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-rw-r--r--gnu/packages/maths.scm378
1 files changed, 164 insertions, 214 deletions
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 9fb02b7385..602c696567 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -5,21 +5,21 @@
;;; Copyright © 2014, 2015, 2016, 2017, 2018 Eric Bavier <bavier@member.fsf.org>
;;; Copyright © 2014 Federico Beffa <beffa@fbengineering.ch>
;;; Copyright © 2014 Mathieu Lirzin <mathieu.lirzin@openmailbox.org>
-;;; Copyright © 2015, 2016, 2017, 2018 Ricardo Wurmus <rekado@elephly.net>
+;;; Copyright © 2015, 2016, 2017, 2018, 2019 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2015 Sou Bunnbu <iyzsong@gmail.com>
;;; Copyright © 2015 Mark H Weaver <mhw@netris.org>
;;; Copyright © 2015, 2016, 2017, 2018 Efraim Flashner <efraim@flashner.co.il>
;;; Copyright © 2015 Fabian Harfert <fhmgufs@web.de>
;;; Copyright © 2016 Roel Janssen <roel@gnu.org>
;;; Copyright © 2016, 2018 Kei Kebreau <kkebreau@posteo.net>
-;;; Copyright © 2016, 2017, 2018 Ludovic Courtès <ludo@gnu.org>
+;;; Copyright © 2016, 2017, 2018, 2019 Ludovic Courtès <ludo@gnu.org>
;;; Copyright © 2016 Leo Famulari <leo@famulari.name>
;;; Copyright © 2016, 2017 Thomas Danckaert <post@thomasdanckaert.be>
;;; Copyright © 2017, 2018 Paul Garlick <pgarlick@tourbillion-technology.com>
;;; Copyright © 2017 Nils Gillmann <ng0@n0.is>
;;; Copyright © 2017 Ben Woodcroft <donttrustben@gmail.com>
;;; Copyright © 2017 Theodoros Foradis <theodoros@foradis.org>
-;;; Copyright © 2017 Arun Isaac <arunisaac@systemreboot.net>
+;;; Copyright © 2017, 2019 Arun Isaac <arunisaac@systemreboot.net>
;;; Copyright © 2017, 2018 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2017 Dave Love <me@fx@gnu.org>
;;; Copyright © 2018 Jan Nieuwenhuizen <janneke@gnu.org>
@@ -29,6 +29,7 @@
;;; Copyright © 2018 Marius Bakke <mbakke@fastmail.com>
;;; Copyright © 2018 Eric Brown <brown@fastmail.com>
;;; Copyright © 2018 Julien Lepiller <julien@lepiller.eu>
+;;; Copyright © 2018 Amin Bandali <bandali@gnu.org>
;;;
;;; This file is part of GNU Guix.
;;;
@@ -47,22 +48,23 @@
(define-module (gnu packages maths)
#:use-module (ice-9 regex)
+ #:use-module (ice-9 match)
#:use-module (gnu packages)
#:use-module ((guix licenses) #:prefix license:)
#:use-module (guix packages)
#:use-module (guix download)
#:use-module (guix git-download)
#:use-module (guix utils)
- #:use-module (guix build utils)
+ #:use-module ((guix build utils) #:select (alist-replace))
#:use-module (guix build-system cmake)
#:use-module (guix build-system gnu)
- #:use-module (guix build-system ocaml)
#:use-module (guix build-system python)
#:use-module (guix build-system r)
#:use-module (guix build-system ruby)
#:use-module (gnu packages algebra)
#:use-module (gnu packages audio)
#:use-module (gnu packages autotools)
+ #:use-module (gnu packages base)
#:use-module (gnu packages bison)
#:use-module (gnu packages boost)
#:use-module (gnu packages check)
@@ -97,7 +99,6 @@
#:use-module (gnu packages mpi)
#:use-module (gnu packages multiprecision)
#:use-module (gnu packages netpbm)
- #:use-module (gnu packages ocaml)
#:use-module (gnu packages pcre)
#:use-module (gnu packages popt)
#:use-module (gnu packages perl)
@@ -105,6 +106,7 @@
#:use-module (gnu packages pulseaudio)
#:use-module (gnu packages python)
#:use-module (gnu packages python-web)
+ #:use-module (gnu packages python-xyz)
#:use-module (gnu packages qt)
#:use-module (gnu packages readline)
#:use-module (gnu packages ruby)
@@ -396,33 +398,6 @@ differential equations, linear algebra, Fast Fourier Transforms and random
numbers.")
