From 0755cd685eef7c217895dbd692b4cc8aa48beca3 Mon Sep 17 00:00:00 2001 From: Kyle Guinn Date: Fri, 24 Jan 2014 21:35:18 -0600 Subject: academic/spqr: Renamed and moved from libraries. Signed-off-by: Robby Workman --- academic/spqr/README | 8 + academic/spqr/atlas-threaded-blas.diff | 26 ++ academic/spqr/autotoolize.diff | 757 +++++++++++++++++++++++++++++++++ academic/spqr/slack-desc | 19 + academic/spqr/spqr.SlackBuild | 109 +++++ academic/spqr/spqr.info | 10 + 6 files changed, 929 insertions(+) create mode 100644 academic/spqr/README create mode 100644 academic/spqr/atlas-threaded-blas.diff create mode 100644 academic/spqr/autotoolize.diff create mode 100644 academic/spqr/slack-desc create mode 100644 academic/spqr/spqr.SlackBuild create mode 100644 academic/spqr/spqr.info (limited to 'academic/spqr') diff --git a/academic/spqr/README b/academic/spqr/README new file mode 100644 index 0000000000..253b56e9ed --- /dev/null +++ b/academic/spqr/README @@ -0,0 +1,8 @@ +SuiteSparseQR is an implementation of the multifrontal sparse QR +factorization method. Parallelism is exploited both in the BLAS and +across different frontal matrices using Intel's Threading Building Blocks, +a shared-memory programming model for modern multicore +architectures. It can obtain a substantial fraction of the +theoretical peak performance of a multicore computer. + +This package is part of SuiteSparse. diff --git a/academic/spqr/atlas-threaded-blas.diff b/academic/spqr/atlas-threaded-blas.diff new file mode 100644 index 0000000000..e7f34ef011 --- /dev/null +++ b/academic/spqr/atlas-threaded-blas.diff @@ -0,0 +1,26 @@ +diff --git a/ax_blas.m4 b/ax_blas.m4 +--- a/ax_blas.m4 ++++ b/ax_blas.m4 +@@ -117,12 +117,16 @@ + # BLAS in ATLAS library? (http://math-atlas.sourceforge.net/) + if test $ax_blas_ok = no; then + AC_CHECK_LIB(atlas, ATL_xerbla, +- [AC_CHECK_LIB(f77blas, $sgemm, +- [AC_CHECK_LIB(cblas, cblas_dgemm, +- [ax_blas_ok=yes +- BLAS_LIBS="-lcblas -lf77blas -latlas"], +- [], [-lf77blas -latlas])], +- [], [-latlas])]) ++ [AC_CHECK_LIB(ptf77blas, $sgemm, ++ [AC_CHECK_LIB(ptcblas, cblas_dgemm, ++ [ax_blas_ok=yes; BLAS_LIBS="-lptcblas -lptf77blas -latlas"],, ++ [-lptf77blas -latlas])], ++ [AC_CHECK_LIB(f77blas, $sgemm, ++ [AC_CHECK_LIB(cblas, cblas_dgemm, ++ [ax_blas_ok=yes; BLAS_LIBS="-lcblas -lf77blas -latlas"],, ++ [-lf77blas -latlas])],, ++ [-latlas])], ++ [-latlas])]) + fi + + # BLAS in PhiPACK libraries? (requires generic BLAS lib, too) diff --git a/academic/spqr/autotoolize.diff b/academic/spqr/autotoolize.diff new file mode 100644 index 0000000000..3b4efd6f02 --- /dev/null +++ b/academic/spqr/autotoolize.diff @@ -0,0 +1,757 @@ +diff --git a/Demo/Makefile.am b/Demo/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Demo/Makefile.am +@@ -0,0 +1,109 @@ ++AM_CPPFLAGS = -I$(top_srcdir)/Include $(CHOLMOD_CFLAGS) $(SUITESPARSECONFIG_CFLAGS) ++LDADD = $(top_builddir)/Source/libspqr.la ++ ++EXTRA_DIST = \ ++ README.txt \ ++ qrdemo_diary.txt \ ++ qrdemo_out.txt \ ++ qrdemoc_out.txt ++ ++check_PROGRAMS = \ ++ qrsimple \ ++ qrsimplec \ ++ qrdemo \ ++ qrdemoc ++ ++qrsimple_SOURCES = qrsimple.cpp ++qrsimplec_SOURCES = qrsimplec.c ++qrsimplec_CFLAGS = $(AM_CFLAGS) -ansi ++qrdemo_SOURCES = qrdemo.cpp ++qrdemoc_SOURCES = qrdemoc.c ++qrdemoc_CFLAGS = $(AM_CFLAGS) -ansi ++ ++MATRICES = \ ++ $(top_srcdir)/Matrix/GD01_b.mtx \ ++ $(top_srcdir)/Matrix/GD06_theory.mtx \ ++ $(top_srcdir)/Matrix/GD98_a.mtx \ ++ $(top_srcdir)/Matrix/LFAT5.mtx \ ++ $(top_srcdir)/Matrix/Ragusa16.mtx \ ++ $(top_srcdir)/Matrix/Tina_AskCal.mtx \ ++ $(top_srcdir)/Matrix/Tina_AskCal_perm.mtx \ ++ $(top_srcdir)/Matrix/a0.mtx \ ++ $(top_srcdir)/Matrix/a04.mtx \ ++ $(top_srcdir)/Matrix/a1.mtx \ ++ $(top_srcdir)/Matrix/a2.mtx \ ++ $(top_srcdir)/Matrix/a4.mtx \ ++ $(top_srcdir)/Matrix/ash219.mtx \ ++ $(top_srcdir)/Matrix/b1_ss.mtx \ ++ $(top_srcdir)/Matrix/bcspwr01.mtx \ ++ $(top_srcdir)/Matrix/bfwa62.mtx \ ++ $(top_srcdir)/Matrix/c2.mtx \ ++ $(top_srcdir)/Matrix/c32.mtx \ ++ $(top_srcdir)/Matrix/lfat5b.mtx \ ++ $(top_srcdir)/Matrix/lp_share1b.mtx \ ++ $(top_srcdir)/Matrix/lpi_galenet.mtx \ ++ $(top_srcdir)/Matrix/lpi_itest6.mtx \ ++ $(top_srcdir)/Matrix/r2.mtx \ ++ $(top_srcdir)/Matrix/s32.mtx \ ++ $(top_srcdir)/Matrix/west0067.mtx \ ++ $(top_srcdir)/Matrix/young1c.mtx ++ ++check-local: $(check_PROGRAMS) $(MATRICES) ++ -./qrsimple < $(top_srcdir)/Matrix/ash219.mtx ++ -./qrsimplec < $(top_srcdir)/Matrix/ash219.mtx ++ -./qrsimple < $(top_srcdir)/Matrix/west0067.mtx ++ -./qrsimplec < $(top_srcdir)/Matrix/west0067.