# Copyright (c) 2014 Dave Love, Liverpool University
# Licence: MIT, per Fedora policy

%global packname  pbdNCDF4
%global rlibdir  %{_libdir}/R/library
%global github 1
%global commit 9b59aaef205518d52c3e4d3a5065a57c57999823
%global shortcommit %(c=%{commit}; echo ${c:0:7})

Name:             R-%{packname}
Version:          0.1.6
Release:          1%{?dist}
Summary:          Programming with Big Data -- Parallel NetCDF4 Interface
License:          GPLv3+
URL:              http://cran.r-project.org/web/packages/%{packname}/index.html
%if 0%{?github}
Source0:	  https://github.com/RBigData/pbdNCDF4//archive/%commit/pbdNCDF4-%shortcommit.tar.gz
%else
Source0:          http://cran.r-project.org/src/contrib/%{packname}_0.1-4.tar.gz
%endif
# configure uses `nc-config --prefix`/include/netcdf_par.h when it should
# use --includedir, but then the parallel nc-config incorrectly returns
# /usr/include for that anyway.  We always want to include etcdf_par.h.
Patch1:		  pdbncdf4-mpi.patch
BuildRequires:    R-devel tex(latex)
BuildRequires:    netcdf-openmpi-devel R-pbdMPI netcdf-devel
Requires:         openmpi%{_isa}


%description
This package adds collective parallel read and write capability to the R
package ncdf4 version 1.8. Typical use is as a parallel NetCDF4 file
reader in SPMD style programming. Each R process reads and writes its own
data in a synchronized collective mode, resulting in faster parallel
performance. Performance improvement is conditional on a parallel file

%prep
%setup -q -c -n %{packname}
#%patch1 -p1
%{?github:mv pbdNCDF4-* pbdNCDF4}

%build
# Have to build before install to get DESCRIPTION right.  This has to
# be done with serial netcdf.
%_openmpi_load
#export PKG_CONFIG_PATH="$MPI_LIB/pkgconfig:$PKG_CONFIG_PATH"
R CMD build %{packname}*
tar fx %{packname}*.tar.gz


%install
mkdir -p %{buildroot}%{rlibdir}
%_openmpi_load
# configure looks for a header in %_prefix/include
sed -i -e "s|^NETCDF_HEADER=.*|NETCDF_HEADER=$MPI_INCLUDE/netcdf_par.h|" pbdNCDF4/configure
# Without --no-test-load, it fails, claiming there's no pbdMPI package,
# but the built result works.
OMPI_MCA_orte_allocation_required=0 \
%{_bindir}/R CMD INSTALL --no-test-load \
  "--configure-args=--enable-parallel --with-nc-config=$MPI_BIN/nc-config" \
  -l %{buildroot}%{rlibdir} %{packname}
test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so)
rm -f %{buildroot}%{rlibdir}/R.css

%check
%_openmpi_load
OMPI_MCA_orte_allocation_required=0 \
%{_bindir}/R CMD check --no-install %{packname}


%files
%dir %{rlibdir}/%{packname}
%doc %{rlibdir}/%{packname}/doc
%doc %{rlibdir}/%{packname}/html
%doc %{rlibdir}/%{packname}/DESCRIPTION
%doc %{rlibdir}/%{packname}/CITATION
%{rlibdir}/%{packname}/INDEX
%{rlibdir}/%{packname}/NAMESPACE
%{rlibdir}/%{packname}/Meta
%{rlibdir}/%{packname}/R
%{rlibdir}/%{packname}/help
%{rlibdir}/%{packname}/R.*
%{rlibdir}/%{packname}/demo
%{rlibdir}/%{packname}/etc
%{rlibdir}/%{packname}/libs


%changelog
* Tue May 25 2021 Dave Love <loveshack@fedoraproject.org> - 0.1.6-1
- New version
- Fetch from github
- Remove el6 conditionals

* Sat Aug 20 2016 Dave Love <loveshack@fedoraproject.org> - 0.1.4-3
- Avoid parallel version on el6 (no netcdf-openmpi)
- Replace patch with one to use netcdf_par.h

* Wed Aug 17 2016 Dave Love <loveshack@fedoraproject.org> - 0.1.4-2
- Clean spec for el6+

* Sat Nov 22 2014 Dave Love <d.love@liverpool.ac.uk> - 0.1.4-1
- initial package for Fedora
- Patch for mpi build error