# Copyright 1999-2025 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2

EAPI=8

inherit R-packages

DESCRIPTION='Model Based Phylogenetic Analysis'
KEYWORDS="~amd64 ~x64-macos ~arm64-macos"
SRC_URI="http://cran.r-project.org/src/contrib/phyr_1.1.3.tar.gz"
LICENSE='GPL-3'

IUSE="${IUSE-} r_suggests_covr r_suggests_dharma r_suggests_future_apply
	r_suggests_ggplot2 r_suggests_ggridges r_suggests_inla
	r_suggests_knitr r_suggests_logistf r_suggests_mcmcglmm
	r_suggests_pez r_suggests_phylolm r_suggests_picante
	r_suggests_rbenchmark r_suggests_rmarkdown r_suggests_rr2
	r_suggests_testthat"
R_SUGGESTS="
	r_suggests_covr? ( sci-CRAN/covr )
	r_suggests_dharma? ( sci-CRAN/DHARMa )
	r_suggests_future_apply? ( sci-CRAN/future_apply )
	r_suggests_ggplot2? ( sci-CRAN/ggplot2 )
	r_suggests_ggridges? ( sci-CRAN/ggridges )
	r_suggests_inla? ( sci-INLA/INLA )
	r_suggests_knitr? ( sci-CRAN/knitr )
	r_suggests_logistf? ( sci-CRAN/logistf )
	r_suggests_mcmcglmm? ( sci-CRAN/MCMCglmm )
	r_suggests_pez? ( sci-CRAN/pez )
	r_suggests_phylolm? ( sci-CRAN/phylolm )
	r_suggests_picante? ( sci-CRAN/picante )
	r_suggests_rbenchmark? ( sci-CRAN/rbenchmark )
	r_suggests_rmarkdown? ( sci-CRAN/rmarkdown )
	r_suggests_rr2? ( sci-CRAN/rr2 )
	r_suggests_testthat? ( sci-CRAN/testthat )
"
DEPEND="sci-CRAN/mvtnorm
	sci-CRAN/tidyr
	sci-CRAN/Rcpp
	sci-CRAN/ape
	>=dev-lang/R-3.1
	virtual/Matrix
	sci-CRAN/dplyr
	sci-CRAN/lme4
	sci-CRAN/nloptr
	virtual/lattice
"
RDEPEND="${DEPEND-}
	sci-CRAN/Rcpp
	sci-CRAN/RcppArmadillo
	${R_SUGGESTS-}
"