(license license:gpl3+)))
-(define-public ocaml-gsl
- (package
- (name "ocaml-gsl")
- (version "1.22.0")
- (source
- (origin
- (method url-fetch)
- (uri
- (string-append
- "https://github.com/mmottl/gsl-ocaml/releases/download/"
- version "/gsl-" version ".tbz"))
- (sha256
- (base32
- "17vcswipliq1b2idbzx1z95kskn1a4q4s5v04igilg0f7lnkaarb"))))
- (build-system ocaml-build-system)
- (inputs
- `(("gsl" ,gsl)))
- (home-page "https://mmottl.github.io/gsl-ocaml")
- (synopsis "Bindings to the GNU Scientific Library")
- (description
- "GSL-OCaml is an interface to the @dfn{GNU scientific library} (GSL) for
-the OCaml language.")
- (license license:gpl3+)))
-
-(define-public ocaml4.01-gsl
- (package-with-ocaml4.01 ocaml-gsl))
-
(define-public glpk
(package
(name "glpk")
@@ -1482,11 +1457,10 @@ can solve two kinds of problems:
(modify-phases %standard-phases
(add-after 'configure 'configure-makeinfo
(lambda* (#:key inputs #:allow-other-keys)
- (substitute* "libinterp/corefcn/help.cc"
- (("Vmakeinfo_program = \"makeinfo\"")
- (string-append "Vmakeinfo_program = \""
- (assoc-ref inputs "texinfo")
- "/bin/makeinfo\"")))
+ (substitute* "libinterp/corefcn/help.h"
+ (("\"makeinfo\"")
+ (string-append
+ "\"" (assoc-ref inputs "texinfo") "/bin/makeinfo\"")))
#t)))))
(home-page "https://www.gnu.org/software/octave/")
(synopsis "High-level language for numerical computation")
@@ -2207,12 +2181,12 @@ programming problems.")
(define-public r-pracma
(package
(name "r-pracma")
- (version "2.1.8")
+ (version "2.2.2")
(source (origin
(method url-fetch)
(uri (cran-uri "pracma" version))
(sha256
- (base32 "0m8ladhrfyxwybblkcdgg4xv1mk5kibmwarpj2k0c2y34zzcix4z"))))
+ (base32 "18zhni05gwnxbphl6bmjjxmsgg5wwnnkwlb4g971cqyw3dsd83ki"))))
(build-system r-build-system)
(home-page "https://cran.r-project.org/web/packages/pracma/")
(synopsis "Practical numerical math functions")
@@ -2324,20 +2298,18 @@ also provides threshold-based ILU factorization preconditioners.")
