CVS commit: pkgsrc/parallel/openmpi

To: pkgsrc-changes%NetBSD.org@localhost
Subject: CVS commit: pkgsrc/parallel/openmpi
From: "Adam Ciarcinski" <adam%netbsd.org@localhost>
Date: Thu, 4 Jan 2018 20:31:28 +0000

Module Name:    pkgsrc
Committed By:   adam
Date:           Thu Jan  4 20:31:28 UTC 2018

Modified Files:
        pkgsrc/parallel/openmpi: DESCR Makefile PLIST distinfo options.mk

Log Message:
openmpi: updated to 1.10.7

1.10.7:
- Fix bug in TCP BTL that impacted performance on 10GbE (and faster)
  networks by not adjusting the TCP send/recv buffer sizes and using
  system default values
- Add missing MPI_AINT_ADD and MPI_AINT_DIFF function delcarations in
  mpif.h
- Fixed time reported by MPI_WTIME; it was previously reported as
  dependent upon the CPU frequency.
- Fix platform detection on FreeBSD
- Fix a bug in the handling of MPI_TYPE_CREATE_DARRAY in
  MPI_(R)(GET_)ACCUMULATE
- Fix openib memory registration limit calculation
- Add missing MPI_T_PVAR_SESSION_NULL in mpi.h
- Fix "make distcheck" when using external hwloc and/or libevent packages
- Add latest ConnectX-5 vendor part id to OpenIB device params
- Fix race condition in the UCX PML
- Fix signal handling for rsh launcher
- Fix Fortran compilation errors by removing MPI_SIZEOF in the Fortran
  interfaces when the compiler does not support it
- Fixes for the pre-ignore-TKR "mpi" Fortran module implementation
  (i.e., for older Fortran compilers -- these problems did not exist
  in the "mpi" module implementation for modern Fortran compilers):
  - Add PMPI_* interfaces
  - Fix typo in MPI_FILE_WRITE_AT_ALL_BEGIN interface name
  - Fix typo in MPI_FILE_READ_ORDERED_BEGIN interface name
- Fixed the type of MPI_DISPLACEMENT_CURRENT in all Fortran interfaces
  to be an INTEGER(KIND=MPI_OFFSET_KIND).
- Fixed typos in MPI_INFO_GET_* man pages.  Thanks to Nicolas Joly for
  the patch
- Fix typo bugs in wrapper compiler script


To generate a diff of this commit:
cvs rdiff -u -r1.3 -r1.4 pkgsrc/parallel/openmpi/DESCR
cvs rdiff -u -r1.37 -r1.38 pkgsrc/parallel/openmpi/Makefile
cvs rdiff -u -r1.18 -r1.19 pkgsrc/parallel/openmpi/PLIST \
    pkgsrc/parallel/openmpi/distinfo
cvs rdiff -u -r1.9 -r1.10 pkgsrc/parallel/openmpi/options.mk

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

Modified files:

Index: pkgsrc/parallel/openmpi/DESCR
diff -u pkgsrc/parallel/openmpi/DESCR:1.3 pkgsrc/parallel/openmpi/DESCR:1.4
--- pkgsrc/parallel/openmpi/DESCR:1.3   Mon Apr  8 18:29:41 2013
+++ pkgsrc/parallel/openmpi/DESCR       Thu Jan  4 20:31:28 2018
@@ -1,15 +1,11 @@
-The Open MPI Project is an open source MPI-2 implementation
-that is developed and maintained by a consortium of academic,
-research, and industry partners. Open MPI is therefore able to
-combine the expertise, technologies, and resources from all
-across the High Performance Computing community in order to
-build the best MPI library available. Open MPI offers advantages
-for system and software vendors, application developers and
-computer science researchers.
-
-Features implemented or in short-term development for Open MPI
-include:
+The Open MPI Project is an open source MPI-2 implementation that is developed
+and maintained by a consortium of academic, research, and industry partners.
+Open MPI is therefore able to combine the expertise, technologies, and
+resources from all across the High Performance Computing community in order to
+build the best MPI library available. Open MPI offers advantages for system and
+software vendors, application developers and computer science researchers.
 
