diff options
Diffstat (limited to 'gnu/packages/statistics.scm')
| -rw-r--r-- | gnu/packages/statistics.scm | 562 |
1 files changed, 436 insertions, 126 deletions
diff --git a/gnu/packages/statistics.scm b/gnu/packages/statistics.scm index 49bb24e594..d0bed4dd7f 100644 --- a/gnu/packages/statistics.scm +++ b/gnu/packages/statistics.scm @@ -31,6 +31,7 @@ #:use-module (guix build-system gnu) #:use-module (guix build-system r) #:use-module (guix build-system python) + #:use-module (guix build-system trivial) #:use-module (gnu packages) #:use-module (gnu packages compression) #:use-module (gnu packages curl) @@ -99,9 +100,12 @@ can be imported from spreadsheets, text files and database sources and it can be output in text, PostScript, PDF or HTML.") (license license:gpl3+))) -(define-public r +;; Update this package together with the set of recommended packages: r-boot, +;; r-class, r-cluster, r-codetools, r-foreign, r-kernsmooth, r-lattice, +;; r-mass, r-matrix, r-mgcv, r-nlme, r-nnet, r-rpart, r-spatial, r-survival. +(define-public r-minimal (package - (name "r") + (name "r-minimal") (version "3.3.3") (source (origin (method url-fetch) @@ -129,17 +133,46 @@ be output in text, PostScript, PDF or HTML.") (substitute* "src/scripts/R.sh.in" (("uname") uname-bin))) #t)) - (add-after 'unpack 'build-recommended-packages-reproducibly + (add-after 'unpack 'build-reproducibly (lambda _ - (substitute* "src/library/Recommended/Makefile.in" - (("INSTALL_OPTS =(.*)" line rest ) - (string-append "INSTALL_OPTS = --built-timestamp=1970-01-01" - rest))) - ;; Ensure that gzipped files are reproducible + ;; The documentation contains time stamps to demonstrate + ;; documentation generation in different phases. + (substitute* "src/library/tools/man/Rd2HTML.Rd" + (("\\\\%Y-\\\\%m-\\\\%d at \\\\%H:\\\\%M:\\\\%S") + "(removed for reproducibility)")) + + ;; Remove timestamp from tracing environment. This fixes + ;; reproducibility of "methods.rd{b,x}". + (substitute* "src/library/methods/R/trace.R" + (("dateCreated = Sys.time\\(\\)") + "dateCreated = as.POSIXct(\"1970-1-1 00:00:00\", tz = \"UTC\")")) + + ;; Ensure that gzipped files are reproducible. (substitute* '("src/library/grDevices/Makefile.in" "doc/manual/Makefile.in") (("R_GZIPCMD\\)" line) (string-append line " -n"))) + + ;; The "srcfile" procedure in "src/library/base/R/srcfile.R" + ;; queries the mtime of a given file and records it in an object. + ;; This is acceptable at runtime to detect stale source files, + ;; but it destroys reproducibility at build time. + ;; + ;; Instead of disabling this feature, which may have unexpected + ;; consequences, we reset the mtime of generated files before + ;; passing them to the "srcfile" procedure. + (substitute* "src/library/Makefile.in" + (("@\\(cd base && \\$\\(MAKE\\) mkdesc\\)" line) + (string-append line "\n find $(top_builddir)/library/tools | xargs touch -d '1970-01-01'; \n")) + (("@\\$\\(MAKE\\) Rdobjects" line) + (string-append "@find $(srcdir)/tools | xargs touch -d '1970-01-01'; \n " + line))) + (substitute* "src/library/tools/Makefile.in" + (("@\\$\\(INSTALL_DATA\\) all.R \\$\\(top_builddir\\)/library/\\$\\(pkg\\)/R/\\$\\(pkg\\)" line) + (string-append + line + "\n find $(srcdir)/$(pkg) $(top_builddir)/library/$(pkg) | xargs touch -d \"1970-01-01\"; \n"))) + ;; This library is installed using "install_package_description", ;; so we need to pass the "builtStamp" argument. (substitute* "src/library/tools/Makefile.in" @@ -163,7 +196,12 @@ be output in text, PostScript, PDF or HTML.") (add-after 'build 'install-info (lambda _ (zero? (system* "make" "install-info"))))) #:configure-flags - '("--with-cairo" + '(;; Do not build the