(define-public superlu-dist
(package
(name "superlu-dist")
- (version "5.3.0")
+ (version "6.1.0")
(source
(origin
(method url-fetch)
(uri (string-append "http://crd-legacy.lbl.gov/~xiaoye/SuperLU/"
"superlu_dist_" version ".tar.gz"))
(sha256
- (base32 "0ja5ihqivkda1wd58y4lmzvmwssm9g91f70c5q0fzwhng6580h6y"))
+ (base32 "0pqgcgh1yxhfzs99fas3mggajzd5wca3nbyp878rziy74gfk03dl"))
(modules '((guix build utils)))
(snippet
;; Replace the non-free implementation of MC64 with a stub
'(begin
- (use-modules (ice-9 regex)
- (ice-9 rdelim))
(call-with-output-file "SRC/mc64ad_dist.c"
(lambda (port)
(display "
@@ -2353,92 +2325,57 @@ void mc64ad_dist (int *a, int *b, int *c, int *d, int *e, double *f, int *g,
abort ();
}\n" port)))
(substitute* "SRC/util.c" ;adjust default algorithm
- (("RowPerm[[:blank:]]*=[[:blank:]]*LargeDiag")
- "RowPerm = NOROWPERM"))
+ (("RowPerm[[:blank:]]*=[[:blank:]]*LargeDiag_MC64;")
+ ;; TODO: set to "LargeDiag_AWPM" once combinatorial-blas has
+ ;; general (i.e. non-square) processor-grid support.
+ "RowPerm = NOROWPERM;"))
#t))
- (patches (search-patches "superlu-dist-scotchmetis.patch"))))
- (build-system gnu-build-system)
+ (patches (search-patches "superlu-dist-scotchmetis.patch"
+ "superlu-dist-awpm-grid.patch"))))
+ (build-system cmake-build-system)
(native-inputs
`(("tcsh" ,tcsh)))
(inputs
- `(("gfortran" ,gfortran)))
+ `(("gfortran" ,gfortran)
+ ("blas" ,openblas)
+ ("lapack" ,lapack)
+ ("combblas" ,combinatorial-blas)))
(propagated-inputs
- `(("openmpi" ,openmpi) ;headers include MPI heades
- ("lapack" ,lapack) ;required to link with output library
- ("pt-scotch" ,pt-scotch))) ;same
+ `(("mpi" ,openmpi) ;headers include MPI heades
+ ("parmetis" ,pt-scotch32 "metis")
+ ("pt-scotch" ,pt-scotch32)))
(arguments
- `(#:parallel-build? #f ;race conditions using ar
+ `(#:parallel-tests? #f ;tests use MPI and OpenMP
+ #:configure-flags (list "-DBUILD_SHARED_LIBS:BOOL=YES"
+ "-DTPL_ENABLE_COMBBLASLIB=YES"
+ "-DTPL_BLAS_LIBRARIES=-lopenblas"
+ "-DTPL_LAPACK_LIBRARIES=-llapack"
+ (string-append "-DTPL_PARMETIS_LIBRARIES="
+ (string-join
+ '("ptscotchparmetis" "ptscotch" "ptscotcherr"
+ "scotchmetis" "scotch" "scotcherr")
+ ";"))
+ (string-append "-DTPL_PARMETIS_INCLUDE_DIRS="
+ (assoc-ref %build-inputs "parmetis")
+ "/include")
+ "-DTPL_ENABLE_COMBBLASLIB=ON"
+ (string-append "-DTPL_COMBBLAS_INCLUDE_DIRS="
+ (assoc-ref %build-inputs "combblas")
+ "/include/CombBLAS;"
+ (assoc-ref %build-inputs "combblas")
