diff options
| -rw-r--r-- | gnu-system.am | 1 | ||||
| -rw-r--r-- | gnu/packages/maths.scm | 77 | ||||
| -rw-r--r-- | gnu/packages/patches/scotch-test-threading.patch | 139 |
3 files changed, 217 insertions, 0 deletions
diff --git a/gnu-system.am b/gnu-system.am index b54aba1ab7..829c9979e5 100644 --- a/gnu-system.am +++ b/gnu-system.am @@ -339,6 +339,7 @@ dist_patch_DATA = \ gnu/packages/patches/readline-link-ncurses.patch \ gnu/packages/patches/ripperx-libm.patch \ gnu/packages/patches/scheme48-tests.patch \ + gnu/packages/patches/scotch-test-threading.patch \ gnu/packages/patches/slim-session.patch \ gnu/packages/patches/slim-config.patch \ gnu/packages/patches/slim-sigusr1.patch \ diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm index 49fdacef04..2fe06a3956 100644 --- a/gnu/packages/maths.scm +++ b/gnu/packages/maths.scm @@ -589,3 +589,80 @@ library routines perform an LU decomposition with partial pivoting and triangular system solves through forward and back substitution. The library also provides threshold-based ILU factorization preconditioners.") (license license:bsd-3))) + +(define-public scotch + (package + (name "scotch") + (version "6.0.0") + (source + (origin + (method url-fetch) + (uri (string-append "https://gforge.inria.fr/frs/download.php/31831/" + "scotch_" version ".tar.gz")) + (sha256 + (base32 "0yfqf9lk7chb3h42777x42x4adx0v3n0b41q0cdqrdmscp4iczp5")) + (patches (list (search-patch "scotch-test-threading.patch"))))) + (build-system gnu-build-system) + (inputs + `(("zlib" ,zlib) + ("flex" ,flex) + ("bison" ,bison))) + (arguments + `(#:phases + (alist-cons-after + 'unpack 'chdir-to-src + (lambda _ (chdir "src")) + (alist-replace + 'configure + (lambda _ + (call-with-output-file "Makefile.inc" + (lambda (port) + (format port " +EXE = +LIB = .a +OBJ = .o +MAKE = make +AR = ar +ARFLAGS = -ruv +CCS = gcc +CCP = mpicc +CCD = gcc +CPPFLAGS =~{ -D~a~} +CFLAGS = -O2 -g $(CPPFLAGS) +LDFLAGS = -lz -lm -lrt -lpthread +CP = cp +LEX = flex -Pscotchyy -olex.yy.c +LN = ln +MKDIR = mkdir +MV = mv +RANLIB = ranlib +YACC = bison -pscotchyy -y -b y +" + '("COMMON_FILE_COMPRESS_GZ" + "COMMON_PTHREAD" + "COMMON_RANDOM_FIXED_SEED" + ;; TODO: Define once our MPI supports + ;; MPI_THREAD_MULTIPLE + ;; "SCOTCH_PTHREAD" + ;; "SCOTCH_PTHREAD_NUMBER=2" + "restrict=__restrict"))))) + (alist-replace + 'install + (lambda* (#:key outputs #:allow-other-keys) + (let ((out (assoc-ref outputs "out"))) + (mkdir out) + (zero? (system* "make" + (string-append "prefix=" out) + "install")))) + %standard-phases))))) + (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 +the static mapping and sparse matrix reordering algorithms developed within +the SCOTCH project. Its purpose is to apply graph theory, with a divide and +conquer approach, to scientific computing problems such as graph and mesh +partitioning, static mapping, and sparse matrix ordering, in application +domains ranging from structural mechanics to operating systems or +bio-chemistry.") + ;; See LICENSE_en.txt + (license license:cecill-c))) diff --git a/gnu/packages/patches/scotch-test-threading.patch b/gnu/packages/patches/scotch-test-threading.patch new file mode 100644 index 0000000000..2527a6e6dd --- /dev/null +++ b/gnu/packages/patches/scotch-test-threading.patch @@ -0,0 +1,139 @@ +* These tests assume threading support, even when the library is compiled + without it. Protect these checks. + +* Tests should not require keyboard interaction. + +--- a/src/check/test_scotch_dgraph_band.c 2012-09-27 10:46:42.000000000 -0500 ++++ b/src/check/test_scotch_dgraph_band.c 2014-05-13 14:36:07.479270243 -0500 +@@ -99,10 +99,12 @@ + errorPrint ("main: Cannot initialize (1)"); + exit (1); + } ++#ifdef SCOTCH_PTHREAD + if (thrdlvlreqval > thrdlvlproval) { + errorPrint ("main: Cannot initialize (2)"); + exit (1); + } ++#endif + + if (argc != 2) { + errorPrint ("main: invalid number of parameters"); +@@ -115,12 +117,14 @@ + + fprintf (stderr, "Proc %2d of %2d, pid %d\n", proclocnum, procglbnbr, getpid ()); + ++#ifdef SCOTCH_DEBUG_CHECK2 + if (proclocnum == 0) { /* Synchronize on keybord input */ + char c; + + printf ("Waiting for key press...