build mvapich2-2.3.5-2.tar.gz for RHEL9

Resolves: rhbz#1923559

Signed-off-by: Honggang Li <honli@redhat.com>

.gitignore

@@ -0,0 +1 @@
+/mvapich2-2.3.5-2.tar.gz

gating.yaml

@@ -0,0 +1,11 @@
+--- !Policy
+
+product_versions:
+
+  - rhel-8
+
+decision_context: osci_compose_gate
+
+rules:
+
+  - !PassingTestCaseRule {test_case_name: osci.brew-build.tier0.functional}

mvapich2.macros.in

@@ -0,0 +1,6 @@
+%_@MACRONAME@_load \
+ . /etc/profile.d/modules.sh; \
+ module load mpi/@MODULENAME@;
+%_@MACRONAME@_unload \
+ . /etc/profile.d/modules.sh; \
+ module unload mpi/@MODULENAME@;

mvapich2.module.in

@@ -0,0 +1,22 @@
+#%Module 1.0
+#
+#  OpenMPI module for use with 'environment-modules' package:
+#
+conflict		mpi
+prepend-path 		PATH 		@LIBDIR@/bin
+prepend-path 		LD_LIBRARY_PATH @LIBDIR@/lib
+prepend-path 		PKG_CONFIG_PATH	@LIBDIR@/lib/pkgconfig
+prepend-path		PYTHONPATH	@PYSITEARCH@
+prepend-path		MANPATH		@MANDIR@
+setenv 			MPI_BIN		@LIBDIR@/bin
+setenv			MPI_SYSCONFIG	@ETCDIR@
+setenv			MPI_FORTRAN_MOD_DIR	@FMODDIR@
+setenv			MPI_INCLUDE	@INCDIR@
+setenv	 		MPI_LIB		@LIBDIR@/lib
+setenv			MPI_MAN		@MANDIR@
+setenv			MPI_PYTHON_SITEARCH	@PYSITEARCH@
+setenv			MPI_PYTHON2_SITEARCH	@PYSITEARCH@
+setenv			MPI_PYTHON3_SITEARCH	@PYSITEARCH@
+setenv			MPI_COMPILER	@COMPILER@
+setenv			MPI_SUFFIX	@SUFFIX@
+setenv	 		MPI_HOME	@LIBDIR@