+ "/include/BipartiteMatchings")
+ "-DTPL_COMBBLAS_LIBRARIES=CombBLAS")
#:phases
(modify-phases %standard-phases
- (replace 'configure
- (lambda* (#:key inputs outputs #:allow-other-keys)
- (call-with-output-file "make.inc"
- (lambda (port)
- (format port "
-PLAT =
-DSuperLUroot = ~a
-DSUPERLULIB = ~a/lib/libsuperlu_dist.a
-BLASDEF = -DUSE_VENDOR_BLAS
-BLASLIB = -L~a/lib -lblas
-PARMETISLIB = -L~a/lib \
- -lptscotchparmetis -lptscotch -lptscotcherr -lptscotcherrexit \
- -lscotch -lscotcherr -lscotcherrexit
-METISLIB = -L~:*~a/lib \
- -lscotchmetis -lscotch -lscotcherr -lscotcherrexit
-LIBS = $(DSUPERLULIB) $(PARMETISLIB) $(METISLIB) $(BLASLIB)
-ARCH = ar
-ARCHFLAGS = cr
-RANLIB = ranlib
-CC = mpicc
-PIC = -fPIC
-CFLAGS = -O3 -g -DPRNTlevel=0 $(PIC)
-NOOPTS = -O0 -g $(PIC)
-FORTRAN = mpifort
-FFLAGS = -O2 -g $(PIC)
-LOADER = $(CC)
-CDEFS = -DAdd_"
- (getcwd)
- (assoc-ref outputs "out")
- (assoc-ref inputs "lapack")
- (assoc-ref inputs "pt-scotch"))))
- #t))
- (add-after 'unpack 'remove-broken-symlinks
+ (add-before 'configure 'set-c++-standard
(lambda _
- (for-each delete-file
- (find-files "MAKE_INC" "\\.#make\\..*"))
- #t))
- (add-before 'build 'create-install-directories
- (lambda* (#:key outputs #:allow-other-keys)
- (for-each
- (lambda (dir)
- (mkdir-p (string-append (assoc-ref outputs "out")
- "/" dir)))
- '("lib" "include"))
- #t))
+ (substitute* "CMakeLists.txt"
+ ;; AWPM headers require C++14
+ (("CMAKE_CXX_STANDARD 11") "CMAKE_CXX_STANDARD 14"))))
(add-before 'check 'mpi-setup
,%openmpi-setup)
- (replace 'check
- (lambda _
- (with-directory-excursion "EXAMPLE"
- (invoke "mpirun" "-n" "2"
- "./pddrive" "-r" "1" "-c" "2" "g20.rua")
- (invoke "mpirun" "-n" "2"
- "./pzdrive" "-r" "1" "-c" "2" "cg20.cua"))
- #t))
- (replace 'install
- (lambda* (#:key outputs #:allow-other-keys)
- ;; Library is placed in lib during the build phase. Copy over
- ;; headers to include.
- (let* ((out (assoc-ref outputs "out"))
- (incdir (string-append out "/include")))
- (for-each (lambda (file)
- (let ((base (basename file)))
- (format #t "installing `~a' to `~a'~%"
- base incdir)
- (copy-file file
- (string-append incdir "/" base))))
- (find-files "SRC" ".*\\.h$")))
- #t)))))
+ (add-before 'check 'omp-setup
+ (lambda _ (setenv "OMP_NUM_THREADS" "1") #t)))))
(home-page (package-home-page superlu))
(synopsis "Parallel supernodal direct solver")
(description
@@ -2450,25 +2387,25 @@ implemented in ANSI C, and MPI for communications.")