+Features implemented or in short-term development for Open MPI include:
   - Full MPI-2 standards conformance
   - Thread safety and concurrency
   - Dynamic process spawning

Index: pkgsrc/parallel/openmpi/Makefile
diff -u pkgsrc/parallel/openmpi/Makefile:1.37 pkgsrc/parallel/openmpi/Makefile:1.38
--- pkgsrc/parallel/openmpi/Makefile:1.37       Mon Jan  1 18:16:38 2018
+++ pkgsrc/parallel/openmpi/Makefile    Thu Jan  4 20:31:28 2018
@@ -1,6 +1,6 @@
-# $NetBSD: Makefile,v 1.37 2018/01/01 18:16:38 rillig Exp $
+# $NetBSD: Makefile,v 1.38 2018/01/04 20:31:28 adam Exp $
 
-DISTNAME=      openmpi-1.10.4
+DISTNAME=      openmpi-1.10.7
 CATEGORIES=    parallel
 MASTER_SITES=  http://www.open-mpi.org/software/ompi/v1.10/downloads/
 EXTRACT_SUFX=  .tar.bz2
@@ -8,34 +8,34 @@ EXTRACT_SUFX= .tar.bz2
 MAINTAINER=    asau%inbox.ru@localhost
 HOMEPAGE=      http://www.open-mpi.org/
 COMMENT=       Open source MPI-3.1 implementation
+LICENSE=       modified-bsd
 
-GNU_CONFIGURE=         yes
-USE_LANGUAGES=         c c++ fortran77
+CONFLICTS=     mpich-[0-9]*
+
+USE_LANGUAGES=         c c++
 USE_LIBTOOL=           yes
+USE_TOOLS+=            perl:run
+GNU_CONFIGURE=         yes
+CONFIGURE_ARGS+=       --without-slurm
+CONFIGURE_ARGS+=       --enable-contrib-no-build=vt # in separate package
+CONFIGURE_ARGS+=       --with-libltdl=${BUILDLINK_PREFIX.libltdl}
+CONFIGURE_ARGS+=       --with-hwloc=${BUILDLINK_PREFIX.hwloc}
+CONFIGURE_ARGS+=       --with-wrapper-ldflags="-L${PREFIX}/lib ${LINKER_RPATH_FLAG}${PREFIX}/lib"
+CONFIGURE_ARGS+=       OPAL_HAVE_LTDL_ADVISE=0
 LIBTOOL_OVERRIDE=      ${WRKSRC}/libtool \
                        ${WRKSRC}/ompi/contrib/vt/vt/extlib/otf/libtool \
                        ${WRKSRC}/ompi/contrib/vt/vt/libtool \
                        ${WRKSRC}/ompi/mca/io/romio/romio/libtool
 SHLIBTOOL_OVERRIDE=    ${WRKSRC}/config/libtool.m4
 
-CONFIGURE_ARGS+=       --without-slurm
-CONFIGURE_ARGS+=       --enable-contrib-no-build=vt # in separate package
-CONFIGURE_ARGS+=       --with-libltdl=${BUILDLINK_PREFIX.libltdl:Q} # use our libltdl
-CONFIGURE_ARGS+=       --with-hwloc=${BUILDLINK_PREFIX.hwloc:Q} #external
-CONFIGURE_ARGS+=       --with-wrapper-ldflags="-L${PREFIX}/lib ${LINKER_RPATH_FLAG}${PREFIX}/lib"
-CONFIGURE_ENV+=                ompi_cv_f77_have_INTEGERp8=no   # no "INTEGER*8"??
-CONFIGURE_ARGS+=       OPAL_HAVE_LTDL_ADVISE=0
-
-# Prevent detection of OpenMP support in order to make PLIST consistent:
+# Prevent detection of OpenMP support in order to make PLIST consistent
 BUILDLINK_TRANSFORM=   rm:-fopenmp
 
-USE_TOOLS+=            perl:run
-
 .include "options.mk"
 
 TEST_TARGET=   check
 
-PLIST_VARS+=   f08 linux loadleveler oshmem pstattest shm
+PLIST_VARS+=   linux loadleveler oshmem pstattest shm
 PLIST_VARS+=   ignoretkr noignoretkr
 
 .if ${OPSYS} == "Linux"
@@ -44,7 +44,6 @@ PLIST.linux=          yes
 PLIST.loadleveler=     yes
 PLIST.oshmem=          yes
 PLIST.ignoretkr=       yes
-PLIST.f08=             yes
 .elif ${OPSYS} == "AIX"
 PLIST.loadleveler=     yes
 .elif ${OPSYS} == "DragonFly" || ${OPSYS} == "FreeBSD" || \
@@ -53,17 +52,12 @@ PLIST.shm=          yes
 .endif
 .if ${OPSYS} != "Linux"
 PLIST.pstattest=       yes
+.  if ${OPSYS} != "Darwin"
 PLIST.noignoretkr=     yes
+.  endif
 .endif
 
