%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  taxodist
%global packver   0.6.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.6.0
Release:          1%{?dist}%{?buildtag}
Summary:          Taxonomic Hierarchy Distances and Lineage Analysis

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


BuildRequires:    R-devel >= 4.1.0
Requires:         R-core >= 4.1.0
BuildArch:        noarch
BuildRequires:    R-CRAN-cli >= 3.0.0
BuildRequires:    R-CRAN-httr >= 1.4.0
BuildRequires:    R-CRAN-stringr >= 1.4.0
BuildRequires:    R-CRAN-rvest >= 1.0.0
BuildRequires:    R-CRAN-purrr >= 0.3.0
BuildRequires:    R-utils 
BuildRequires:    R-stats 
BuildRequires:    R-graphics 
Requires:         R-CRAN-cli >= 3.0.0
Requires:         R-CRAN-httr >= 1.4.0
Requires:         R-CRAN-stringr >= 1.4.0
Requires:         R-CRAN-rvest >= 1.0.0
Requires:         R-CRAN-purrr >= 0.3.0
Requires:         R-utils 
Requires:         R-stats 
Requires:         R-graphics 

%description
Computes distances between taxonomic hierarchy nodes using lineage data
retrieved from The Taxonomicon <http://taxonomicon.taxonomy.nl>. For
distinct nodes, distance is defined as the reciprocal of the depth of
their most recent common ancestor; identical nodes have distance zero.
This definition yields an ultrametric within each connected hierarchy.
Functions are provided for lineage retrieval and comparison, clade
membership, pairwise and matrix distance calculation, hierarchical
clustering, principal coordinates analysis, and cache management. Distance
matrices are returned as base R 'dist' objects. The distances represent
classification depth rather than evolutionary time or phylogenetic branch
length.

%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}