(define-public scotch
(package
(name "scotch")
- (version "6.0.5a")
+ (version "6.0.6")
(source
(origin
(method url-fetch)
(uri (string-append "https://gforge.inria.fr/frs/download.php/"
"latestfile/298/scotch_" version ".tar.gz"))
(sha256
- (base32 "0vsmgjz8qv80di3ljmc7hbdsizxxxwy2b9rgd2fl1mdc6dgbj8av"))
- (patches (search-patches "scotch-test-threading.patch"
- "scotch-build-parallelism.patch"
- "scotch-graph-induce-type-64.patch"
- "scotch-graph-diam-64.patch"))))
+ (base32 "1ky4k9r6jvajhqaqnnx6h8fkmds2yxgp70dpr1qzwcyhi2nhqvv8"))
+ (patches (search-patches "scotch-build-parallelism.patch"
+ "scotch-integer-declarations.patch"))))
(build-system gnu-build-system)
(inputs
`(("zlib" ,zlib)
("flex" ,flex)
("bison" ,bison)))
+ (outputs '("out" "metis"))
(arguments
- `(#:phases
+ `(#:make-flags (list (string-append "prefix=" %output))
+ #:phases
(modify-phases %standard-phases
(add-after
'unpack 'chdir-to-src
@@ -2503,7 +2440,7 @@ YACC = bison -pscotchyy -y -b y
'("COMMON_FILE_COMPRESS_GZ"
"COMMON_PTHREAD"
"COMMON_RANDOM_FIXED_SEED"
- "INTSIZE64" ;use 'long' instead of 'int'
+ "INTSIZE64" ;use 'int64_t'
;; Prevents symbolc clashes with libesmumps
"SCOTCH_RENAME"
;; XXX: Causes invalid frees in superlu-dist tests
@@ -2516,22 +2453,21 @@ YACC = bison -pscotchyy -y -b y
(invoke "make"
(format #f "-j~a" (parallel-job-count))
"esmumps")))
- (replace
- 'install
- (lambda* (#:key outputs #:allow-other-keys)
- (let ((out (assoc-ref outputs "out")))
- (mkdir out)
- (invoke "make"
- (string-append "prefix=" out)
- "install")
- ;; esmumps files are not installed with the above
- (for-each (lambda (f)
- (copy-file f (string-append out "/include/" f)))
- (find-files "../include" ".*esmumps.h$"))
- (for-each (lambda (f)
- (copy-file f (string-append out "/lib/" f)))
- (find-files "../lib" "^lib.*esmumps.*"))
- #t))))))
+ (add-before 'install 'make-install-dirs
+ (lambda* (#:key outputs #:allow-other-keys)
+ (mkdir (assoc-ref outputs "out"))))
+ (add-after 'install 'install-metis
+ (lambda* (#:key outputs #:allow-other-keys)
+ (let ((out (assoc-ref outputs "metis")))
+ (mkdir out)
+ ;; metis files are not installed with 'make install'
+ (for-each (lambda (f)
+ (install-file f (string-append out "/include")))
+ (find-files "../include/" ".*metis\\.h"))
+ (for-each (lambda (f)
+ (install-file f (string-append out "/lib")))
+ (find-files "../lib/" ".*metis\\..*"))
+ #t))))))
(home-page "http://www.labri.fr/perso/pelegrin/scotch/")
(synopsis "Programs and libraries for graph algorithms")
(description "SCOTCH is a set of programs and libraries which implement
@@ -2769,6 +2705,7 @@ to BMP, JPEG or PNG image formats.")
(inputs
`(("gcl" ,gcl)
("gnuplot" ,gnuplot) ;for plots
+ ("sed" ,sed)
("tk" ,tk))) ;Tcl/Tk is used by 'xmaxima'
(native-inputs
`(("texinfo" ,texinfo)
@@ -2791,6 +2728,17 @@ to BMP, JPEG or PNG image formats.")
#:make-flags (list "TMPDIR=/tmp")
#:phases
(modify-phases %standard-phases
+ (add-after 'unpack 'patch-paths
+ (lambda* (#:key inputs #:allow-other-keys)
+ (let* ((sed (string-append (assoc-ref inputs "sed") "/bin/sed"))
+ (coreutils (assoc-ref inputs "coreutils"))
+ (dirname (string-append coreutils "/bin/dirname"))
+ (head (string-append coreutils "/bin/head")))
+ (substitute* "src/maxima.in"
+ (("sed ") (string-append sed " "))
+ (("dirname") dirname)
+ (("head") head))
+ #t)))
(add-before 'check 'pre-check
(lambda _
(chmod "src/maxima" #o555)
@@ -3558,7 +3506,11 @@ in finite element programs.")
``("-DMPI_C_COMPILER=mpicc"
"-DMPI_CXX_COMPILER=mpicxx"
"-DMPI_Fortran_COMPILER=mpifort"
- ,@,cf))))
+ ,@,cf))
+ ((#:phases phases '%standard-phases)
+ `(modify-phases ,phases
+ (add-before 'check 'mpi-setup
+ ,%openmpi-setup)))))
(synopsis "Finite element library (with MPI support)")))
(define-public flann
@@ -3965,7 +3917,7 @@ as equations, scalars, vectors, and matrices.")