\n"); + scanf ("%c", &c); + } ++#endif /* SCOTCH_DEBUG_CHECK2 */ + + if (MPI_Barrier (proccomm) != MPI_SUCCESS) { /* Synchronize for debug */ + errorPrint ("main: cannot communicate"); +--- a/src/check/test_scotch_dgraph_grow.c 2012-11-30 12:19:33.000000000 -0600 ++++ b/src/check/test_scotch_dgraph_grow.c 2014-05-13 14:35:31.307269303 -0500 +@@ -103,10 +103,12 @@ + errorPrint ("main: Cannot initialize (1)"); + exit (1); + } ++#ifdef SCOTCH_PTHREAD + if (thrdlvlreqval > thrdlvlproval) { + errorPrint ("main: Cannot initialize (2)"); + exit (1); + } ++#endif + + if (argc != 2) { + errorPrint ("main: invalid number of parameters"); +@@ -119,12 +121,14 @@ + + fprintf (stderr, "Proc %2d of %2d, pid %d\n", proclocnum, procglbnbr, getpid ()); + ++#ifdef SCOTCH_DEBUG_CHECK2 + if (proclocnum == 0) { /* Synchronize on keybord input */ + char c; + + printf ("Waiting for key press...\n"); + scanf ("%c", &c); + } ++#endif /* SCOTCH_DEBUG_CHECK2 */ + + if (MPI_Barrier (proccomm) != MPI_SUCCESS) { /* Synchronize for debug */ + errorPrint ("main: cannot communicate"); +--- a/src/check/test_scotch_dgraph_redist.c 2012-09-26 11:42:27.000000000 -0500 ++++ b/src/check/test_scotch_dgraph_redist.c 2014-05-13 14:34:30.323267722 -0500 +@@ -98,10 +98,12 @@ + errorPrint ("main: Cannot initialize (1)"); + exit (1); + } ++#ifdef SCOTCH_PTHREAD + if (thrdlvlreqval > thrdlvlproval) { + errorPrint ("main: Cannot initialize (2)"); + exit (1); + } ++#endif + + if (argc != 2) { + errorPrint ("main: invalid number of parameters"); +@@ -114,7 +116,6 @@ + + fprintf (stderr, "Proc %2d of %2d, pid %d\n", proclocnum, procglbnbr, getpid ()); + +-#define SCOTCH_DEBUG_CHECK2 + #ifdef SCOTCH_DEBUG_CHECK2 + if (proclocnum == 0) { /* Synchronize on keybord input */ + char c; +--- /tmp/nix-build-scotch-6.0.0.drv-9/scotch_6.0.0/src/check/test_common_thread.c 2012-11-30 11:05:23.000000000 -0600 ++++ scotch_6.0.0/src/check/test_common_thread.c 2014-05-13 17:26:27.159535244 -0500 +@@ -90,7 +90,7 @@ + /* */ + /*************************/ + +-#if ((defined COMMON_PTHREAD) || (defined SCOTCH_PTHREAD)) ++#ifdef SCOTCH_PTHREAD + + static + void +@@ -161,7 +161,7 @@ + return (o); + } + +-#endif /* ((defined COMMON_PTHREAD) || (defined SCOTCH_PTHREAD)) */ ++#endif /* SCOTCH_PTHREAD */ + + /*********************/ + /* */ +@@ -175,14 +175,14 @@ + char * argv[]) + { + TestThreadGroup groudat; +-#if ((defined COMMON_PTHREAD) || (defined SCOTCH_PTHREAD)) ++#ifdef SCOTCH_PTHREAD + TestThread * restrict thrdtab; + int thrdnbr; +-#endif /* ((defined COMMON_PTHREAD) || (defined SCOTCH_PTHREAD)) */ ++#endif /* SCOTCH_PTHREAD */ + + SCOTCH_errorProg (argv[0]); + +-#if ((defined COMMON_PTHREAD) || (defined SCOTCH_PTHREAD)) ++#ifdef SCOTCH_PTHREAD + thrdnbr = SCOTCH_PTHREAD_NUMBER; + + groudat.redusum = COMPVAL (thrdnbr); +@@ -197,9 +197,9 @@ + errorPrint ("main: cannot launch or run threads"); + return (1); + } +-#else /* ((defined COMMON_PTHREAD) || (defined SCOTCH_PTHREAD)) */ +- printf ("Scotch not compiled with either COMMON_PTHREAD or SCOTCH_PTHREAD\n"); +-#endif /* ((defined COMMON_PTHREAD) || (defined SCOTCH_PTHREAD)) */ ++#else /* not SCOTCH_PTHREAD */ ++ printf ("Scotch not compiled with SCOTCH_PTHREAD\n"); ++#endif /* not SCOTCH_PTHREAD */ + + return (0); + } |