%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  ebrahim.gof
%global packver   2.10.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          2.10.0
Release:          1%{?dist}%{?buildtag}
Summary:          Goodness-of-Fit and Calibration Tests for Logistic Regression

License:          GPL-3
URL:              https://cran.r-project.org/package=%{packname}
Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz


BuildRequires:    R-devel >= 3.5.0
Requires:         R-core >= 3.5.0
BuildArch:        noarch
BuildRequires:    R-CRAN-CompQuadForm 
BuildRequires:    R-graphics 
BuildRequires:    R-grDevices 
BuildRequires:    R-parallel 
BuildRequires:    R-stats 
Requires:         R-CRAN-CompQuadForm 
Requires:         R-graphics 
Requires:         R-grDevices 
Requires:         R-parallel 
Requires:         R-stats 

%description
Provides a unified battery of goodness-of-fit and calibration tests for
binary logistic regression, runnable in a single call via 'run.all.gof()'.
Around twenty-five tests spanning five decades of literature are
aggregated and grouped by the departure each is built to detect: global
and standardized statistics, partition tests such as Hosmer-Lemeshow,
directed and covariate-space tests, smoothing and resampling tests, and
calibration tests. Each is obtained from its own package where installed
and attributed to its authors. The package also implements the author's
own procedures for sparse data, where the Hosmer-Lemeshow test loses
power: the omnibus Ebrahim-Farrington test 'ef.gof()', the directed
'edge.gof()' and its covariate-space variant 'cdef.gof()', the
Cauchy-combination ensemble 'edges.gof()', 'DeepGOF-1' (a pretrained
convolutional statistic whose level comes from the analyst's own
parametric bootstrap rather than from the network), and 'legoft()' (a
frozen-weight combination whose weights are fixed offline and ship frozen,
so two analysts obtain the same p-value). For penalized (ridge) logistic
regression, where shrinkage biases the fitted probabilities and
invalidates the usual chi-squared references, the corrected statistics are
referred either to a prepivoting bootstrap by 'shrink.gof()' or to a
closed-form reference by 'calm.gof()', which needs a single fit and is
validated for designs in which the number of predictors is a sizeable
fraction of the sample size. For a model fitted elsewhere,
'run.all.external()' tests frozen predictions on validation data, and
'edge.stream()' updates the 'EDGE' test as validation records arrive.
'localize.gof()' and 'localize.external()' name which part of the model is
wrong (the intercept, the slope, the link or the covariates) with
familywise error control. For comparison, the projection test of Liu et
al. is implemented as 'projection.gof()' and a fast implementation of the
adaptive-partition test 'BAGofT' as 'bagoft.fast()'. For more details see
Hosmer (1980) <doi:10.1080/03610928008827941> and Farrington (1996)
<doi:10.1111/j.2517-6161.1996.tb02086.x>.

%prep
%setup -q -c -n %{packname}

# fix end of executable files
find -type f -executable -exec grep -Iq . {} \; -exec sed -i -e '$a\' {} \;
# prevent binary stripping
[ -d %{packname}/src ] && find %{packname}/src -type f -exec \
  sed -i 's@/usr/bin/strip@/usr/bin/true@g' {} \; || true
[ -d %{packname}/src ] && find %{packname}/src/Make* -type f -exec \
  sed -i 's@-g0@@g' {} \; || true
# don't allow local prefix in executable scripts
find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' {} \;

%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
# remove buildroot from installed files
find %{buildroot}%{rlibdir} -type f -exec sed -i "s@%{buildroot}@@g" {} \;

%files
%{rlibdir}/%{packname}