-## Just in case you'll need it...
-# USE_TOOLS+=  aclocal autoconf automake bash perl
-# REPLACE_BASH=        autogen.sh
-
-REPLACE_PERL=   ompi/tools/wrappers/mpijavac.pl.in
-
-# pre-configure:       replace-interpreter
-#      cd $(WRKSRC) && $(BASH) autogen.sh
+REPLACE_PERL=  ompi/tools/wrappers/mpijavac.pl.in
 
 #LIBLTDL_CONVENIENCE_SUBDIR=   opal/libltdl
 #.include "../../devel/libltdl/convenience.mk" # for "test" target to work

Index: pkgsrc/parallel/openmpi/PLIST
diff -u pkgsrc/parallel/openmpi/PLIST:1.18 pkgsrc/parallel/openmpi/PLIST:1.19
--- pkgsrc/parallel/openmpi/PLIST:1.18  Mon Jan  1 22:29:51 2018
+++ pkgsrc/parallel/openmpi/PLIST       Thu Jan  4 20:31:28 2018
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.18 2018/01/01 22:29:51 rillig Exp $
+@comment $NetBSD: PLIST,v 1.19 2018/01/04 20:31:28 adam Exp $
 bin/mpiCC
 bin/mpic++
 bin/mpicc
@@ -36,14 +36,14 @@ ${PLIST.oshmem}bin/shmemrun
 include/mpi-ext.h
 include/mpi.h
 include/mpi_portable_platform.h
-include/mpif-config.h
-include/mpif-constants.h
+${PLIST.f90}include/mpif-config.h
+${PLIST.f90}include/mpif-constants.h
 include/mpif-ext.h
-include/mpif-externals.h
-include/mpif-handles.h
-include/mpif-io-constants.h
-include/mpif-io-handles.h
-include/mpif-sentinels.h
+${PLIST.f90}include/mpif-externals.h
+${PLIST.f90}include/mpif-handles.h
+${PLIST.f90}include/mpif-io-constants.h
+${PLIST.f90}include/mpif-io-handles.h
+${PLIST.f90}include/mpif-sentinels.h
 include/mpif-sizeof.h
 include/mpif.h
 ${PLIST.oshmem}include/mpp/shmem.fh
@@ -95,8 +95,8 @@ lib/libmca_common_sm.la
 lib/libmpi.la
 lib/libmpi_cxx.la
 ${PLIST.java}lib/libmpi_java.la
-lib/libmpi_mpifh.la
-${PLIST.noignoretkr}lib/libmpi_usempi.la
+${PLIST.f90}lib/libmpi_mpifh.la
+${PLIST.f90}${PLIST.noignoretkr}lib/libmpi_usempi.la
 ${PLIST.ignoretkr}lib/libmpi_usempi_ignore_tkr.la
 ${PLIST.f08}lib/libmpi_usempif08.la
 lib/libompitrace.la
@@ -104,8 +104,8 @@ lib/libopen-pal.la
 lib/libopen-rte.la
 ${PLIST.oshmem}lib/liboshmem.la
 ${PLIST.java}lib/mpi.jar
-lib/mpi.mod
-${PLIST.ignoretkr}lib/mpi_ext.mod
+${PLIST.f90}lib/mpi.mod
+${PLIST.f90}${PLIST.ignoretkr}lib/mpi_ext.mod
 ${PLIST.f08}lib/mpi_f08.mod
 ${PLIST.f08}lib/mpi_f08_callbacks.mod
 ${PLIST.f08}lib/mpi_f08_ext.mod
@@ -863,6 +863,7 @@ share/openmpi/help-dash-host.txt
 share/openmpi/help-db-base.txt
 share/openmpi/help-errmgr-base.txt
 share/openmpi/help-ess-base.txt
+share/openmpi/help-ess-hnp.txt
 share/openmpi/help-hostfile.txt
 share/openmpi/help-mca-base.txt
 share/openmpi/help-mca-bml-r2.txt
Index: pkgsrc/parallel/openmpi/distinfo
diff -u pkgsrc/parallel/openmpi/distinfo:1.18 pkgsrc/parallel/openmpi/distinfo:1.19
--- pkgsrc/parallel/openmpi/distinfo:1.18       Sun Oct 23 14:02:28 2016
+++ pkgsrc/parallel/openmpi/distinfo    Thu Jan  4 20:31:28 2018
@@ -1,9 +1,9 @@
-$NetBSD: distinfo,v 1.18 2016/10/23 14:02:28 asau Exp $
+$NetBSD: distinfo,v 1.19 2018/01/04 20:31:28 adam Exp $
 