(define-public z3
(package
(name "z3")
- (version "4.8.1")
+ (version "4.8.4")
(home-page "https://github.com/Z3Prover/z3")
(source (origin
(method git-fetch)
@@ -3974,16 +3926,10 @@ as equations, scalars, vectors, and matrices.")
(file-name (git-file-name name version))
(sha256
(base32
- "1vr57bwx40sd5riijyrhy70i2wnv9xrdihf6y5zdz56yq88rl48f"))))
- (build-system cmake-build-system)
+ "014igqm5vwswz0yhz0cdxsj3a6dh7i79hvhgc3jmmmz3z0xm1gyn"))))
+ (build-system gnu-build-system)
(arguments
- `(#:configure-flags
- (list "-DBUILD_PYTHON_BINDINGS=true"
- "-DINSTALL_PYTHON_BINDINGS=true"
- (string-append "-DCMAKE_INSTALL_PYTHON_PKG_DIR="
- %output
- "/lib/python2.7/site-packages"))
- #:phases
+ `(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'fix-compatability
;; Versions after 4.8.3 have immintrin.h IFDEFed for Windows only.
@@ -3994,7 +3940,18 @@ as equations, scalars, vectors, and matrices.")
(add-before 'configure 'bootstrap
(lambda _
(zero?
- (system* "python" "contrib/cmake/bootstrap.py" "create"))))
+ (system* "python" "scripts/mk_make.py"))))
+ ;; work around gnu-build-system's setting --enable-fast-install
+ ;; (z3's `configure' is a wrapper around the above python file,
+ ;; which fails when passed --enable-fast-install)
+ (replace 'configure
+ (lambda* (#:key inputs outputs #:allow-other-keys)
+ (invoke "./configure"
+ (string-append "--prefix=" (assoc-ref outputs "out")))))
+ (add-after 'configure 'change-directory
+ (lambda _
+ (chdir "build")
+ #t))
(add-before 'check 'make-test-z3
(lambda _
;; Build the test suite executable.
@@ -4005,70 +3962,13 @@ as equations, scalars, vectors, and matrices.")
;; Run all the tests that don't require arguments.
(zero? (system* "./test-z3" "/a")))))))
(native-inputs
- `(("python" ,python-2)))
+ `(("which" ,which)
+ ("python" ,python-wrapper)))
(synopsis "Theorem prover")
(description "Z3 is a theorem prover and @dfn{satisfiability modulo
theories} (SMT) solver. It provides a C/C++ API, as well as Python bindings.")
(license license:expat)))
-(define-public cubicle
- (package
- (name "cubicle")
- (version "1.1.2")
- (source (origin
- (method url-fetch)
- (uri (string-append "http://cubicle.lri.fr/cubicle-"
- version ".tar.gz"))
- (sha256
- (base32
- "10kk80jdmpdvql88sdjsh7vqzlpaphd8vip2lp47aarxjkwjlz1q"))))
- (build-system gnu-build-system)
- (native-inputs
- `(("automake" ,automake)
- ("ocaml" ,ocaml)
- ("which" ,(@@ (gnu packages base) which))))
- (propagated-inputs
- `(("ocaml-num" ,ocaml-num)
- ("z3" ,z3)))
- (arguments
- `(#:configure-flags (list "--with-z3")
- #:make-flags (list "QUIET=")
- #:tests? #f
- #:phases
- (modify-phases %standard-phases
- (add-before 'configure 'configure-for-release
- (lambda _
- (substitute* "Makefile.in"
- (("SVNREV=") "#SVNREV="))
- #t))
- (add-before 'configure 'fix-/bin/sh
- (lambda _
- (substitute* "configure"
- (("-/bin/sh") (string-append "-" (which "sh"))))
- #t))
- (add-before 'configure 'fix-smt-z3wrapper.ml
- (lambda _
- (substitute* "Makefile.in"
- (("\\\\n") ""))
- #t))
- (add-before 'configure 'fix-ocaml-num
- (lambda* (#:key inputs #:allow-other-keys)
- (substitute* "Makefile.in"
- (("= \\$\\(FUNCTORYLIB\\)")
- (string-append "= -I "
- (assoc-ref inputs "ocaml-num")
- "/lib/ocaml/site-lib"
- " $(FUNCTORYLIB)")))
- #t)))))
- (home-page "http://cubicle.lri.fr/")
- (synopsis "Model checker for array-based systems")
- (description "Cubicle is a model checker for verifying safety properties
-of array-based systems. This is a syntactically restricted class of
-parametrized transition systems with states represented as arrays indexed by
-an arbitrary number of processes. Cache coherence protocols and mutual
-exclusion algorithms are typical examples of such systems.")