recommended packages. The build system creates + ;; random temporary directories and embeds their names in some + ;; package files. We build these packages with the r-build-system + ;; instead. + "--without-recommended-packages" + "--with-cairo" "--with-blas=-lopenblas" "--with-libpng" "--with-jpeglib" @@ -221,6 +259,343 @@ publication-quality data plots. A large amount of 3rd-party packages are available, greatly increasing its breadth and scope.") (license license:gpl3+))) +(define-public r-boot + (package + (name "r-boot") + (version "1.3-18") + (source + (origin + (method url-fetch) + (uri (cran-uri "boot" version)) + (sha256 + (base32 + "0pi348vvgzn1ny54yxhw6kq6nl7rx9bpr9ji1a6wqs8ah5zj7z8j")))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/boot") + (synopsis "Bootstrap functions for R") + (description + "This package provides functions and datasets for bootstrapping from the +book \"Bootstrap Methods and Their Application\" by A.C. Davison and +D.V. Hinkley (1997, CUP), originally written by Angelo Canty for S.") + ;; Unlimited distribution + (license (license:non-copyleft "file://R/bootfuns.q")))) + +(define-public r-mass + (package + (name "r-mass") + (version "7.3-45") + (source + (origin + (method url-fetch) + (uri (cran-uri "MASS" version)) + (sha256 + (base32 + "13lp5919h2bnpmf8rbmkar8a41yx62fnx66pkvljvqf60wa29qsx")))) + (properties `((upstream-name . "MASS"))) + (build-system r-build-system) + (home-page "http://www.stats.ox.ac.uk/pub/MASS4/") + (synopsis "Support functions and datasets for Venables and Ripley's MASS") + (description + "This package provides functions and datasets for the book \"Modern +Applied Statistics with S\" (4th edition, 2002) by Venables and Ripley.") + ;; Either version may be picked. + (license (list license:gpl2 license:gpl3)))) + +(define-public r-class + (package + (name "r-class") + (version "7.3-14") + (source + (origin + (method url-fetch) + (uri (cran-uri "class" version)) + (sha256 + (base32 + "173b8a16lh1i0zjmr784l0xr0azp9v8bgslh12hfdswbq7dpdf0q")))) + (build-system r-build-system) + (propagated-inputs + `(("r-mass" ,r-mass))) + (home-page "http://www.stats.ox.ac.uk/pub/MASS4/") + (synopsis "R functions for classification") + (description + "This package provides various functions for classification, including +k-nearest neighbour, Learning Vector Quantization and Self-Organizing Maps.") + ;; Either of the two versions can be picked. + (license (list license:gpl2 license:gpl3)))) + +(define-public r-cluster + (package + (name "r-cluster") + (version "2.0.5") + (source + (origin + (method url-fetch) + (uri (cran-uri "cluster" version)) + (sha256 + (base32 + "1bkvqmv8h2c423q9ag2afb6s9j2vcdlxsf559zzbimraphrr2c2b")))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/cluster") + (synopsis "Methods for cluster analysis") + (description + "This package provides methods for cluster analysis. It is a much +extended version of the original from Peter Rousseeuw, Anja Struyf and Mia +Hubert, based on Kaufman and Rousseeuw (1990) \"Finding Groups in Data\".") + (license license:gpl2+))) + +(define-public r-codetools + (package + (name "r-codetools") + (version "0.2-15") + (source + (origin + (method url-fetch) + (uri (cran-uri "codetools" version)) + (sha256 + (base32 + "0h7sjmvvsi35041jp47cxhsqzgf1y8jrw6fxii7n26i8g7nrh1sf")))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/codetools") + (synopsis "Code analysis tools for R") + (description "This package provides code analysis tools for R.") + ;; Any version of the GPL. + (license (list license:gpl2+ license:gpl3+)))) + +(define-public r-foreign + (package + (name "r-foreign") + (version "0.8-67") + (source + (origin + (method url-fetch) + (uri (cran-uri "foreign" version)) + (sha256 + (base32 + "1mcrm2pydimbyjhkrw5h380bifj1jhwzifph1xgh90asf3lvd1xd")))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/foreign") + (synopsis "Read data stored by other statistics software") + (description + "This package provides functions for reading and writing data stored by +some versions of Epi Info, Minitab, S, SAS, SPSS, Stata, Systat and Weka and +for reading and writing some dBase files.") + (license license:gpl2+))) + +(define-public r-kernsmooth + (package + (name "r-kernsmooth") + (version "2.23-15") + (source + (origin + (method url-fetch) + (uri (cran-uri "KernSmooth" version)) + (sha256 + (base32 + "1xhha8kw10jv8pv8b61hb5in9qiw3r2a9kdji3qlm991s4zd4wlb")))) + (properties `((upstream-name . "KernSmooth"))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/KernSmooth") + (synopsis "Functions for kernel smoothing") + (description + "This package provides functions for kernel smoothing (and density +estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995) +\"Kernel Smoothing\".") + ;; Unlimited distribution + (license (license:non-copyleft "file://LICENCE.note")))) + +(define-public r-lattice + (package + (name "r-lattice") + (version "0.20-34") + (source (origin + (method url-fetch) + (uri (cran-uri "lattice" version)) + (sha256 + (base32 + "0615h69czr73k47whhzimf1qxv5qk0cabcrkljwhyrn6m6piq6ja")))) + (build-system r-build-system) + (home-page "http://lattice.r-forge.r-project.org/") + (synopsis "High-level data visualization system") + (description + "The lattice package provides a powerful and elegant high-level data +visualization system inspired by Trellis graphics, with an emphasis on +multivariate data. Lattice is sufficient for typical graphics needs, and is +also flexible enough to handle most nonstandard requirements.") + (license license:gpl2+))) + +(define-public r-matrix + (package + (name "r-matrix") + (version "1.2-7.1") + (source + (origin + (method url-fetch) + (uri (cran-uri "Matrix" version)) + (sha256 + (base32 + "09rd51na9spz0lm1lylkfhw43w7c922b83m4jsggmpg3pbd6dssa")))) + (properties `((upstream-name . "Matrix"))) + (build-system r-build-system) + (propagated-inputs + `(("r-lattice" ,r-lattice))) + (home-page "http://Matrix.R-forge.R-project.org/") + (synopsis "Sparse and dense matrix classes and methods") + (description + "This package provides classes and methods for dense and sparse matrices +and operations on them using LAPACK and SuiteSparse.") + (license license:gpl2+))) + +(define-public r-nlme + (package + (name "r-nlme") + (version "3.1-131") + (source + (origin + (method url-fetch) + (uri (cran-uri "nlme" version)) + (sha256 + (base32 + "0k2nvdzhic6bzhfsbq6la6q6a1i5nlj4pnh6lpdxiiwvxdks3nkr")))) + (build-system r-build-system) + (propagated-inputs + `(("r-lattice" ,r-lattice))) + (native-inputs + `(("gfortran" ,gfortran))) + (home-page "http://cran.r-project.org/web/packages/nlme") + (synopsis "Linear and nonlinear mixed effects models") + (description + "This package provides tools to fit and compare Gaussian linear and +nonlinear mixed-effects models.") + (license license:gpl2+))) + +(define-public r-mgcv + (package + (name "r-mgcv") + (version "1.8-16") + (source + (origin + (method url-fetch) + (uri (cran-uri "mgcv" version)) + (sha256 + (base32 + "0pj31gdwra7nv8spys4pfcbmsik99q1y1d0d2g37ywc3sz5s0rlj")))) + (build-system r-build-system) + (propagated-inputs + `(("r-matrix" ,r-matrix) + ("r-nlme" ,r-nlme))) + (home-page "http://cran.r-project.org/web/packages/mgcv") + (synopsis "Mixed generalised additive model computation") + (description + "GAMs, GAMMs and other generalized ridge