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/a2.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/r2.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/a04.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/a2.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/west0067.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/c2.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/a0.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/lfat5b.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/bfwa62.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/LFAT5.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/b1_ss.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/bcspwr01.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/lpi_galenet.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/lpi_itest6.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/ash219.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/a4.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/s32.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/c32.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/lp_share1b.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/a1.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/GD06_theory.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/GD01_b.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/Tina_AskCal_perm.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/Tina_AskCal.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/GD98_a.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/Ragusa16.mtx ++ -./qrdemo < $(top_srcdir)/Matrix/young1c.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/a2.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/r2.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/a04.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/a2.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/west0067.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/c2.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/a0.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/lfat5b.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/bfwa62.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/LFAT5.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/b1_ss.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/bcspwr01.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/lpi_galenet.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/lpi_itest6.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/ash219.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/a4.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/s32.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/c32.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/lp_share1b.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/a1.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/GD06_theory.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/GD01_b.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/Tina_AskCal_perm.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/Tina_AskCal.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/GD98_a.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/Ragusa16.mtx ++ -./qrdemoc < $(top_srcdir)/Matrix/young1c.mtx +diff --git a/Doc/Makefile.am b/Doc/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Doc/Makefile.am +@@ -0,0 +1,28 @@ ++EXTRA_DIST = \ ++ ChangeLog \ ++ README.txt \ ++ gpl.txt ++ ++dist_noinst_DATA = \ ++ spqr_user_guide.tex \ ++ spqr_user_guide.bib ++ ++dist_pdf_DATA = \ ++ spqr_user_guide.pdf \ ++ algo_spqr.pdf \ ++ spqr.pdf ++ ++TEX = TEXINPUTS="$(srcdir):" pdflatex -interaction nonstopmode -file-line-error ++BIB = BIBINPUTS="$(srcdir):" bibtex ++%.pdf: %.tex %.bbl ++ $(TEX) $* ++ while grep -q "Rerun to get cross-references right" $*.log; do \ ++ $(TEX) $*; \ ++ done ++%.bbl: %.aux %.bib ++ $(BIB) $* ++%.aux: %.tex ++ $(TEX) $* ++ ++CLEANFILES = *.aux *.bbl *.blg *.log *.toc ++MAINTAINERCLEANFILES = $(dist_pdf_DATA) +diff --git a/Include/Makefile.am b/Include/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Include/Makefile.am +@@ -0,0 +1,5 @@ ++pkginclude_HEADERS = \ ++ SuiteSparseQR.hpp \ ++ SuiteSparseQR_C.h \ ++ SuiteSparseQR_definitions.h \ ++ spqr.hpp +diff --git a/Makefile.am b/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Makefile.am +@@ -0,0 +1,5 @@ ++SUBDIRS = Include Source Matrix Demo Doc ++EXTRA_DIST = README.txt ++ ++pkgconfigdir = $(libdir)/pkgconfig ++pkgconfig_DATA = spqr.pc +diff --git a/Matrix/Makefile.am b/Matrix/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Matrix/Makefile.am +@@ -0,0 +1,32 @@ ++EXTRA_DIST = \ ++ README.txt ++ ++dist_noinst_DATA = \ ++ GD01_b.mtx \ ++ GD06_theory.mtx \ ++ GD98_a.mtx \ ++ LFAT5.mtx \ ++ Ragusa16.mtx \ ++ Tina_AskCal.mtx \ ++ Tina_AskCal_perm.mtx \ ++ a0.mtx \ ++ a04.mtx \ ++ a1.mtx \ ++ a2.mtx \ ++ a4.mtx \ ++ arrow.mtx \ ++ ash219.mtx \ ++ b1_ss.mtx \ ++ bcspwr01.mtx \ ++ bfwa62.mtx \ ++ c2.mtx \ ++ c32.mtx \ ++ lfat5b.mtx \ ++ lp_share1b.mtx \ ++ lpi_galenet.mtx \ ++ lpi_itest6.mtx \ ++ pwr01b.mtx \ ++ r2.mtx \ ++ s32.mtx \ ++ west0067.mtx \ ++ young1c.mtx +diff --git a/Source/Makefile.am b/Source/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Source/Makefile.am +@@ -0,0 +1,54 @@ ++AM_CPPFLAGS = -I$(top_srcdir)/Include $(TBB_CFLAGS) $(CHOLMOD_CFLAGS) $(SUITESPARSECONFIG_CFLAGS) ++if !EXPERT ++AM_CPPFLAGS += -DNEXPERT ++endif ++if TBB ++AM_CPPFLAGS += -DHAVE_TBB ++endif ++ ++lib_LTLIBRARIES = libspqr.la ++ ++libspqr_la_SOURCES = \ ++ SuiteSparseQR.cpp \ ++ SuiteSparseQR_C.cpp \ ++ SuiteSparseQR_expert.cpp \ ++ SuiteSparseQR_qmult.cpp \ ++ spqr_1colamd.cpp \ ++ spqr_1factor.cpp \ ++ spqr_1fixed.cpp \ ++ spqr_analyze.cpp \ ++ spqr_append.cpp \ ++ spqr_assemble.cpp \ ++ spqr_cpack.cpp \ ++ spqr_csize.cpp \ ++ spqr_cumsum.cpp \ ++ spqr_debug.cpp \ ++ spqr_factorize.cpp \ ++ spqr_fcsize.cpp \ ++ spqr_freefac.cpp \ ++ spqr_freenum.cpp \ ++ spqr_freesym.cpp \ ++ spqr_front.cpp \ ++ spqr_fsize.cpp \ ++ spqr_happly.cpp \ ++ spqr_happly_work.cpp \ ++ spqr_hpinv.cpp \ ++ spqr_kernel.cpp \ ++ spqr_larftb.cpp \ ++ spqr_maxcolnorm.cpp \ ++ spqr_panel.cpp \ ++ spqr_parallel.cpp \ ++ spqr_rconvert.cpp \ ++ spqr_rcount.cpp \ ++ spqr_rhpack.cpp \ ++ spqr_rmap.cpp \ ++ spqr_rsolve.cpp \ ++ spqr_shift.cpp \ ++ spqr_stranspose1.cpp \ ++ spqr_stranspose2.cpp \ ++ spqr_tol.cpp \ ++ spqr_trapezoidal.cpp \ ++ spqr_type.cpp ++ ++libspqr_la_LIBADD = $(TBB_LIBS) $(CHOLMOD_LIBS) $(SUITESPARSECONFIG_LIBS) $(LAPACK_LIBS) $(BLAS_LIBS) -lm ++libspqr_la_LDFLAGS = -no-undefined -version-number 1:3:1 +diff --git a/ax_blas.m4 b/ax_blas.m4 +new file mode 100644 +--- /dev/null ++++ b/ax_blas.m4 +@@ -0,0 +1,238 @@ ++# =========================================================================== ++# http://www.gnu.org/software/autoconf-archive/ax_blas.html ++# =========================================================================== ++# ++# SYNOPSIS ++# ++# AX_BLAS([ACTION-IF-FOUND[, ACTION-IF-NOT-FOUND]]) ++# ++# DESCRIPTION ++# ++# This macro looks for a library that implements the BLAS linear-algebra ++# interface (see http://www.netlib.org/blas/). On success, it sets the ++# BLAS_LIBS output variable to hold the requisite library linkages. ++# ++# To link with BLAS, you should link with: ++# ++# $BLAS_LIBS $LIBS $FLIBS ++# ++# in that order. FLIBS is the output variable of the ++# AC_F77_LIBRARY_LDFLAGS macro (called if necessary by AX_BLAS), and is ++# sometimes necessary in order to link with F77 libraries. Users will also ++# need to use