File R-GPRMortality.spec of Package R-GPRMortality
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# Spec file for package GPRMortality
# This file is auto-generated using information in the package source,
# esp. Description and Summary. Improvements in that area should be
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%global packname GPRMortality
%global rlibdir %{_libdir}/R/library
Name: R-%{packname}
Version: 0.1.0
Release: 0
Summary: Gaussian Process Regression for Mortality Rates
Group: Development/Libraries/Other
License: GPL-2 | GPL-3
URL: http://cran.r-project.org/web/packages/%{packname}
Source: GPRMortality_0.1.0.tar.gz
Requires: R-base
Requires: R-rstan
Requires: R-StanHeaders
Requires: R-inline
Requires: R-gridExtra
Requires: R-Rcpp
Requires: R-RcppParallel
Requires: R-loo
Requires: R-pkgbuild
Requires: R-QuickJSR
Requires: R-ggplot2
Requires: R-RcppEigen
Requires: R-BH
Requires: R-cli
Requires: R-gtable
Requires: R-isoband
Requires: R-lifecycle
Requires: R-rlang
Requires: R-S7
Requires: R-scales
Requires: R-vctrs
Requires: R-withr
Requires: R-checkmate
Requires: R-matrixStats
Requires: R-posterior
Requires: R-callr
Requires: R-desc
Requires: R-processx
Requires: R-R6
Requires: R-backports
Requires: R-glue
Requires: R-cpp11
Requires: R-abind
Requires: R-tibble
Requires: R-tensorA
Requires: R-pillar
Requires: R-distributional
Requires: R-ps
Requires: R-farver
Requires: R-labeling
Requires: R-RColorBrewer
Requires: R-viridisLite
Requires: R-generics
Requires: R-numDeriv
Requires: R-utf8
Requires: R-magrittr
Requires: R-pkgconfig
# %%if 0%%{?sle_version} > 120400 || 0%%{?is_opensuse}
# # Three others commonly needed
# BuildRequires: tex(ae.sty)
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BuildRequires: fdupes
BuildRequires: R-base
BuildRequires: R-rstan-devel
BuildRequires: R-StanHeaders-devel
BuildRequires: R-inline
BuildRequires: R-gridExtra
BuildRequires: R-Rcpp-devel
BuildRequires: R-RcppParallel-devel
BuildRequires: R-loo
BuildRequires: R-pkgbuild
BuildRequires: R-QuickJSR
BuildRequires: R-ggplot2
BuildRequires: R-RcppEigen-devel
BuildRequires: R-BH-devel
BuildRequires: R-cli
BuildRequires: R-gtable
BuildRequires: R-isoband
BuildRequires: R-lifecycle
BuildRequires: R-rlang
BuildRequires: R-S7
BuildRequires: R-scales
BuildRequires: R-vctrs
BuildRequires: R-withr
BuildRequires: R-checkmate
BuildRequires: R-matrixStats
BuildRequires: R-posterior
BuildRequires: R-callr
BuildRequires: R-desc
BuildRequires: R-processx
BuildRequires: R-R6
BuildRequires: R-backports
BuildRequires: R-glue
BuildRequires: R-cpp11-devel
BuildRequires: R-abind
BuildRequires: R-tibble
BuildRequires: R-tensorA
BuildRequires: R-pillar
BuildRequires: R-distributional
BuildRequires: R-ps
BuildRequires: R-farver
BuildRequires: R-labeling
BuildRequires: R-RColorBrewer
BuildRequires: R-viridisLite
BuildRequires: R-generics
BuildRequires: R-numDeriv
BuildRequires: R-utf8
BuildRequires: R-magrittr
BuildRequires: R-pkgconfig
%description
A Bayesian statistical model for estimating child (under-five age
group) and adult (15-60 age group) mortality. The main challenge is
how to combine and integrate these different time series and how to
produce unified estimates of mortality rates during a specified time
span. GPR is a Bayesian statistical model for estimating child and
adult mortality rates which its data likelihood is mortality rates from
different data sources such as: Death Registration System, Censuses or
surveys. There are also various hyper-parameters for completeness of
DRS, mean, covariance functions and variances as priors. This function
produces estimations and uncertainty (95% or any desirable percentiles)
based on sampling and non-sampling errors due to variation in data
sources. The GP model utilizes Bayesian inference to update predicted
mortality rates as a posterior in Bayes rule by combining data and a
prior probability distribution over parameters in mean, covariance
function, and the regression model. This package uses Markov Chain
Monte Carlo (MCMC) to sample from posterior probability distribution by
'rstan' package in R. Details are given in Wang H, Dwyer-Lindgren L,
Lofgren KT, et al. (2012) <doi:10.1016/S0140-6736(12)61719-X>, Wang H,
Liddell CA, Coates MM, et al. (2014)
<doi:10.1016/S0140-6736(14)60497-9> and Mohammadi, Parsaeian, Mehdipour
et al. (2017) <doi:10.1016/S2214-109X(17)30105-5>.
%prep
%setup -q -c -n %{packname}
# the next line is needed, because we build without --clean in between two packages
rm -rf ~/.R
%build
%install
mkdir -p %{buildroot}%{rlibdir}
%{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname}
test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so)
rm -f %{buildroot}%{rlibdir}/R.css
%fdupes -s %{buildroot}%{rlibdir}
#%%check
#%%{_bindir}/R CMD check %%{packname}
%files
%dir %{rlibdir}/%{packname}
%doc %{rlibdir}/%{packname}/DESCRIPTION
%{rlibdir}/%{packname}/INDEX
%{rlibdir}/%{packname}/Meta
%{rlibdir}/%{packname}/NAMESPACE
%{rlibdir}/%{packname}/R
%{rlibdir}/%{packname}/data
%doc %{rlibdir}/%{packname}/help
%doc %{rlibdir}/%{packname}/html
%changelog
