New port: misc/adios2: Next generation of ADIOS developed in the Exascale Computing Program

svn path=/head/; revision=507507

misc/Makefile

@@ -8,6 +8,7 @@
     SUBDIR += achievo
     SUBDIR += aclgen
     SUBDIR += actiona
+    SUBDIR += adios2
     SUBDIR += amanda-client
     SUBDIR += amanda-perl-wrapper
     SUBDIR += amanda-server

misc/adios2/Makefile

@@ -0,0 +1,32 @@
+# $FreeBSD$
+
+PORTNAME=	adios2
+DISTVERSIONPREFIX=	v
+DISTVERSION=	2.4.0
+CATEGORIES=	misc science
+
+MAINTAINER=	yuri@FreeBSD.org
+COMMENT=	Next generation of ADIOS developed in the Exascale Computing Program
+
+LICENSE=	APACHE20
+LICENSE_FILE=	${WRKSRC}/LICENSE
+
+BUILD_DEPENDS=	bash:shells/bash
+LIB_DEPENDS=	libblosc.so:archivers/c-blosc \
+		libfabric.so:net/libfabric \
+		libffi.so:devel/libffi \
+		libmpi.so:net/openmpi \
+		libpng16.so:graphics/png \
+		libzfp.so:devel/zfp
+RUN_DEPENDS=	bash:shells/bash
+
+USES=		bison cmake pkgconfig perl5 python shebangfix
+SHEBANG_FILES=	cmake/install/post/adios2-config.pre.sh.in cmake/install/post/generate-adios2-config.sh.in source/utils/bp4dbg/bp4dbg.py
+USE_GITHUB=	yes
+GH_ACCOUNT=	ornladios
+GH_PROJECT=	ADIOS2
+USE_LDCONFIG=	yes
+
+CMAKE_OFF=	BUILD_TESTING
+
+.include <bsd.port.mk>

misc/adios2/distinfo

@@ -0,0 +1,3 @@
+TIMESTAMP = 1564305208
+SHA256 (ornladios-ADIOS2-v2.4.0_GH0.tar.gz) = 50ecea04b1e41c88835b4b3fd4e7bf0a0a2a3129855c9cc4ba6cf6a1575106e2
+SIZE (ornladios-ADIOS2-v2.4.0_GH0.tar.gz) = 5563369

misc/adios2/files/patch-source_adios2_toolkit_profiling_taustubs_tautimer.cpp

@@ -0,0 +1,30 @@
+--- source/adios2/toolkit/profiling/taustubs/tautimer.cpp.orig	2019-07-28 09:15:02 UTC
++++ source/adios2/toolkit/profiling/taustubs/tautimer.cpp
+@@ -21,6 +21,9 @@
+ #include <sys/syscall.h>
+ #include <sys/types.h>
+ #include <thread>
++#if defined(__FreeBSD__) || defined(__DragonFly__)
++#include <pthread_np.h>
++#endif
+ 
+ /* Clean assertion handling */
+ inline void _tautimer_assert(const char *expression, const char *file, int line)
+@@ -204,6 +207,8 @@ TauTimer::TauTimer(void) : initialized(false)
+ #if defined(__APPLE__) && defined(__MACH__)
+     // why should Apple support gettid? BE DIFFERENT, BABY!
+     pthread_threadid_np(NULL, &mytid);
++#elif defined(__FreeBSD__) || defined(__DragonFly__)
++    mytid = pthread_getthreadid_np();
+ #else
+     mytid = (uint64_t)syscall(__NR_gettid);
+ #endif
+@@ -232,6 +237,8 @@ inline void TauTimer::_RegisterThread(void)
+ #if defined(__APPLE__) && defined(__MACH__)
+         // why should Apple support gettid? BE DIFFERENT, BABY!
+         pthread_threadid_np(NULL, &mytid);
++#elif defined(__FreeBSD__) || defined(__DragonFly__)
++        mytid = pthread_getthreadid_np();
+ #else
+         mytid = (uint64_t)syscall(__NR_gettid);
+ #endif

