New port: math/hipmcl: High-performance parallel algorithm for large-scale network clustering

svn path=/head/; revision=487566

math/Makefile

@@ -264,6 +264,7 @@
     SUBDIR += grpn
     SUBDIR += gsl
     SUBDIR += hexcalc
+    SUBDIR += hipmcl
     SUBDIR += hs-Agda
     SUBDIR += hs-Agda-stdlib
     SUBDIR += hs-NumInstances

math/hipmcl/Makefile

@@ -0,0 +1,38 @@
+# $FreeBSD$
+
+PORTNAME=	HipMCL
+DISTVERSION=	g20180814
+CATEGORIES=	math
+MASTER_SITES=	https://bitbucket.org/${BB_ACCOUNT}/${BB_PROJECT}/get/${BB_COMMIT}.tar.gz?dummy=/
+
+MAINTAINER=	yuri@FreeBSD.org
+COMMENT=	High-performance parallel algorithm for large-scale network clustering
+
+LICENSE=	BSD3CLAUSE
+LICENSE_FILE=	${WRKSRC}/license.txt
+
+LIB_DEPENDS=	libCombBLAS.so:math/combblas \
+		libmpi.so:net/mpich \
+		libomp.so:devel/openmp
+RUN_DEPENDS=	${LOCALBASE}/lib/gcc${GCC_DEFAULT}/libgcc_s.so.1:lang/gcc${GCC_DEFAULT} # because of the link flags induced by mpich
+
+USES=		cmake:outsource compiler:c++14-lang dos2unix localbase:ldflags
+DOS2UNIX_FILES=	CMakeLists.txt
+
+CMAKE_ON=	BUILD_SHARED_LIBS
+
+BB_ACCOUNT=	azadcse
+BB_PROJECT=	${PORTNAME:tl}
+BB_COMMIT=	e20476acc473
+
+WRKSRC=		${WRKDIR}/${BB_ACCOUNT}-${BB_PROJECT}-${BB_COMMIT}
+
+PLIST_FILES=	bin/${PORTNAME:tl}
+
+post-extract:
+	@${RM} -r ${WRKSRC}/src/CombBLAS
+
+do-install:
+	${INSTALL_PROGRAM} ${BUILD_WRKSRC}/bin/hipmcl ${STAGEDIR}${PREFIX}/bin
+
+.include <bsd.port.mk>

math/hipmcl/distinfo

@@ -0,0 +1,3 @@
+TIMESTAMP = 1544950762
+SHA256 (HipMCL-g20180814.tar.gz) = 324fbe12f3547cd1e3da38d01ea2d6882061821a7cf6a7904e1402759c01e94c
+SIZE (HipMCL-g20180814.tar.gz) = 43337935

math/hipmcl/files/patch-CMakeLists.txt

@@ -0,0 +1,15 @@
+--- CMakeLists.txt.orig	2018-08-14 19:42:54 UTC
++++ CMakeLists.txt
+@@ -30,10 +30,10 @@ else (NOT C14)
+ endif (NOT C14)
+ 
+ 
+-ADD_SUBDIRECTORY( src/CombBLAS ) 
++#ADD_SUBDIRECTORY( src/CombBLAS ) 
+ set(CMAKE_RUNTIME_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/bin)
+ add_executable(hipmcl src/HipMCL.cpp)
+-target_link_libraries(hipmcl CombBLASlib )
++target_link_libraries(hipmcl CombBLAS )
+ 
+ 
+ 

math/hipmcl/pkg-descr

@@ -0,0 +1,16 @@
+HipMCL is a high-performance parallel algorithm for large-scale network
+clustering. HipMCL parallelizes popular Markov Cluster (MCL) algorithm that has
+been shown to be one of the most successful and widely used algorithms for
+network clustering. It is based on random walks and was initially designed to
+detect families in protein-protein interaction networks. Despite MCL's
+efficiency and multi-threading support, scalability remains a bottleneck as it
+fails to process networks of several hundred million nodes and billion edges in
+an affordable running time. HipMCL overcomes all of these challenges by
+developing massively-parallel algorithms for all components of MCL. HipMCL can
+be 1000 times faster than the original MCL without any information loss. It can
+easily cluster a network of ~75 million nodes with ~68 billion edges in ~2.4
+hours using ~2000 nodes of Cori supercomputer at NERSC. HipMCL is developed in
+C++ language and uses standard OpenMP and MPI libraries for shared- and
+distributed-memory parallelization.
+
+WWW: https://bitbucket.org/azadcse/hipmcl/wiki/Home