mvapich2.spec

@@ -0,0 +1,214 @@
+%{!?python3_sitearch: %global python3_sitearch %(%{__python3} -c "from distutils.sysconfig import get_python_lib; print get_python_lib(1)")}
+
+Name:    mvapich2
+Version: 2.3.5
+Release: 2%{?dist}
+Summary: OSU MVAPICH2 MPI package
+Group:   Development/Libraries
+# Richard Fontana wrote in https://bugzilla.redhat.com/show_bug.cgi?id=1333114:
+## The mvapich2 source code is predominantly 3-clause BSD with a smattering of
+## 2-clause BSD, MIT and proto-MIT licensed source code. Under the license
+## abbreviation system inherited from Fedora that set of licenses is adequately
+## described as 'BSD and MIT'.
+## There are a couple of source files that indicate they are taken from glibc
+## with LGPL license notices, but context strongly suggests that the author of
+## that particular code placed it under the MIT license (which is consistent
+## with the approach to copyright assignment in glibc in which the author
+## receives a broad grant-back license permitting sublicensing under terms
+## other than LGPL).
+License: BSD and MIT
+URL:     http://mvapich.cse.ohio-state.edu
+Source:  http://mvapich.cse.ohio-state.edu/download/mvapich/mv2/%{name}-%{version}-2.tar.gz
+Source1: mvapich2.module.in
+Source2: mvapich2.macros.in
+# We delete bundled stuff in the prep step. The *-unbundle-* patches adjust
+# the configure scripts and Makefiles accordingly.
+Patch1:  unbundle-contrib-hwloc-and-osu_benchmarks.patch
+
+BuildRequires: gcc-gfortran, gcc-c++
+BuildRequires: libibumad-devel, libibverbs-devel >= 1.1.3, librdmacm-devel
+BuildRequires: python3-devel, perl-Digest-MD5, hwloc-devel, rdma-core-devel
+BuildRequires: bison, flex
+BuildRequires: autoconf, automake, libtool
+BuildRequires: rpm-mpi-hooks, rdma-core-devel, infiniband-diags-devel
+ExcludeArch: s390 s390x
+Provides:  mpi
+Requires:  environment-modules
+
+%global common_desc MVAPICH2 is a Message Passing Interface (MPI 3.0) implementation based on MPICH\
+and developed by Ohio State University.
+
+%description
+%{common_desc}
+
+%package devel
+Summary:   Development files for %{name}
+Group:     Development/Libraries
+Provides:  mpi-devel
+Requires:  librdmacm-devel, libibverbs-devel, libibumad-devel
+Requires:  %{name}%{?_isa} = %{version}-%{release}
+Requires:  gcc-gfortran
+
+%description devel
+Contains development headers and libraries for %{name}.
+
+%package doc
+Summary:   Documentation files for mvapich2
+Group:     Documentation
+BuildArch: noarch
+
+%description doc
+Additional documentation for mvapich2.
+
+%prep
+%setup -q -n mvapich2-2.3.5-2
+%patch1 -p1
+# bundled hwloc, knem kernel module
+rm -r contrib/
+# limic kernel module
+rm -r limic2-0.5.6/
+# bundled OSU benchmarks
+rm -r osu_benchmarks/
+
+# Remove rpath, part 1
+find . -name configure -exec \
+    sed -i -r 's/(hardcode_into_libs)=.*$/\1=no/' '{}' ';'
+
+%build
+%set_build_flags
+export FFLAGS="$FFLAGS -fallow-argument-mismatch"
+
+export AR=ar
+
+%global variant %{name}
+%global libname %{variant}
+%global namearch %{variant}-%{_arch}
+
+./configure \
+    --prefix=%{_libdir}/%{libname} \
+    --exec-prefix=%{_libdir}/%{libname} \
+    --bindir=%{_libdir}/%{libname}/bin \
+    --sbindir=%{_libdir}/%{libname}/bin \
+    --libdir=%{_libdir}/%{libname}/lib \
+    --mandir=%{_mandir}/%{namearch} \
+    --includedir=%{_includedir}/%{namearch} \
+    --sysconfdir=%{_sysconfdir}/%{namearch} \
+    --datarootdir=%{_datadir}/%{libname} \
+    --docdir=%{_docdir}/%{name} \
+    --enable-error-checking=runtime \
+    --enable-timing=none \
