pbkrtest): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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* gnu/packages/statistics.scm (r-lme4): New variable.
Signed-off-by: Ben Woodcroft <donttrustben@gmail.com>
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