AC_F77_DUMMY_MAIN (see the autoconf manual), for the same ++# reason. ++# ++# Many libraries are searched for, from ATLAS to CXML to ESSL. The user ++# may also use --with-blas= in order to use some specific BLAS ++# library . In order to link successfully, however, be aware that you ++# will probably need to use the same Fortran compiler (which can be set ++# via the F77 env. var.) as was used to compile the BLAS library. ++# ++# ACTION-IF-FOUND is a list of shell commands to run if a BLAS library is ++# found, and ACTION-IF-NOT-FOUND is a list of commands to run it if it is ++# not found. If ACTION-IF-FOUND is not specified, the default action will ++# define HAVE_BLAS. ++# ++# LICENSE ++# ++# Copyright (c) 2008 Steven G. Johnson ++# ++# This program is free software: you can redistribute it and/or modify it ++# under the terms of the GNU General Public License as published by the ++# Free Software Foundation, either version 3 of the License, or (at your ++# option) any later version. ++# ++# This program is distributed in the hope that it will be useful, but ++# WITHOUT ANY WARRANTY; without even the implied warranty of ++# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General ++# Public License for more details. ++# ++# You should have received a copy of the GNU General Public License along ++# with this program. If not, see . ++# ++# As a special exception, the respective Autoconf Macro's copyright owner ++# gives unlimited permission to copy, distribute and modify the configure ++# scripts that are the output of Autoconf when processing the Macro. You ++# need not follow the terms of the GNU General Public License when using ++# or distributing such scripts, even though portions of the text of the ++# Macro appear in them. The GNU General Public License (GPL) does govern ++# all other use of the material that constitutes the Autoconf Macro. ++# ++# This special exception to the GPL applies to versions of the Autoconf ++# Macro released by the Autoconf Archive. When you make and distribute a ++# modified version of the Autoconf Macro, you may extend this special ++# exception to the GPL to apply to your modified version as well. ++ ++#serial 14 ++ ++AU_ALIAS([ACX_BLAS], [AX_BLAS]) ++AC_DEFUN([AX_BLAS], [ ++AC_PREREQ(2.50) ++AC_REQUIRE([AC_F77_LIBRARY_LDFLAGS]) ++AC_REQUIRE([AC_CANONICAL_HOST]) ++ax_blas_ok=no ++ ++AC_ARG_WITH(blas, ++ [AS_HELP_STRING([--with-blas=], [use BLAS library ])]) ++case $with_blas in ++ yes | "") ;; ++ no) ax_blas_ok=disable ;; ++ -* | */* | *.a | *.so | *.so.* | *.o) BLAS_LIBS="$with_blas" ;; ++ *) BLAS_LIBS="-l$with_blas" ;; ++esac ++ ++# Get fortran linker names of BLAS functions to check for. ++AC_F77_FUNC(sgemm) ++AC_F77_FUNC(dgemm) ++ ++ax_blas_save_LIBS="$LIBS" ++LIBS="$LIBS $FLIBS" ++ ++# First, check BLAS_LIBS environment variable ++if test $ax_blas_ok = no; then ++if test "x$BLAS_LIBS" != x; then ++ save_LIBS="$LIBS"; LIBS="$BLAS_LIBS $LIBS" ++ AC_MSG_CHECKING([for $sgemm in $BLAS_LIBS]) ++ AC_TRY_LINK_FUNC($sgemm, [ax_blas_ok=yes], [BLAS_LIBS=""]) ++ AC_MSG_RESULT($ax_blas_ok) ++ LIBS="$save_LIBS" ++fi ++fi ++ ++# BLAS linked to by default? (happens on some supercomputers) ++if test $ax_blas_ok = no; then ++ save_LIBS="$LIBS"; LIBS="$LIBS" ++ AC_MSG_CHECKING([if $sgemm is being linked in already]) ++ AC_TRY_LINK_FUNC($sgemm, [ax_blas_ok=yes]) ++ AC_MSG_RESULT($ax_blas_ok) ++ LIBS="$save_LIBS" ++fi ++ ++# BLAS in OpenBLAS library? (http://xianyi.github.com/OpenBLAS/) ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(openblas, $sgemm, [ax_blas_ok=yes ++ BLAS_LIBS="-lopenblas"]) ++fi ++ ++# BLAS in ATLAS library? (http://math-atlas.sourceforge.net/) ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(atlas, ATL_xerbla, ++ [AC_CHECK_LIB(f77blas, $sgemm, ++ [AC_CHECK_LIB(cblas, cblas_dgemm, ++ [ax_blas_ok=yes ++ BLAS_LIBS="-lcblas -lf77blas -latlas"], ++ [], [-lf77blas -latlas])], ++ [], [-latlas])]) ++fi ++ ++# BLAS in PhiPACK libraries? (requires generic BLAS lib, too) ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(blas, $sgemm, ++ [AC_CHECK_LIB(dgemm, $dgemm, ++ [AC_CHECK_LIB(sgemm, $sgemm, ++ [ax_blas_ok=yes; BLAS_LIBS="-lsgemm -ldgemm -lblas"], ++ [], [-lblas])], ++ [], [-lblas])]) ++fi ++ ++# BLAS in Intel MKL library? ++if test $ax_blas_ok = no; then ++ # MKL for gfortran ++ if test x"$ac_cv_fc_compiler_gnu" = xyes; then ++ # 64 bit ++ if test $host_cpu = x86_64; then ++ AC_CHECK_LIB(mkl_gf_lp64, $sgemm, ++ [ax_blas_ok=yes;BLAS_LIBS="-lmkl_gf_lp64 -lmkl_sequential -lmkl_core -lpthread"],, ++ [-lmkl_gf_lp64 -lmkl_sequential -lmkl_core -lpthread]) ++ # 32 bit ++ elif test $host_cpu = i686; then ++ AC_CHECK_LIB(mkl_gf, $sgemm, ++ [ax_blas_ok=yes;BLAS_LIBS="-lmkl_gf -lmkl_sequential -lmkl_core -lpthread"],, ++ [-lmkl_gf -lmkl_sequential -lmkl_core -lpthread]) ++ fi ++ # MKL for other compilers (Intel, PGI, ...?) ++ else ++ # 64-bit ++ if test $host_cpu = x86_64; then ++ AC_CHECK_LIB(mkl_intel_lp64, $sgemm, ++ [ax_blas_ok=yes;BLAS_LIBS="-lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lpthread"],, ++ [-lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lpthread]) ++ # 32-bit ++ elif test $host_cpu = i686; then ++ AC_CHECK_LIB(mkl_intel, $sgemm, ++ [ax_blas_ok=yes;BLAS_LIBS="-lmkl_intel -lmkl_sequential -lmkl_core -lpthread"],, ++ [-lmkl_intel -lmkl_sequential -lmkl_core -lpthread]) ++ fi ++ fi ++fi ++# Old versions of MKL ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(mkl, $sgemm, [ax_blas_ok=yes;BLAS_LIBS="-lmkl -lguide -lpthread"],,[-lguide -lpthread]) ++fi ++ ++# BLAS in Apple vecLib library? ++if test $ax_blas_ok = no; then ++ save_LIBS="$LIBS"; LIBS="-framework vecLib $LIBS" ++ AC_MSG_CHECKING([for $sgemm in -framework vecLib]) ++ AC_TRY_LINK_FUNC($sgemm, [ax_blas_ok=yes;BLAS_LIBS="-framework vecLib"]) ++ AC_MSG_RESULT($ax_blas_ok) ++ LIBS="$save_LIBS" ++fi ++ ++# BLAS in Alpha CXML library? ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(cxml, $sgemm, [ax_blas_ok=yes;BLAS_LIBS="-lcxml"]) ++fi ++ ++# BLAS in Alpha DXML library? (now called CXML, see above) ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(dxml, $sgemm, [ax_blas_ok=yes;BLAS_LIBS="-ldxml"]) ++fi ++ ++# BLAS in Sun Performance library? ++if test $ax_blas_ok = no; then ++ if test "x$GCC" != xyes; then # only works with Sun CC ++ AC_CHECK_LIB(sunmath, acosp, ++ [AC_CHECK_LIB(sunperf, $sgemm, ++ [BLAS_LIBS="-xlic_lib=sunperf -lsunmath" ++ ax_blas_ok=yes],[],[-lsunmath])]) ++ fi ++fi ++ ++# BLAS in SCSL library? (SGI/Cray Scientific Library) ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(scs, $sgemm, [ax_blas_ok=yes; BLAS_LIBS="-lscs"]) ++fi ++ ++# BLAS in SGIMATH library? ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(complib.sgimath, $sgemm, ++ [ax_blas_ok=yes; BLAS_LIBS="-lcomplib.sgimath"]) ++fi ++ ++# BLAS in IBM ESSL library? (requires generic BLAS lib, too) ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(blas, $sgemm, ++ [AC_CHECK_LIB(essl, $sgemm, ++ [ax_blas_ok=yes; BLAS_LIBS="-lessl -lblas"], ++ [], [-lblas $FLIBS])]) ++fi ++ ++# Generic BLAS library? ++if test $ax_blas_ok = no; then ++ AC_CHECK_LIB(blas, $sgemm, [ax_blas_ok=yes; BLAS_LIBS="-lblas"]) ++fi ++ ++AC_SUBST(BLAS_LIBS) ++ ++LIBS="$ax_blas_save_LIBS" ++ ++# Finally, execute ACTION-IF-FOUND/ACTION-IF-NOT-FOUND: ++if test x"$ax_blas_ok" = xyes; then ++ ifelse([$1],,AC_DEFINE(HAVE_BLAS,1,[Define if you have a BLAS library.]),[$1]) ++ : ++else ++ ax_blas_ok=no ++ $2 ++fi ++])dnl AX_BLAS +diff --git a/ax_lapack.m4 b/ax_lapack.m4 +new file mode 100644 +--- /dev/null ++++ b/ax_lapack.m4 +@@ -0,0 +1,131 @@ ++# =========================================================================== ++# http://www.gnu.org/software/autoconf-archive/ax_lapack.html ++# =========================================================================== ++# ++# SYNOPSIS ++# ++# AX_LAPACK([ACTION-IF-FOUND[, ACTION-IF-NOT-FOUND]]) ++# ++# DESCRIPTION ++# ++# This macro looks for a library that implements the LAPACK linear-algebra ++# interface (see http://www.netlib.org/lapack/). On success, it