+    --enable-g=mem,dbg,meminit \
+    --enable-fast=all \
+    --enable-shared \
+    --enable-static \
+    --enable-fortran=all \
+    --enable-cxx \
+    --disable-silent-rules \
+    --disable-wrapper-rpath \
+    --with-hwloc=v2
+
+# Remove rpath, part 2
+find . -name libtool -exec \
+    sed -i 's|^hardcode_libdir_flag_spec=.*|hardcode_libdir_flag_spec=""|g;
+            s|^runpath_var=LD_RUN_PATH|runpath_var=DIE_RPATH_DIE|g' '{}' ';'
+make %{?_smp_mflags}
+
+
+%install
+finish_install() {
+	local VARIANT="$1"
+	local LIBNAME="$VARIANT"
+	local NAMEARCH="$VARIANT-%{_arch}"
+
+	local MODULE_TEMPLATE="$2"
+	local MACROS_TEMPLATE="$3"
+	local FORTRAN_SUBDIR_SUFFIX="$4"
+
+	find %{buildroot}%{_libdir}/$LIBNAME/lib -name \*.la -delete
+
+	mkdir -p %{buildroot}%{_mandir}/$NAMEARCH/man{2,4,5,6,7,8,9,n}
+	mkdir -p %{buildroot}/%{_fmoddir}/$LIBNAME$FORTRAN_SUBDIR_SUFFIX
+	mkdir -p %{buildroot}/%{python3_sitearch}/$LIBNAME
+
+	# Make the environment-modules file
+	mkdir -p %{buildroot}%{_sysconfdir}/modulefiles/mpi
+	sed "s#@LIBDIR@#%{_libdir}/$LIBNAME#g;
+	     s#@ETCDIR@#%{_sysconfdir}/$NAMEARCH#g;
+	     s#@FMODDIR@#%{_fmoddir}/$LIBNAME$FORTRAN_SUBDIR_SUFFIX#g;
+	     s#@INCDIR@#%{_includedir}/$NAMEARCH#g;
+	     s#@MANDIR@#%{_mandir}/$NAMEARCH#g;
+	     s#@PYSITEARCH@#%{python3_sitearch}/$LIBNAME#g;
+	     s#@COMPILER@#$NAMEARCH#g;
+	     s#@SUFFIX@#_$VARIANT#g" \
+		< $MODULE_TEMPLATE \
+		> %{buildroot}%{_sysconfdir}/modulefiles/mpi/$NAMEARCH
+
+	# make the rpm config file
+	mkdir -p %{buildroot}%{_sysconfdir}/rpm
+	# do not expand _arch
+	sed "s#@MACRONAME@#${LIBNAME//[-.]/_}#g;
+	     s#@MODULENAME@#$NAMEARCH#" \
+		< $MACROS_TEMPLATE \
+		> %{buildroot}/%{_sysconfdir}/rpm/macros.$NAMEARCH
+}
+
+# 'make install' fails to mkdir docdir by itself before installing index.html
+mkdir -p %{buildroot}%{_docdir}/%{name}
+
+%make_install
+finish_install %{name} %SOURCE1 %SOURCE2 ""
+
+%global variant %{name}
+%global libname %{variant}
+%global namearch %{variant}-%{_arch}
+
+%files
+%dir %{_libdir}/%{libname}
+%dir %{_libdir}/%{libname}/bin
+%dir %{_libdir}/%{libname}/lib
+%dir %{_mandir}/%{namearch}
+%dir %{_mandir}/%{namearch}/man*
+%dir %{_fmoddir}/%{libname}
+%dir %{python3_sitearch}/%{libname}
+
+%{_libdir}/%{libname}/bin/hydra_nameserver
+%{_libdir}/%{libname}/bin/hydra_persist
+%{_libdir}/%{libname}/bin/hydra_pmi_proxy
+%{_libdir}/%{libname}/bin/mpichversion
+%{_libdir}/%{libname}/bin/mpiexec
+%{_libdir}/%{libname}/bin/mpiexec.hydra
+%{_libdir}/%{libname}/bin/mpiexec.mpirun_rsh
+%{_libdir}/%{libname}/bin/mpiname
+%{_libdir}/%{libname}/bin/mpirun
+%{_libdir}/%{libname}/bin/mpirun_rsh
+%{_libdir}/%{libname}/bin/mpispawn
+%{_libdir}/%{libname}/bin/mpivars
+%{_libdir}/%{libname}/bin/parkill
+%{_libdir}/%{libname}/lib/*.so.*
+%{_mandir}/%{namearch}/man1/hydra_*
+%{_mandir}/%{namearch}/man1/mpiexec.*
+%{_sysconfdir}/modulefiles/mpi/%{namearch}
+
+%files devel
+%dir %{_includedir}/%{namearch}
+%{_sysconfdir}/rpm/macros.%{namearch}
+%{_includedir}/%{namearch}/*
+%{_libdir}/%{libname}/bin/mpic++
+%{_libdir}/%{libname}/bin/mpicc
+%{_libdir}/%{libname}/bin/mpicxx
+%{_libdir}/%{libname}/bin/mpif77
+%{_libdir}/%{libname}/bin/mpif90
+%{_libdir}/%{libname}/bin/mpifort
+%{_libdir}/%{libname}/lib/pkgconfig
+%{_libdir}/%{libname}/lib/*.a
+%{_libdir}/%{libname}/lib/*.so
+%{_mandir}/%{namearch}/man1/mpi[cf]*
+%{_mandir}/%{namearch}/man3/*
+
+%files doc
+%{_docdir}/%{name}
+
+%changelog
+* Wed Feb 17 2021 Honggang Li <honli@redhat.com> - 2.3.5-2
+- build mvapich2-2.3.5-2.tar.gz for RHEL9
+- Resolves: rhbz#1923559