-SHA1 (openmpi-1.10.4.tar.bz2) = 1676a7da6cc8cde1d46f6296f38d575249b46cd9
-RMD160 (openmpi-1.10.4.tar.bz2) = cea15b9fe8852805a5f8c1591b31907d996587c7
-SHA512 (openmpi-1.10.4.tar.bz2) = 58bcdc48a4d539f2656480751a9d8129597a0460f7b6ecc6f4d0094703c5f1a3f560eaf80b819d902dee91a77a0d21994f6e42728305969647d3170beefe39df
-Size (openmpi-1.10.4.tar.bz2) = 13430203 bytes
+SHA1 (openmpi-1.10.7.tar.bz2) = fe359d8caa4888625308cf03343d913dd5ac6198
+RMD160 (openmpi-1.10.7.tar.bz2) = 6397a59bef49f51d865a7a6f53fc4cf51d317076
+SHA512 (openmpi-1.10.7.tar.bz2) = 9c5470f9959ca37650a59e56fb8343c028422c709876ab9d25a411dd09a07cdde927c45d8f3db1ad524b1f2847fe799471d469fa1efee48f8018b2ff24427ecb
+Size (openmpi-1.10.7.tar.bz2) = 13435131 bytes
 SHA1 (patch-aa) = 6fa20775c6e2abae7c9a2ae858dbb941652beab8
 SHA1 (patch-ai) = 33667fb853caef7ae9a22c7f2e6a016929eb1a13
 SHA1 (patch-aj) = ec79dc2137107d1253e47811c3ea7d00ff988b06

Index: pkgsrc/parallel/openmpi/options.mk
diff -u pkgsrc/parallel/openmpi/options.mk:1.9 pkgsrc/parallel/openmpi/options.mk:1.10
--- pkgsrc/parallel/openmpi/options.mk:1.9      Sun Dec 13 06:49:01 2015
+++ pkgsrc/parallel/openmpi/options.mk  Thu Jan  4 20:31:28 2018
@@ -1,4 +1,4 @@
-# $NetBSD: options.mk,v 1.9 2015/12/13 06:49:01 markd Exp $
+# $NetBSD: options.mk,v 1.10 2018/01/04 20:31:28 adam Exp $
 
 PKG_OPTIONS_VAR=       PKG_OPTIONS.openmpi
 PKG_SUPPORTED_OPTIONS= debug f90 java sge
@@ -9,23 +9,19 @@ PKG_SUPPORTED_OPTIONS=        debug f90 java sg
 CONFIGURE_ARGS+=       --enable-debug
 .endif
 
-PLIST_VARS+=           f90 java sge
+PLIST_VARS+=           f08 f90 java sge
 
 .if !empty(PKG_OPTIONS:Mf90)
+USE_LANGUAGES+=                fortran
 GCC_REQD+=             4.7
 GCCDIR=                        ${PREFIX}/gcc47
-CONFIGURE_ARGS+=       --enable-mpi-f90
-CONFIGURE_ENV+=                FC=${GCCDIR}/bin/gfortran
+CONFIGURE_ARGS+=       --enable-mpi-fortran=yes
 PLIST.f90=             yes
-
-SUBST_CLASSES+=                f90
-SUBST_STAGE.f90=       post-configure
-SUBST_FILES.f90=       ompi/tools/wrappers/mpif90-wrapper-data.txt
-SUBST_SED.f90=         -e 's,^compiler=.*$$,compiler=${GCCDIR}/bin/gfortran,'
-SUBST_SED.f90+=                -e 's,^linker_flags=,linker_flags= -R${GCCDIR}/lib ,'
-SUBST_SED.f90+=                -e 's,^linker_flags=,linker_flags= -L${GCCDIR}/lib ,'
+.  if ${OPSYS} == "Darwin" || ${OPSYS} == "Linux"
+PLIST.f08=             yes
+.  endif
 .else
-CONFIGURE_ARGS+=       --disable-mpi-f90
+CONFIGURE_ARGS+=       --enable-mpi-fortran=no
 .endif
 
 .if !empty(PKG_OPTIONS:Mjava)
@@ -37,7 +33,7 @@ CONFIGURE_ARGS+=      --disable-mpi-java
 .endif
 
 .if !empty(PKG_OPTIONS:Msge)
-CONFIGURE_ARGS+=        --with-sge
+CONFIGURE_ARGS+=       --with-sge
 PLIST.sge=             yes
 .else
 CONFIGURE_ARGS+=       --without-sge

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