sets the ++# LAPACK_LIBS output variable to hold the requisite library linkages. ++# ++# To link with LAPACK, you should link with: ++# ++# $LAPACK_LIBS $BLAS_LIBS $LIBS $FLIBS ++# ++# in that order. BLAS_LIBS is the output variable of the AX_BLAS macro, ++# called automatically. FLIBS is the output variable of the ++# AC_F77_LIBRARY_LDFLAGS macro (called if necessary by AX_BLAS), and is ++# sometimes necessary in order to link with F77 libraries. Users will also ++# need to use AC_F77_DUMMY_MAIN (see the autoconf manual), for the same ++# reason. ++# ++# The user may also use --with-lapack= in order to use some specific ++# LAPACK library . In order to link successfully, however, be aware ++# that you will probably need to use the same Fortran compiler (which can ++# be set via the F77 env. var.) as was used to compile the LAPACK and BLAS ++# libraries. ++# ++# ACTION-IF-FOUND is a list of shell commands to run if a LAPACK library ++# is found, and ACTION-IF-NOT-FOUND is a list of commands to run it if it ++# is not found. If ACTION-IF-FOUND is not specified, the default action ++# will define HAVE_LAPACK. ++# ++# LICENSE ++# ++# Copyright (c) 2009 Steven G. Johnson ++# ++# This program is free software: you can redistribute it and/or modify it ++# under the terms of the GNU General Public License as published by the ++# Free Software Foundation, either version 3 of the License, or (at your ++# option) any later version. ++# ++# This program is distributed in the hope that it will be useful, but ++# WITHOUT ANY WARRANTY; without even the implied warranty of ++# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General ++# Public License for more details. ++# ++# You should have received a copy of the GNU General Public License along ++# with this program. If not, see . ++# ++# As a special exception, the respective Autoconf Macro's copyright owner ++# gives unlimited permission to copy, distribute and modify the configure ++# scripts that are the output of Autoconf when processing the Macro. You ++# need not follow the terms of the GNU General Public License when using ++# or distributing such scripts, even though portions of the text of the ++# Macro appear in them. The GNU General Public License (GPL) does govern ++# all other use of the material that constitutes the Autoconf Macro. ++# ++# This special exception to the GPL applies to versions of the Autoconf ++# Macro released by the Autoconf Archive. When you make and distribute a ++# modified version of the Autoconf Macro, you may extend this special ++# exception to the GPL to apply to your modified version as well. ++ ++#serial 7 ++ ++AU_ALIAS([ACX_LAPACK], [AX_LAPACK]) ++AC_DEFUN([AX_LAPACK], [ ++AC_REQUIRE([AX_BLAS]) ++ax_lapack_ok=no ++ ++AC_ARG_WITH(lapack, ++ [AS_HELP_STRING([--with-lapack=], [use LAPACK library ])]) ++case $with_lapack in ++ yes | "") ;; ++ no) ax_lapack_ok=disable ;; ++ -* | */* | *.a | *.so | *.so.* | *.o) LAPACK_LIBS="$with_lapack" ;; ++ *) LAPACK_LIBS="-l$with_lapack" ;; ++esac ++ ++# Get fortran linker name of LAPACK function to check for. ++AC_F77_FUNC(cheev) ++ ++# We cannot use LAPACK if BLAS is not found ++if test "x$ax_blas_ok" != xyes; then ++ ax_lapack_ok=noblas ++ LAPACK_LIBS="" ++fi ++ ++# First, check LAPACK_LIBS environment variable ++if test "x$LAPACK_LIBS" != x; then ++ save_LIBS="$LIBS"; LIBS="$LAPACK_LIBS $BLAS_LIBS $LIBS $FLIBS" ++ AC_MSG_CHECKING([for $cheev in $LAPACK_LIBS]) ++ AC_TRY_LINK_FUNC($cheev, [ax_lapack_ok=yes], [LAPACK_LIBS=""]) ++ AC_MSG_RESULT($ax_lapack_ok) ++ LIBS="$save_LIBS" ++ if test $ax_lapack_ok = no; then ++ LAPACK_LIBS="" ++ fi ++fi ++ ++# LAPACK linked to by default? (is sometimes included in BLAS lib) ++if test $ax_lapack_ok = no; then ++ save_LIBS="$LIBS"; LIBS="$LIBS $BLAS_LIBS $FLIBS" ++ AC_CHECK_FUNC($cheev, [ax_lapack_ok=yes]) ++ LIBS="$save_LIBS" ++fi ++ ++# Generic LAPACK library? ++for lapack in lapack lapack_rs6k; do ++ if test $ax_lapack_ok = no; then ++ save_LIBS="$LIBS"; LIBS="$BLAS_LIBS $LIBS" ++ AC_CHECK_LIB($lapack, $cheev, ++ [ax_lapack_ok=yes; LAPACK_LIBS="-l$lapack"], [], [$FLIBS]) ++ LIBS="$save_LIBS" ++ fi ++done ++ ++AC_SUBST(LAPACK_LIBS) ++ ++# Finally, execute ACTION-IF-FOUND/ACTION-IF-NOT-FOUND: ++if test x"$ax_lapack_ok" = xyes; then ++ ifelse([$1],,AC_DEFINE(HAVE_LAPACK,1,[Define if you have LAPACK library.]),[$1]) ++ : ++else ++ ax_lapack_ok=no ++ $2 ++fi ++])dnl AX_LAPACK +diff --git a/configure.ac b/configure.ac +new file mode 100644 +--- /dev/null ++++ b/configure.ac +@@ -0,0 +1,92 @@ ++# -*- Autoconf -*- ++# Process this file with autoconf to produce a configure script. ++ ++AC_PREREQ([2.69]) ++AC_INIT([SPQR],[1.3.1],[DrTimothyAldenDavis@gmail.com],[spqr],[http://www.suitesparse.com/]) ++AC_CONFIG_SRCDIR([Source/spqr_kernel.cpp]) ++AC_CONFIG_HEADERS([config.h]) ++AM_INIT_AUTOMAKE([foreign]) ++LT_INIT ++ ++# Checks for programs. ++AC_PROG_INSTALL ++AC_PROG_F77 ++AC_PROG_CC ++AC_PROG_CXX ++AC_LANG([C++]) ++ ++AC_MSG_CHECKING([whether to use expert routines]) ++AC_ARG_ENABLE([expert], ++ [AS_HELP_STRING( ++ [--disable-expert], ++ [compile without the min 2-norm solution option])], ++ [expert=$enableval], ++ [expert="yes"]) ++AC_MSG_RESULT([$expert]) ++ ++AC_MSG_CHECKING([whether to use tbb]) ++AC_ARG_WITH([tbb], ++ [AS_HELP_STRING( ++ [--without-tbb], ++ [do not use Intel Threading Building Blocks for multithreading])], ++ [tbb=$withval], ++ [tbb="yes"]) ++AC_MSG_RESULT([$tbb]) ++ ++LIBS_SAVED=$LIBS ++ ++# Checks for libraries. ++AC_CHECK_LIB([m], [sqrt]) ++ ++sinclude([ax_blas.m4]) ++AX_BLAS ++if test "x$ax_blas_ok" != "xyes"; then ++ AC_MSG_ERROR([cannot find blas]) ++fi ++ ++sinclude([ax_lapack.m4]) ++AX_LAPACK ++if test "x$ax_lapack_ok" != "xyes"; then ++ AC_MSG_ERROR([cannot find lapack]) ++fi ++ ++PKG_PROG_PKG_CONFIG ++PKG_CHECK_MODULES([SUITESPARSECONFIG],[suitesparseconfig], ++ [], ++ [AC_MSG_ERROR([cannot find suitesparseconfig])]) ++PKG_CHECK_MODULES([CHOLMOD],[cholmod], ++ [], ++ [AC_MSG_ERROR([cannot find cholmod])]) ++ ++# Checks for header files. ++AC_CHECK_HEADERS([float.h stdlib.h]) ++ ++if test "x$tbb" = "xyes"; then ++ AC_CHECK_HEADERS([tbb/task_scheduler_init.h tbb/task.h]) ++fi ++ ++# Checks for typedefs, structures, and compiler characteristics. ++AC_TYPE_SIZE_T ++ ++# Checks for library functions. ++AC_CHECK_FUNCS([sqrt]) ++ ++LIBS=$LIBS_SAVED ++ ++if test "x$tbb" = "xyes"; then ++ AC_SUBST([TBB_CFLAGS], [""]) ++ AC_SUBST([TBB_LIBS], ["-ltbb"]) ++fi ++ ++AM_CONDITIONAL([EXPERT], [test "x$expert" = "xyes"]) ++AM_CONDITIONAL([TBB], [test "x$tbb" = "xyes"]) ++ ++AC_CONFIG_FILES([ ++ spqr.pc ++ Makefile ++ Demo/Makefile ++ Doc/Makefile ++ Include/Makefile ++ Matrix/Makefile ++ Source/Makefile]) ++AC_OUTPUT +diff --git a/spqr.pc.in b/spqr.pc.in +new file mode 100644 +--- /dev/null ++++ b/spqr.pc.in +@@ -0,0 +1,13 @@ ++prefix=@prefix@ ++exec_prefix=@exec_prefix@ ++libdir=@libdir@ ++includedir=@includedir@ ++ ++Name: @PACKAGE_NAME@ ++Description: Multifrontal sparse QR factorization ++Version: @PACKAGE_VERSION@ ++URL: @PACKAGE_URL@ ++Requires.private: cholmod suitesparseconfig ++Libs: -L${libdir} -lspqr ++Libs.private: @TBB_LIBS@ @LAPACK_LIBS@ @BLAS_LIBS@ -lm ++Cflags: -I${includedir}/spqr diff --git a/academic/spqr/slack-desc b/academic/spqr/slack-desc new file mode 100644 index 0000000000..0e9a28613f --- /dev/null +++ b/academic/spqr/slack-desc @@ -0,0 +1,19 @@ +# HOW TO EDIT THIS FILE: +# The "handy ruler" below makes it easier to edit a package description. +# Line up the first '|' above the ':' following the base package name, and +# the '|' on the right side marks the last column you can put a character in. +# You must make exactly 11 lines for the formatting to be correct. It's also +# customary to leave one space after the ':' except on otherwise blank lines. + + |-----handy-ruler------------------------------------------------------| +spqr: SuiteSparseQR (sparse matrix factoring routines) +spqr: +spqr: SuiteSparseQR is an implementation of the multifrontal sparse QR +spqr: factorization method. Parallelism is exploited both in the BLAS +spqr: and across different frontal matrices using Intel's Threading +spqr: Building Blocks, a shared-memory programming model for modern +spqr: multicore architectures. It can obtain a substantial fraction of +spqr: the theoretical peak performance of a multicore computer. +spqr: +spqr: +spqr: diff --git a/academic/spqr/spqr.SlackBuild b/academic/spqr/spqr.SlackBuild new file mode 100644 index 0000000000..4b4723474d --- /dev/null +++ b/academic/spqr/spqr.SlackBuild @@ -0,0 +1,109 @@ +#!