sources

@@ -0,0 +1 @@
+SHA512 (mvapich2-2.3.5-2.tar.gz) = 8873dd0b3484c2d63d6f72b0860cfb31454069adc87936986d2e53b990c0a9e93b6786552e981809d627bd8e886310908e05eb62604a4ff3837d527ec58d44e9

tests/run_tests.sh

@@ -0,0 +1,10 @@
+#!/bin/bash
+
+# when running this in 1minutetip the PATH must be specified to execute
+# in the local directory.
+echo "Setting path to local directory"
+PATH=$PATH:$(pwd)
+
+# simple sanity test
+sanity.sh
+exit $?

tests/sanity.sh

@@ -0,0 +1,17 @@
+#!/bin/bash
+#
+# This is a simple sanity test to satisfy the RHEL8.1 onboard gating
+# requirement.
+
+ret=$?
+source /etc/profile.d/modules.sh
+
+module load mpi/mvapich2-x86_64
+
+mpichversion
+let ret=$ret+$?
+
+mpirun hostname
+let ret=$ret+$?
+
+exit $ret

tests/tests.yml

@@ -0,0 +1,12 @@
+- hosts: localhost
+  roles:
+    - role: standard-test-basic
+      tags:
+        - classic
+      tests:
+        - simple:
+            dir: .                                 # switch to subfolder. This parameter is REQUIRED, use `dir: .` for current folder
+            run: ./run_tests.sh                             # this is your test command, its exit code is the outcome of the test
+      required_packages:
+        - environment-modules
+        - mvapich2

unbundle-contrib-hwloc-and-osu_benchmarks.patch

@@ -0,0 +1,25 @@
+diff --git a/Makefile.in b/Makefile.in
+index 9e2d9bde248f..789a69723c9e 100644
+--- a/Makefile.in
++++ b/Makefile.in
+@@ -3050,13 +3050,13 @@ bin_PROGRAMS = $(am__EXEEXT_1) src/env/mpichversion$(EXEEXT) \
+ @BUILD_F77_BINDING_TRUE@@BUILD_PROFILING_LIB_TRUE@am__append_184 = -DMPICH_MPI_FROM_PMPI -DUSE_ONLY_MPI_NAMES
+ @BUILD_F77_BINDING_TRUE@@BUILD_FC_BINDING_TRUE@am__append_185 = $(mpi_fc_sources)
+ @BUILD_CXX_BINDING_TRUE@am__append_186 = lib/lib@MPICXXLIBNAME@.la
+-@BUILD_HWLOC_v1_TRUE@@BUILD_OSU_MVAPICH_TRUE@am__append_187 = contrib/hwloc_v1
+-@BUILD_HWLOC_v1_FALSE@@BUILD_OSU_MVAPICH_TRUE@am__append_188 = contrib/hwloc_v2
+-@BUILD_OSU_MVAPICH_TRUE@am__append_189 = src/env/mpiname src/util/mv2_ckpt_rebuild osu_benchmarks
+-@BUILD_HWLOC_v1_TRUE@@BUILD_OSU_MVAPICH_TRUE@am__append_190 = -Icontrib/hwloc_v1/include/ -I$(top_srcdir)/contrib/hwloc_v1/include
+-@BUILD_HWLOC_v1_TRUE@@BUILD_OSU_MVAPICH_TRUE@am__append_191 = contrib/hwloc_v1/src/libhwloc_embedded.la
+-@BUILD_HWLOC_v1_FALSE@@BUILD_OSU_MVAPICH_TRUE@am__append_192 = -Icontrib/hwloc_v2/include/ -I$(top_srcdir)/contrib/hwloc_v2/include
+-@BUILD_HWLOC_v1_FALSE@@BUILD_OSU_MVAPICH_TRUE@am__append_193 = contrib/hwloc_v2/hwloc/libhwloc_embedded.la
++@BUILD_HWLOC_v1_TRUE@@BUILD_OSU_MVAPICH_TRUE@am__append_187 =
++@BUILD_HWLOC_v1_FALSE@@BUILD_OSU_MVAPICH_TRUE@am__append_188 =
++@BUILD_OSU_MVAPICH_TRUE@am__append_189 = src/env/mpiname src/util/mv2_ckpt_rebuild
++@BUILD_HWLOC_v1_TRUE@@BUILD_OSU_MVAPICH_TRUE@am__append_190 =
++@BUILD_HWLOC_v1_TRUE@@BUILD_OSU_MVAPICH_TRUE@am__append_191 = -lhwloc
++@BUILD_HWLOC_v1_FALSE@@BUILD_OSU_MVAPICH_TRUE@am__append_192 =
++@BUILD_HWLOC_v1_FALSE@@BUILD_OSU_MVAPICH_TRUE@am__append_193 = -lhwloc
+ @BUILD_COVERAGE_TRUE@am__append_194 = coverage-clean
+ subdir = .
+ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4