misc/adios2/pkg-descr

@@ -0,0 +1,21 @@
+The Adaptable Input/Output (I/O) System, ADIOS 2 is developed as part of the
+United States Department of Energy's Exascale Computing Program.
+
+ADIOS 2 is a framework designed for scientific data I/O to publish and subscribe
+(put/get) data when and where required.
+
+ADIOS 2 transports data as groups of self-describing variables and attributes
+across different media types (such as files, wide-area-networks, and remote
+direct memory access) using a common application programming interface for all
+transport modes. ADIOS 2 can be used on supercomputers, commercial clouds, and
+personal computers.
+
+ADIOS 2 focuses on:
+* Performance I/O scalability in high performance computing (HPC) applications.
+* Adaptability unified interfaces to allow for several modes of transport
+  (files, memory-to-memory)
+* Ease of Use two-level application programming interface (APIs)
+* Full APIs for HPC applications: C++11, Fortran 90, C 99, Python 2 and 3
+* Simplified High-Level APIs for data analysis: Python 2 and 3, C++11, Matlab
+
+WWW: https://github.com/ornladios/ADIOS2

misc/adios2/pkg-plist

@@ -0,0 +1,136 @@
+bin/adios2-config
+bin/adios_iotest
+bin/adios_reorganize
+bin/bp4dbg/bp4dbg.py
+bin/bp4dbg/bp4dbg_data.py
+bin/bp4dbg/bp4dbg_idxtable.py
+bin/bp4dbg/bp4dbg_metadata.py
+bin/bp4dbg/bp4dbg_utils.py
+bin/bpls
+bin/sst_conn_tool
+include/adios2.h
+include/adios2/c/adios2_c_adios.h
+include/adios2/c/adios2_c_attribute.h
+include/adios2/c/adios2_c_engine.h
+include/adios2/c/adios2_c_io.h
+include/adios2/c/adios2_c_operator.h
+include/adios2/c/adios2_c_types.h
+include/adios2/c/adios2_c_variable.h
+include/adios2/common/ADIOSConfig.h
+include/adios2/common/ADIOSMacros.h
+include/adios2/common/ADIOSTypes.h
+include/adios2/common/ADIOSTypes.inl
+include/adios2/cxx11/ADIOS.h
+include/adios2/cxx11/ADIOS.inl
+include/adios2/cxx11/Attribute.h
+include/adios2/cxx11/Engine.h
+include/adios2/cxx11/IO.h
+include/adios2/cxx11/Operator.h
+include/adios2/cxx11/Types.h
+include/adios2/cxx11/Variable.h
+include/adios2/cxx11/fstream/ADIOS2fstream.h
+include/adios2/toolkit/sst/SSTConfig.h
+include/adios2_c.h
+lib/cmake/adios2/CMakeFindDependencyMacro.cmake
+lib/cmake/adios2/FindBZip2.cmake
+lib/cmake/adios2/FindBlosc.cmake
+lib/cmake/adios2/FindCrayDRC.cmake
+lib/cmake/adios2/FindHDF5.cmake
+lib/cmake/adios2/FindLIBFABRIC.cmake
+lib/cmake/adios2/FindMGARD.cmake
+lib/cmake/adios2/FindMPI.cmake
+lib/cmake/adios2/FindPkgConfig.cmake
+lib/cmake/adios2/FindPythonFull.cmake
+lib/cmake/adios2/FindPythonModule.cmake
+lib/cmake/adios2/FindSZ.cmake
+lib/cmake/adios2/FindZFP.cmake
+lib/cmake/adios2/FindZeroMQ.cmake
+lib/cmake/adios2/adios2-config-common.cmake
+lib/cmake/adios2/adios2-config-version.cmake
+lib/cmake/adios2/adios2-config.cmake
+lib/cmake/adios2/adios2-targets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/adios2/adios2-targets.cmake
+lib/cmake/adios2/thirdparty/EVPathConfig.cmake
+lib/cmake/adios2/thirdparty/EVPathConfigCommon.cmake
+lib/cmake/adios2/thirdparty/EVPathConfigVersion.cmake
+lib/cmake/adios2/thirdparty/EVPathTargets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/adios2/thirdparty/EVPathTargets.cmake
+lib/cmake/adios2/thirdparty/FindBinUtils.cmake