/bin/sh + +# Slackware build script for SPQR + +# Copyright 2013 Kyle Guinn , USA +# All rights reserved. +# +# Redistribution and use of this script, with or without modification, is +# permitted provided that the following conditions are met: +# +# 1. Redistributions of this script must retain the above copyright +# notice, this list of conditions and the following disclaimer. +# +# THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED +# WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF +# MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO +# EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, +# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, +# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; +# OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, +# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR +# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF +# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. + +PRGNAM=spqr +SRCNAM=SPQR +VERSION=${VERSION:-1.3.1} +BUILD=${BUILD:-1} +TAG=${TAG:-_SBo} + +if [ -z "$ARCH" ]; then + case "$(uname -m)" in + i?86) ARCH=i486 ;; + arm*) ARCH=arm ;; + *) ARCH=$(uname -m) ;; + esac +fi + +CWD=$(pwd) +TMP=${TMP:-/tmp/SBo} +PKG=$TMP/package-$PRGNAM +OUTPUT=${OUTPUT:-/tmp} + +DOCS="README.txt Doc/ChangeLog Doc/gpl.txt" + +if [ "$ARCH" = "i486" ]; then + SLKCFLAGS="-O2 -march=i486 -mtune=i686" + LIBDIRSUFFIX="" +elif [ "$ARCH" = "i686" ]; then + SLKCFLAGS="-O2 -march=i686 -mtune=i686" + LIBDIRSUFFIX="" +elif [ "$ARCH" = "x86_64" ]; then + SLKCFLAGS="-O2 -fPIC" + LIBDIRSUFFIX="64" +else + SLKCFLAGS="-O2" + LIBDIRSUFFIX="" +fi + +# Recommended by SuiteSparse +SLKCFLAGS="$SLKCFLAGS -fexceptions -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE" + +set -e + +rm -rf $PKG +mkdir -p $TMP $PKG $OUTPUT +cd $TMP +rm -rf $SRCNAM +tar xvf $CWD/$SRCNAM-$VERSION.tar.gz +cd $SRCNAM +chown -R root:root . +find -L . \ + \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \ + -o -perm 511 \) -exec chmod 755 {} \; -o \ + \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \ + -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; + +patch -p1 < $CWD/autotoolize.diff +patch -p1 < $CWD/atlas-threaded-blas.diff +autoreconf -vif + +CFLAGS="$SLKCFLAGS" \ +CXXFLAGS="$SLKCFLAGS" \ +./configure \ + --prefix=/usr \ + --libdir=/usr/lib${LIBDIRSUFFIX} \ + --sysconfdir=/etc \ + --localstatedir=/var \ + --mandir=/usr/man \ + --infodir=/usr/info \ + --docdir=/usr/doc/$PRGNAM-$VERSION \ + --enable-shared \ + --disable-static \ + --disable-dependency-tracking \ + --build=$ARCH-slackware-linux + +make +make check +make install-strip DESTDIR=$PKG + +mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION +cp -a $DOCS $PKG/usr/doc/$PRGNAM-$VERSION +cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild + +mkdir -p $PKG/install +cat $CWD/slack-desc > $PKG/install/slack-desc + +cd $PKG +/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.${PKGTYPE:-tgz} diff --git a/academic/spqr/spqr.info b/academic/spqr/spqr.info new file mode 100644 index 0000000000..497f3b9b88 --- /dev/null +++ b/academic/spqr/spqr.info @@ -0,0 +1,10 @@ +PRGNAM="spqr" +VERSION="1.3.1" +HOMEPAGE="https://www.cise.ufl.edu/research/sparse/SPQR/" +DOWNLOAD="https://www.cise.ufl.edu/research/sparse/SPQR/SPQR-1.3.1.tar.gz" +MD5SUM="c1a55e7ac6208f7657186aa01356c8f2" +DOWNLOAD_x86_64="" +MD5SUM_x86_64="" +REQUIRES="blas lapack suitesparseconfig cholmod tbb" +MAINTAINER="Kyle Guinn" +EMAIL="elyk03@gmail.com" -- cgit v1.2.3