- (license license:asl2.0)))
-
(define-public elemental
(package
(name "elemental")
@@ -4294,3 +4194,53 @@ easily be incorporated into existing simulation codes.")
(add-before 'check 'mpi-setup
,%openmpi-setup)))))
(synopsis "SUNDIALS with OpenMPI support")))
+
+(define-public combinatorial-blas
+ (package
+ (name "combinatorial-blas")
+ (version "1.6.2")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (string-append "http://eecs.berkeley.edu/~aydin/CombBLAS_FILES/"
+ "CombBLAS_beta_"
+ (match (string-split version #\.)
+ ((major minor patch)
+ (string-append major minor "_" patch))) ;e.g. "16_2"
+ ".tgz"))
+ (sha256
+ (base32
+ "1a9wbgdqyy1whhfc0yl0yqkax3amnqa6iihhq48d063gc0jwfd9a"))
+ (patches (search-patches "combinatorial-blas-awpm.patch"
+ "combinatorial-blas-io-fix.patch"))))
+ (build-system cmake-build-system)
+ (inputs
+ `(("mpi" ,openmpi)
+ ("test-data" ,(origin
+ (method url-fetch)
+ (uri (string-append "https://people.eecs.berkeley.edu/~aydin/"
+ "CombBLAS_FILES/testdata_combblas1.6.1.tgz"))
+ (sha256
+ (base32
+ "01y2781cy3fww7znmidrp85mf8zx0c905w5vzvk1mgrmhhynim87"))))))
+ (arguments
+ `(#:configure-flags '("-DBUILD_SHARED_LIBS:BOOL=YES"
+ "-DCMAKE_CXX_FLAGS=-DUSE_FUNNEL")
+ #:parallel-tests? #f ;tests use 'mpiexec -n4'
+ #:phases
+ (modify-phases %standard-phases
+ (add-before 'check 'mpi-setup
+ ,%openmpi-setup)
+ (add-before 'check 'test-setup
+ (lambda* (#:key inputs #:allow-other-keys)
+ (setenv "OMP_NUM_THREADS" "2")
+ (invoke "tar" "xf" (assoc-ref inputs "test-data")))))))
+ (home-page "https://people.eecs.berkeley.edu/~aydin/CombBLAS/html/")
+ (synopsis "Linear algebra primitives for graph analytics")
+ (description "The Combinatorial BLAS (CombBLAS) is an extensible
+distributed-memory parallel graph library offering a small but powerful set of
+linear algebra primitives specifically targeting graph analytics.")
+ (license (list
+ license:gpl2+ ;include/psort/(funnel|sort)*.h
+ license:x11 ;usort and psort
+ license:bsd-3)))) ;CombBLAS and MersenneTwister.h
generated by cgit v1.2.3 (git 2.25.4) at 2024-06-30 23:09:17 +0000