+lib/cmake/adios2/thirdparty/FindCERCSProject.cmake
+lib/cmake/adios2/thirdparty/FindIBVERBS.cmake
+lib/cmake/adios2/thirdparty/FindLIBFABRIC.cmake
+lib/cmake/adios2/thirdparty/FindLibFFI.cmake
+lib/cmake/adios2/thirdparty/FindNNTI.cmake
+lib/cmake/adios2/thirdparty/FindNVML.cmake
+lib/cmake/adios2/thirdparty/FindPkgConfig.cmake
+lib/cmake/adios2/thirdparty/atl-config-version.cmake
+lib/cmake/adios2/thirdparty/atl-config.cmake
+lib/cmake/adios2/thirdparty/atl-targets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/adios2/thirdparty/atl-targets.cmake
+lib/cmake/adios2/thirdparty/dill-config-common.cmake
+lib/cmake/adios2/thirdparty/dill-config-version.cmake
+lib/cmake/adios2/thirdparty/dill-config.cmake
+lib/cmake/adios2/thirdparty/dill-targets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/adios2/thirdparty/dill-targets.cmake
+lib/cmake/adios2/thirdparty/enet-config-version.cmake
+lib/cmake/adios2/thirdparty/enet-config.cmake
+lib/cmake/adios2/thirdparty/enet-targets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/adios2/thirdparty/enet-targets.cmake
+lib/cmake/adios2/thirdparty/ffs-config-version.cmake
+lib/cmake/adios2/thirdparty/ffs-config.cmake
+lib/cmake/adios2/thirdparty/ffs-targets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/adios2/thirdparty/ffs-targets.cmake
+lib/cmake/adios2/thirdparty/upstream/FindPkgConfig.cmake
+lib/cmake/adios2/upstream/CMakeFindDependencyMacro.cmake
+lib/cmake/adios2/upstream/FindBZip2.cmake
+lib/cmake/adios2/upstream/FindHDF5.cmake
+lib/cmake/adios2/upstream/FindMPI.cmake
+lib/cmake/adios2/upstream/FindMPI/fortranparam_mpi.f90.in
+lib/cmake/adios2/upstream/FindMPI/libver_mpi.c
+lib/cmake/adios2/upstream/FindMPI/libver_mpi.f90.in
+lib/cmake/adios2/upstream/FindMPI/mpiver.f90.in
+lib/cmake/adios2/upstream/FindMPI/test_mpi.c
+lib/cmake/adios2/upstream/FindMPI/test_mpi.cxx
+lib/cmake/adios2/upstream/FindMPI/test_mpi.f90.in
+lib/cmake/adios2/upstream/FindMPI/test_mpi_c.cxx
+lib/cmake/adios2/upstream/FindPkgConfig.cmake
+lib/cmake/adios2/upstream/GoogleTest.cmake
+lib/libadios2.so
+lib/libadios2.so.2
+lib/libadios2.so.2.4.0
+lib/libadios2_atl.so
+lib/libadios2_atl.so.2
+lib/libadios2_atl.so.2.2.1
+lib/libadios2_cmenet.so
+lib/libadios2_cmfabric.so
+lib/libadios2_cmib.so
+lib/libadios2_cmmulticast.so
+lib/libadios2_cmselect.so
+lib/libadios2_cmsockets.so
+lib/libadios2_cmudp.so
+lib/libadios2_dill.so
+lib/libadios2_dill.so.2
+lib/libadios2_dill.so.2.4.0
+lib/libadios2_enet.so
+lib/libadios2_enet.so.1
+lib/libadios2_enet.so.1.3.14
+lib/libadios2_evpath.so
+lib/libadios2_ffs.so
+lib/libadios2_ffs.so.1
+lib/libadios2_ffs.so.1.6.0
+lib/libadios2_sst.so
+lib/libadios2_sst.so.2
+lib/libadios2_sst.so.2.4.0
+lib/libtaustubs.so
+share/iotest-config/coupling2.xml
+share/iotest-config/coupling2_blocking_01_simple.txt
+share/iotest-config/coupling2_blocking_02_dump_result.txt
+share/iotest-config/pipe2.xml
+share/iotest-config/pipe2_01_simple.txt
+share/iotest-config/pipe2_02_link.txt
+share/iotest-config/pipe2_03_conditional.txt
+share/iotest-config/pipe2_04_nonblocking.txt
+share/iotest-config/pipe2_05_add_variables.txt
+share/iotest-config/pipe2_06_busy.txt
+share/iotest-config/wf_2_to_1.txt
+share/iotest-config/wf_2_to_1.xml