regression with multiple smoothing +parameter estimation by GCV, REML or UBRE/AIC. The library includes a +@code{gam()} function, a wide variety of smoothers, JAGS support and +distributions beyond the exponential family.") + (license license:gpl2+))) + +(define-public r-nnet + (package + (name "r-nnet") + (version "7.3-12") + (source + (origin + (method url-fetch) + (uri (cran-uri "nnet" version)) + (sha256 + (base32 + "17amqnw9dpap2w8ivx53hxha2xrm0drwfnj32li0xk41hlz548r7")))) + (build-system r-build-system) + (home-page "http://www.stats.ox.ac.uk/pub/MASS4/") + (synopsis "Feed-forward neural networks and multinomial log-linear models") + (description + "This package provides functions for feed-forward neural networks with a +single hidden layer, and for multinomial log-linear models.") + (license (list license:gpl2+ license:gpl3+)))) + +(define-public r-rpart + (package + (name "r-rpart") + (version "4.1-10") + (source + (origin + (method url-fetch) + (uri (cran-uri "rpart" version)) + (sha256 + (base32 + "119dvh2cpab4vq9blvbkil5hgq6w018amiwlda3ii0fki39axpf5")))) + (build-system r-build-system) + (home-page "http://cran.r-project.org/web/packages/rpart") + (synopsis "Recursive partitioning and regression trees") + (description + "This package provides recursive partitioning functions for +classification, regression and survival trees.") + (license (list license:gpl2+ license:gpl3+)))) + +(define-public r-spatial + (package + (name "r-spatial") + (version "7.3-11") + (source + (origin + (method url-fetch) + (uri (cran-uri "spatial" version)) + (sha256 + (base32 + "04aw8j533sn63ybyrf4hyhrqm4058vfcb7yhjy07kq92mk94hi32")))) + (build-system r-build-system) + (home-page "http://www.stats.ox.ac.uk/pub/MASS4/") + (synopsis "Functions for kriging and point pattern analysis") + (description + "This package provides functions for kriging and point pattern +analysis.") + ;; Either version may be picked. + (license (list license:gpl2 license:gpl3)))) + +(define-public r-survival + (package + (name "r-survival") + (version "2.40-1") + (source + (origin + (method url-fetch) + (uri (cran-uri "survival" version)) + (sha256 + (base32 + "10pf0kq0g66k5rgizrvh29mq3r84acljw2jgrv5yp6z38xw23mci")))) + (build-system r-build-system) + (propagated-inputs + `(("r-matrix" ,r-matrix))) + (home-page "https://github.com/therneau/survival") + (synopsis "Survival analysis") + (description + "This package contains the core survival analysis routines, including +definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) +curves, Cox models, and parametric accelerated failure time models.") + (license license:lgpl2.0+))) + +(define-public r + (package (inherit r-minimal) + (name "r") + (source #f) + (build-system trivial-build-system) + (arguments '(#:builder (mkdir %output))) + (propagated-inputs + `(("r-minimal" ,r-minimal) + ("r-boot" ,r-boot) + ("r-class" ,r-class) + ("r-cluster" ,r-cluster) + ("r-codetools" ,r-codetools) + ("r-foreign" ,r-foreign) + ("r-kernsmooth" ,r-kernsmooth) + ("r-lattice" ,r-lattice) + ("r-mass" ,r-mass) + ("r-matrix" ,r-matrix) + ("r-mgcv" ,r-mgcv) + ("r-nlme" ,r-nlme) + ("r-nnet" ,r-nnet) + ("r-rpart" ,r-rpart) + ("r-spatial" ,r-spatial) + ("r-survival" ,r-survival))))) + (define-public r-bit (package (name "r-bit") @@ -460,49 +835,6 @@ and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see 'citation(\"Rcpp\")' for details on these last two.") (license license:gpl2+))) -(define-public r-matrix - (package - (name "r-matrix") - (version "1.2-7.1") - (source - (origin - (method url-fetch) - (uri (cran-uri "Matrix" version)) - (sha256 - (base32 - "09rd51na9spz0lm1lylkfhw43w7c922b83m4jsggmpg3pbd6dssa")))) - (properties `((upstream-name . "Matrix"))) - (build-system r-build-system) - (propagated-inputs - `(("r-lattice" ,r-lattice))) - (home-page "http://Matrix.R-forge.R-project.org/") - (synopsis "Sparse and dense matrix classes and methods") - (description - "This package provides classes and methods for dense and sparse matrices -and operations on them using LAPACK and SuiteSparse.") - (license license:gpl2+))) - -(define-public r-mgcv - (package - (name "r-mgcv") - (version "1.8-16") - (source - (origin - (method url-fetch) - (uri (cran-uri "mgcv" version)) - (sha256 - (base32 - "0pj31gdwra7nv8spys4pfcbmsik99q1y1d0d2g37ywc3sz5s0rlj")))) - (build-system r-build-system) - (home-page "http://cran.r-project.org/web/packages/mgcv") - (synopsis "Mixed generalised additive model computation") - (description - "GAMs, GAMMs and other generalized ridge regression with multiple smoothing -parameter estimation by GCV, REML or UBRE/AIC. The library includes a -@code{gam()} function, a wide variety of smoothers, JAGS support and -distributions beyond the exponential family.") - (license license:gpl2+))) - (define-public r-permute (package (name "r-permute") @@ -722,6 +1054,7 @@ legends.") ("r-gtable" ,r-gtable) ("r-plyr" ,r-plyr) ("r-lazyeval" ,r-lazyeval) + ("r-mass" ,r-mass) ("r-tibble" ,r-tibble) ("r-reshape2" ,r-reshape2) ("r-scales" ,r-scales) @@ -1342,6 +1675,8 @@ side.") (base32 "0lafrmq1q7x026m92h01hc9cjjiximqqi3v1g2hw7ai9vf7i897m")))) (build-system r-build-system) + (propagated-inputs + `(("r-lattice" ,r-lattice))) (home-page "http://cran.r-project.org/web/packages/locfit") (synopsis "Local regression, likelihood and density estimation") (description @@ -1519,6 +1854,8 @@ inference for statistical models.") (base32 "14a4a8df4ygj05h37chmdn8kzcqs07fpbflxfrq530563mrza7yl")))) (build-system r-build-system) + (propagated-inputs + `(("r-lattice" ,r-lattice))) (home-page "http://cran.r-project.org/web/packages/coda") (synopsis "This is a package for Output Analysis and Diagnostics for MCMC") (description "This package provides functions for summarizing and plotting @@ -2028,26 +2365,6 @@ scaling functions for R.") "This package provides an integration of base and grid graphics for R.") (license license:gpl2+))) -(define-public r-lattice - (package - (name "r-lattice") - (version "0.20-34") - (source (origin - (method url-fetch) - (uri (cran-uri "lattice" version)) - (sha256 - (base32 - "0615h69czr73k47whhzimf1qxv5qk0cabcrkljwhyrn6m6piq6ja")))) - (build-system r-build-system) - (home-page "http://lattice.r-forge.r-project.org/") - (synopsis "High-level data visualization system") - (description - "The lattice package provides a powerful and elegant high-level data -visualization system inspired by Trellis graphics, with an emphasis on -multivariate data. Lattice is sufficient for typical graphics needs, and is -also flexible enough to handle most nonstandard requirements.") - (license license:gpl2+))) - (define-public r-latticeextra (package (name "r-latticeextra") @@ -2687,6 +3004,8 @@ flexible than the orphaned \"base64\" package.") (base32 "1qbcn0ix85pmk296jhpi419kvh06vxm5cq24yk013ps3g7fyi0si")))) (build-system r-build-system) + (propagated-inputs + `(("r-matrix" ,r-matrix))) (home-page "http://cran.r-project.org/web/packages/irlba") (synopsis "Methods for eigendecomposition of large matrices") (description @@ -2707,10 +3026,11 @@ analysis of large sparse or dense matrices.") (base32 "1cbpzmbv837fvq88rgn6mgzgr9f1wqp9fg8gh2kkmngvr1957a9c")))) (build-system r-build-system) - (inputs - `(("gfortran" ,gfortran))) + (inputs + `(("gfortran" ,gfortran))) (propagated-inputs - `(("r-foreach" ,r-foreach))) + `(("r-foreach" ,r-foreach) + ("r-matrix" ,r-matrix))) (home-page "http://www.jstatsoft.org/v33/i01") (synopsis "Lasso and elastic-net regularized generalized linear models") (description @@ -2828,6 +3148,8 @@ Stochastic Neighbor Embedding using a Barnes-Hut implementation.") (base32 "1069qwj9gsjq6par2cgfah8nn5x2w38830761x1f7mqpmk0gnj3h")))) (build-system r-build-system) + (propagated-inputs + `(("r-class" ,r-class))) (home-page "http://cran.r-project.org/web/packages/e1071") (synopsis "Miscellaneous functions for probability theory") (description @@ -3439,6 +3761,9 @@ from within R.") (("if isnan\\(lambda\\) \\{") "if (isnan(lambda)) {")) #t))))) + (propagated-inputs + `(("r-lattice" ,r-lattice) + ("r-matrix" ,r-matrix))) (home-page "http://spams-devel.gforge.inria.fr") (synopsis "Toolbox for solving sparse estimation problems") (description "SPAMS (SPArse Modeling Software) is an optimization toolbox @@ -3456,45 +3781,6 @@ following problems: @end enumerate\n") (license license:gpl3+))) -(define-public r-rpart - (package - (name "r-rpart") - (version "4.1-10") - (source - (origin - (method url-fetch) - (uri (cran-uri "rpart" version)) - (sha256 - (base32 - "119dvh2cpab4vq9blvbkil5hgq6w018amiwlda3ii0fki39axpf5")))) - (build-system r-build-system) - (home-page "http://cran.r-project.org/web/packages/rpart") - (synopsis "Recursive partitioning and regression trees") - (description - "This package provides recursive partitioning functions for -classification, regression and survival trees.") - (license (list license:gpl2+ license:gpl3+)))) - -(define-public r-survival - (package - (name "r-survival") - (version "2.40-1") - (source - (origin - (method url-fetch) - (uri (cran-uri "survival" version)) - (sha256 - (base32 - "10pf0kq0g66k5rgizrvh29mq3r84acljw2jgrv5yp6z38xw23mci")))) - (build-system r-build-system) - (home-page "https://github.com/therneau/survival") - (synopsis "Survival analysis") - (description - "This package contains the core survival analysis routines, including -definition of Surv objects, Kaplan-Meier and Aalen-Johansen (multi-state) -curves, Cox models, and parametric accelerated failure time models.") - (license license:lgpl2.0+))) - (define-public r-base64 (package (name "r-base64") @@ -3536,17 +3822,20 @@ package instead.") `(("r-acepack" ,r-acepack) ("r-base64" ,r-base64) ("r-base64enc" ,r-base64enc) + ("r-cluster" ,r-cluster) ("r-data-table" ,r-data-table) + ("r-foreign" ,r-foreign) ("r-formula" ,r-formula) ("r-ggplot2" ,r-ggplot2) ("r-gridextra" ,r-gridextra) ("r-gtable" ,r-gtable) - ;; Hmisc needs survival >= 2.40.1, so it cannot use the survival - ;; package that comes with R 3.3.2. - ("r-survival" ,r-survival) + ("r-lattice" ,r-lattice) ("r-latticeextra" ,r-latticeextra) ("r-htmltable" ,r-htmltable) ("r-htmltools" ,r-htmltools) + ("r-nnet" ,r-nnet) + ("r-rpart" ,r-rpart) + ("r-survival" ,r-survival) ("r-viridis" ,r-viridis))) (home-page "http://biostat.mc.vanderbilt.edu/Hmisc") (synopsis "Miscellaneous data analysis and graphics functions") @@ -3831,6 +4120,8 @@ estimation) corresponding to the book: Wand, M.P. and Jones, M.C. (1995) (base32 "167m142rwwfy8b9hnfc3fi28dcsdjk61g1crqhll6sh5xmgnfn28")))) (build-system r-build-system) + (propagated-inputs + `(("r-lattice" ,r-lattice))) (home-page "http://zoo.R-Forge.R-project.org/") (synopsis "S3 infrastructure for regular and irregular time series") (description "This package contains an S3 class with methods for totally @@ -4097,7 +4388,9 @@ letters, as is often required for scientific publications.") "133rr17ywmlhsc6457hs8qxi8ng443ql9ashxpwc8875gjhv1x32")))) (build-system r-build-system) (propagated-inputs - `(("r-segmented" ,r-segmented))) + `(("r-boot" ,r-boot) + ("r-mass" ,r-mass) + ("r-segmented" ,r-segmented))) (home-page "http://cran.r-project.org/web/packages/mixtools") (synopsis "Tools for analyzing finite mixture models") (description @@ -4227,7 +4520,9 @@ to change in the future.") "1i205yw3kkxs27gqcs6zx0c2mh16p332a2p06wq6fdzb20bazg3z")))) (build-system r-build-system) (propagated-inputs - `(("r-modeltools" ,r-modeltools))) + `(("r-lattice" ,r-lattice) + ("r-modeltools" ,r-modeltools) + ("r-nnet" ,r-nnet))) (home-page "http://cran.r-project.org/web/packages/flexmix") (synopsis "Flexible mixture modeling") (description @@ -4274,7 +4569,8 @@ and resampling-based inference.") "0qjsxrx6yv338bxm4ki0w9h8hind1l98abdrz828588bwj02jya1")))) (build-system r-build-system) (propagated-inputs - `(("r-mclust" ,r-mclust))) + `(("r-mass" ,r-mass) + ("r-mclust" ,r-mclust))) (home-page "https://cran.r-project.org/web/packages/prabclus") (synopsis "Parametric bootstrap tests for spatial neighborhood clustering") (description @@ -4363,9 +4659,12 @@ of the points.") "15m0p9l9w2v7sl0cnzyg81i2fmx3hrhvr3371544mwn3fpsca5sx")))) (build-system r-build-system) (propagated-inputs - `(("r-diptest" ,r-diptest) + `(("r-class" ,r-class) + ("r-cluster" ,r-cluster) + ("r-diptest" ,r-diptest) ("r-flexmix" ,r-flexmix) ("r-kernlab" ,r-kernlab) + ("r-mass" ,r-mass) ("r-mclust" ,r-mclust) ("r-mvtnorm" ,r-mvtnorm) ("r-prabclus" ,r-prabclus) @@ -4484,7 +4783,8 @@ based on an interface to Fortran implementations by M. J. D. Powell.") (properties `((upstream-name . "RcppEigen"))) (build-system r-build-system) (propagated-inputs - `(("r-rcpp" ,r-rcpp))) + `(("r-rcpp" ,r-rcpp) + ("r-matrix" ,r-matrix))) (home-page "http://eigen.tuxfamily.org") (synopsis "Rcpp integration for the Eigen templated linear algebra library") (description @@ -4529,6 +4829,8 @@ metrics for evaluating models.") "0cyfvhci2p1vr2x52ymkyqqs63x1qchn856dh2j94yb93r08x1zy")))) (properties `((upstream-name . "MatrixModels"))) (build-system r-build-system) + (propagated-inputs + `(("r-matrix" ,r-matrix))) (home-page "https://cran.r-project.org/web/packages/MatrixModels") (synopsis "Modelling with sparse and dense matrices") (description @@ -4606,7 +4908,9 @@ algorithms.") ("r-rcppeigen" ,r-rcppeigen))) (propagated-inputs `(("r-minqa" ,r-minqa) - ("r-nloptr" ,r-nloptr))) + ("r-nloptr" ,r-nloptr) + ("r-mass" ,r-mass) + ("r-nlme" ,r-nlme))) (home-page "http://cran.r-project.org/web/packages/lme4") (synopsis "Linear mixed-effects models using eigen and S4") (description @@ -4629,7 +4933,9 @@ C++ library for numerical linear algebra and RcppEigen glue.") "00cw18q7wvddzjrbxz917wkix6r7672vi2wmsp4gwgzady8vha4x")))) (build-system r-build-system) (propagated-inputs - `(("r-lme4" ,r-lme4))) + `(("r-lme4" ,r-lme4) + ("r-mass" ,r-mass) + ("r-matrix" ,r-matrix))) (home-page "http://people.math.aau.dk/~sorenh/software/pbkrtest/") (synopsis "Methods for linear mixed model comparison") (description @@ -4651,7 +4957,10 @@ bootstrap test for generalized linear mixed models.") "0a6v7rsd1xsdyapnfqy37m7c4kx9wslkzsizc9k0lmnba0bwyfgx")))) (build-system r-build-system) (propagated-inputs - `(("r-pbkrtest" ,r-pbkrtest) + `(("r-mass" ,r-mass) + ("r-mgcv" ,r-mgcv) + ("r-nnet" ,r-nnet) + ("r-pbkrtest" ,r-pbkrtest) ("r-quantreg" ,r-quantreg))) (home-page "https://r-forge.r-project.org/projects/car/") (synopsis "Companion to applied regression") @@ -4790,7 +5099,8 @@ multivariate case.") "0a1b7yp4l9wf6ic5czizyl2cnxrc1virj0icr8i6m1vv23jd8jfp")))) (build-system r-build-system) (propagated-inputs - `(("r-mclust" ,r-mclust) + `(("r-cluster" ,r-cluster) + ("r-mclust" ,r-mclust) ("r-mvtnorm" ,r-mvtnorm) ("r-sn" ,r-sn))) (home-page "http://cran.r-project.org/web/packages/tclust") |