diff options
Diffstat (limited to 'academic/cholmod')
| -rw-r--r-- | academic/cholmod/cholmod.SlackBuild | 14 | ||||
| -rw-r--r-- | academic/cholmod/cholmod.info | 4 | ||||
| -rw-r--r-- | academic/cholmod/patches/autoconfiscate.diff (renamed from academic/cholmod/patches/autotoolize.diff) | 1325 |
3 files changed, 1027 insertions, 316 deletions
diff --git a/academic/cholmod/cholmod.SlackBuild b/academic/cholmod/cholmod.SlackBuild index b3f38eb486..0c8f2a834b 100644 --- a/academic/cholmod/cholmod.SlackBuild +++ b/academic/cholmod/cholmod.SlackBuild @@ -2,7 +2,7 @@ # Slackware build script for CHOLMOD -# Copyright 2013-2016 Kyle Guinn <elyk03@gmail.com>, USA +# Copyright 2013-2017 Kyle Guinn <elyk03@gmail.com>, USA # All rights reserved. # # Redistribution and use of this script, with or without modification, is @@ -26,8 +26,8 @@ PRGNAM=cholmod SRCNAM=SuiteSparse SUBDIR=CHOLMOD VERSION=${VERSION:-3.0.11} -SRCVER=${SRCVER:-4.5.3} -BUILD=${BUILD:-1} +SRCVER=${SRCVER:-4.5.5} +BUILD=${BUILD:-2} TAG=${TAG:-_SBo} if [ -z "$ARCH" ]; then @@ -40,7 +40,7 @@ fi CWD=$(pwd) TMP=${TMP:-/tmp/SBo} -PKG=$TMP/package-$PRGNAM +PKG=$TMP/package-$PRGNAM-$VERSION OUTPUT=${OUTPUT:-/tmp} DOCS="README.txt Doc/ChangeLog Doc/License.txt Core/lesser.txt Modify/gpl.txt" @@ -76,8 +76,8 @@ cd $SRCNAM/$SUBDIR chown -R root:root . chmod -R u+w,go-w,a+rX-st . -patch -p1 < $CWD/patches/autotoolize.diff -patch -p2 < $CWD/patches/atlas-lib-rename.diff +patch -p1 < $CWD/patches/autoconfiscate.diff +patch -p1 < $CWD/patches/atlas-lib-rename.diff autoreconf -vif # Avoid rebuilding the docs. @@ -91,8 +91,6 @@ touch Doc/CHOLMOD_UserGuide.pdf --mandir=/usr/man \ --infodir=/usr/info \ --docdir=/usr/doc/$PRGNAM-$VERSION \ - --enable-shared \ - --disable-static \ --disable-dependency-tracking \ --build=$ARCH-slackware-linux \ CFLAGS="$SLKCFLAGS" \ diff --git a/academic/cholmod/cholmod.info b/academic/cholmod/cholmod.info index de2d55fc51..1a9c779f7b 100644 --- a/academic/cholmod/cholmod.info +++ b/academic/cholmod/cholmod.info @@ -1,8 +1,8 @@ PRGNAM="cholmod" VERSION="3.0.11" HOMEPAGE="http://faculty.cse.tamu.edu/davis/suitesparse.html" -DOWNLOAD="http://faculty.cse.tamu.edu/davis/SuiteSparse/SuiteSparse-4.5.3.tar.gz" -MD5SUM="8ec57324585df3c6483ad7f556afccbd" +DOWNLOAD="http://faculty.cse.tamu.edu/davis/SuiteSparse/SuiteSparse-4.5.5.tar.gz" +MD5SUM="0a5b38af0016f009409a9606d2f1b555" DOWNLOAD_x86_64="" MD5SUM_x86_64="" REQUIRES="blas lapack suitesparseconfig amd camd colamd ccolamd" diff --git a/academic/cholmod/patches/autotoolize.diff b/academic/cholmod/patches/autoconfiscate.diff index 4b2828cd27..bded898b4a 100644 --- a/academic/cholmod/patches/autotoolize.diff +++ b/academic/cholmod/patches/autoconfiscate.diff @@ -2,7 +2,7 @@ diff --git a/Check/Makefile.am b/Check/Makefile.am new file mode 100644 --- /dev/null +++ b/Check/Makefile.am -@@ -0,0 +1,25 @@ +@@ -0,0 +1,27 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) + +EXTRA_DIST = \ @@ -19,12 +19,14 @@ new file mode 100644 + libcheck.la + +libchecki_la_SOURCES = $(CHECKSRC) -+libchecki_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -+libchecki_la_CPPFLAGS = $(AM_CPPFLAGS) ++libchecki_la_LIBADD = $(SUITESPARSECONFIG_LIBS) $(CODE_COVERAGE_LIBS) ++libchecki_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libchecki_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libcheckl_la_SOURCES = $(CHECKSRC) -+libcheckl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -+libcheckl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libcheckl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) $(CODE_COVERAGE_LIBS) ++libcheckl_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libcheckl_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libcheck_la_SOURCES = +libcheck_la_LIBADD = libchecki.la libcheckl.la @@ -32,7 +34,7 @@ diff --git a/Cholesky/Makefile.am b/Cholesky/Makefile.am new file mode 100644 --- /dev/null +++ b/Cholesky/Makefile.am -@@ -0,0 +1,40 @@ +@@ -0,0 +1,42 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(COLAMD_CFLAGS) $(AMD_CFLAGS) $(SUITESPARSECONFIG_CFLAGS) + +EXTRA_DIST = \ @@ -64,12 +66,14 @@ new file mode 100644 + libcholesky.la + +libcholeskyi_la_SOURCES = $(CHOLESKYSRC) -+libcholeskyi_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm -+libcholeskyi_la_CPPFLAGS = $(AM_CPPFLAGS) ++libcholeskyi_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libcholeskyi_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libcholeskyi_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libcholeskyl_la_SOURCES = $(CHOLESKYSRC) -+libcholeskyl_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm -+libcholeskyl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libcholeskyl_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libcholeskyl_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libcholeskyl_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libcholesky_la_SOURCES = +libcholesky_la_LIBADD = libcholeskyi.la libcholeskyl.la @@ -77,7 +81,7 @@ diff --git a/Core/Makefile.am b/Core/Makefile.am new file mode 100644 --- /dev/null +++ b/Core/Makefile.am -@@ -0,0 +1,43 @@ +@@ -0,0 +1,45 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) + +EXTRA_DIST = \ @@ -112,12 +116,14 @@ new file mode 100644 + libcore.la + +libcorei_la_SOURCES = $(CORESRC) -+libcorei_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm -+libcorei_la_CPPFLAGS = $(AM_CPPFLAGS) ++libcorei_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libcorei_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libcorei_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libcorel_la_SOURCES = $(CORESRC) -+libcorel_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm -+libcorel_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libcorel_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libcorel_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libcorel_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libcore_la_SOURCES = +libcore_la_LIBADD = libcorei.la libcorel.la @@ -125,21 +131,34 @@ diff --git a/Demo/Makefile.am b/Demo/Makefile.am new file mode 100644 --- /dev/null +++ b/Demo/Makefile.am -@@ -0,0 +1,60 @@ +@@ -0,0 +1,142 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) + +EXTRA_DIST = \ + README.txt \ + gpl.txt + -+dist_noinst_HEADERS = \ -+ cholmod_demo.h -+ +dist_noinst_DATA = \ ++ Matrix/0.tri \ + Matrix/bcsstk01.tri \ -+ Matrix/lp_afiro.tri \ ++ Matrix/bcsstk02.tri \ ++ Matrix/c.mtx \ ++ Matrix/c.tri \ + Matrix/can___24.mtx \ -+ Matrix/c.tri ++ Matrix/d.tri \ ++ Matrix/empty.tri \ ++ Matrix/lp_afiro.tri \ ++ Matrix/mangle1.mtx \ ++ Matrix/mangle2.mtx \ ++ Matrix/mangle3.mtx \ ++ Matrix/mangle4.mtx \ ++ Matrix/mangle5.tri \ ++ Matrix/mangle6.tri \ ++ Matrix/mangle7.tri \ ++ Matrix/mangle8.tri \ ++ Matrix/one.tri \ ++ Matrix/pts5ldd03.mtx \ ++ Matrix/up.tri + +noinst_PROGRAMS = \ + reade \ @@ -150,42 +169,111 @@ new file mode 100644 +readhb_SOURCES = readhb.f +readhb2_SOURCES = readhb2.f + -+if MOD_CHOLESKY +if MOD_CHECK -+if MOD_MATRIXOPS ++if MOD_CHOLESKY + +check_PROGRAMS = \ + cholmod_demo \ + cholmod_l_demo \ + cholmod_simple + -+cholmod_demo_SOURCES = cholmod_demo.c ++cholmod_demo_SOURCES = cholmod_demo.c cholmod_demo.h +cholmod_demo_LDADD = $(top_builddir)/libcholmod.la $(SUITESPARSECONFIG_LIBS) + -+cholmod_l_demo_SOURCES = cholmod_l_demo.c ++cholmod_l_demo_SOURCES = cholmod_l_demo.c cholmod_demo.h +cholmod_l_demo_LDADD = $(top_builddir)/libcholmod.la $(SUITESPARSECONFIG_LIBS) ++cholmod_l_demo_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG + +cholmod_simple_SOURCES = cholmod_simple.c +cholmod_simple_LDADD = $(top_builddir)/libcholmod.la + -+check-local: $(check_PROGRAMS) $(dist_noinst_DATA) -+ ./cholmod_demo < $(srcdir)/Matrix/bcsstk01.tri ++if !CODE_COVERAGE_ENABLED ++MATRICES = \ ++ $(srcdir)/Matrix/bcsstk01.tri \ ++ $(srcdir)/Matrix/c.tri \ ++ $(srcdir)/Matrix/can___24.mtx \ ++ $(srcdir)/Matrix/lp_afiro.tri ++ ++check-local: $(check_PROGRAMS) $(MATRICES) ++ ./cholmod_demo < $(srcdir)/Matrix/bcsstk01.tri + ./cholmod_l_demo < $(srcdir)/Matrix/bcsstk01.tri -+ ./cholmod_demo < $(srcdir)/Matrix/lp_afiro.tri ++ ./cholmod_demo < $(srcdir)/Matrix/lp_afiro.tri + ./cholmod_l_demo < $(srcdir)/Matrix/lp_afiro.tri -+ ./cholmod_demo < $(srcdir)/Matrix/can___24.mtx ++ ./cholmod_demo < $(srcdir)/Matrix/can___24.mtx + ./cholmod_l_demo < $(srcdir)/Matrix/can___24.mtx -+ ./cholmod_demo < $(srcdir)/Matrix/c.tri ++ ./cholmod_demo < $(srcdir)/Matrix/c.tri + ./cholmod_l_demo < $(srcdir)/Matrix/c.tri + ./cholmod_simple < $(srcdir)/Matrix/c.tri + ./cholmod_simple < $(srcdir)/Matrix/can___24.mtx + ./cholmod_simple < $(srcdir)/Matrix/bcsstk01.tri + ++else ++MATRICES = \ ++ $(srcdir)/Matrix/0.tri \ ++ $(srcdir)/Matrix/bcsstk01.tri \ ++ $(srcdir)/Matrix/bcsstk02.tri \ ++ $(srcdir)/Matrix/c.mtx \ ++ $(srcdir)/Matrix/c.tri \ ++ $(srcdir)/Matrix/can___24.mtx \ ++ $(srcdir)/Matrix/d.tri \ ++ $(srcdir)/Matrix/lp_afiro.tri \ ++ $(srcdir)/Matrix/mangle1.mtx \ ++ $(srcdir)/Matrix/mangle2.mtx \ ++ $(srcdir)/Matrix/mangle3.mtx \ ++ $(srcdir)/Matrix/mangle4.mtx \ ++ $(srcdir)/Matrix/pts5ldd03.mtx \ ++ $(srcdir)/Matrix/up.tri \ ++ $(top_srcdir)/Tcov/Matrix/3_2 \ ++ $(top_srcdir)/Tcov/Matrix/c10 \ ++ $(top_srcdir)/Tcov/Matrix/c5lo ++ ++check-local: $(check_PROGRAMS) $(MATRICES) ++ ./cholmod_demo $(srcdir)/Matrix/bcsstk01.tri > demo_k1.out ++ ./cholmod_demo $(srcdir)/Matrix/bcsstk02.tri > demo_k2.out ++ ./cholmod_demo < $(srcdir)/Matrix/lp_afiro.tri > demo_afiro.out ++ ./cholmod_demo < $(srcdir)/Matrix/can___24.mtx > demo_can24.out ++ ./cholmod_demo < $(srcdir)/Matrix/c.tri > demo_c.out ++ ./cholmod_demo < $(srcdir)/Matrix/d.tri > demo_d.out ++ ./cholmod_demo < $(srcdir)/Matrix/up.tri > demo_up.out ++ ./cholmod_demo < $(srcdir)/Matrix/c.mtx > demo_c_mtx.out ++ ./cholmod_demo < $(srcdir)/Matrix/0.tri > demo_0.out ++ ./cholmod_demo < $(top_srcdir)/Tcov/Matrix/3_2 > demo_3_2.out ++ ./cholmod_demo < $(top_srcdir)/Tcov/Matrix/c5lo > demo_c5lo.out ++ ./cholmod_demo < $(top_srcdir)/Tcov/Matrix/c10 > demo_c10.out ++ ./cholmod_demo no_such_file > demo_no_such_file.out ++ ./cholmod_demo $(srcdir)/Matrix/mangle1.mtx > demo_mangle1.out ++ ./cholmod_demo $(srcdir)/Matrix/mangle2.mtx > demo_mangle2.out ++ ./cholmod_demo $(srcdir)/Matrix/mangle3.mtx > demo_mangle3.out ++ ./cholmod_demo $(srcdir)/Matrix/mangle4.mtx > demo_mangle4.out ++ ./cholmod_demo $(srcdir)/Matrix/pts5ldd03.mtx > demo_pts5ldd03.out ++ ./cholmod_l_demo $(srcdir)/Matrix/bcsstk01.tri > ldemo_k1.out ++ ./cholmod_l_demo $(srcdir)/Matrix/bcsstk02.tri > ldemo_k2.out ++ ./cholmod_l_demo < $(srcdir)/Matrix/lp_afiro.tri > ldemo_afiro.out ++ ./cholmod_l_demo < $(srcdir)/Matrix/can___24.mtx > ldemo_can24.out ++ ./cholmod_l_demo < $(srcdir)/Matrix/c.tri > ldemo_c.out ++ ./cholmod_l_demo $(srcdir)/Matrix/c.tri 1 > ldemo_c_zomplex.out ++ ./cholmod_l_demo < $(srcdir)/Matrix/d.tri > ldemo_d.out ++ ./cholmod_l_demo $(srcdir)/Matrix/d.tri 1 > ldemo_d.out ++ ./cholmod_l_demo < $(srcdir)/Matrix/up.tri > ldemo_up.out ++ ./cholmod_l_demo $(srcdir)/Matrix/up.tri 1 > ldemo_up_zomplex.out ++ ./cholmod_l_demo < $(srcdir)/Matrix/c.mtx > ldemo_c_mtx.out ++ ./cholmod_l_demo $(srcdir)/Matrix/c.mtx 1 > ldemo_c_mtx_zomplex.out ++ ./cholmod_l_demo < $(srcdir)/Matrix/0.tri > ldemo_0.out ++ ./cholmod_l_demo < $(top_srcdir)/Tcov/Matrix/3_2 > ldemo_3_2.out ++ ./cholmod_l_demo < $(top_srcdir)/Tcov/Matrix/c5lo > ldemo_c5lo.out ++ ./cholmod_l_demo < $(top_srcdir)/Tcov/Matrix/c10 > ldemo_c10.out ++ ./cholmod_l_demo no_such_file > ldemo_no_such_file.out ++ ./cholmod_l_demo $(srcdir)/Matrix/mangle1.mtx > ldemo_mangle1.out ++ ./cholmod_l_demo $(srcdir)/Matrix/mangle2.mtx > ldemo_mangle2.out ++ ./cholmod_l_demo $(srcdir)/Matrix/mangle3.mtx > ldemo_mangle3.out ++ ./cholmod_l_demo $(srcdir)/Matrix/mangle4.mtx > ldemo_mangle4.out ++ ./cholmod_l_demo $(srcdir)/Matrix/pts5ldd03.mtx > ldemo_pts5ldd03.out +endif ++ +endif +endif + -+CLEANFILES = timelog.m ++CLEANFILES = timelog.m *.out diff --git a/Doc/Makefile.am b/Doc/Makefile.am new file mode 100644 --- /dev/null @@ -637,7 +725,7 @@ diff --git a/GPU/Makefile.am b/GPU/Makefile.am new file mode 100644 --- /dev/null +++ b/GPU/Makefile.am -@@ -0,0 +1,26 @@ +@@ -0,0 +1,30 @@ +AM_CFLAGS = $(OPENMP_CFLAGS) +AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) + @@ -657,10 +745,14 @@ new file mode 100644 + libgpu.la + +libgpui_la_SOURCES = $(GPUSRC) -+libgpui_la_CPPFLAGS = $(AM_CPPFLAGS) ++libgpui_la_LIBADD = $(CODE_COVERAGE_LIBS) ++libgpui_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libgpui_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libgpul_la_SOURCES = $(GPUSRC) -+libgpul_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libgpul_la_LIBADD = $(CODE_COVERAGE_LIBS) ++libgpul_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libgpul_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libgpu_la_SOURCES = +libgpu_la_LIBADD = libgpui.la libgpul.la @@ -803,7 +895,9 @@ diff --git a/Makefile.am b/Makefile.am new file mode 100644 --- /dev/null +++ b/Makefile.am -@@ -0,0 +1,47 @@ +@@ -0,0 +1,52 @@ ++ACLOCAL_AMFLAGS = -I m4 ++ +SUBDIRS = Include Core +EXTRA_DIST = README.txt + @@ -850,12 +944,15 @@ new file mode 100644 +libcholmod_la_LIBADD += $(top_builddir)/GPU/libgpu.la +endif + -+SUBDIRS += MATLAB Demo Doc ++SUBDIRS += . MATLAB Demo Tcov Doc ++ ++CODE_COVERAGE_BRANCH_COVERAGE = 1 ++@CODE_COVERAGE_RULES@ diff --git a/MatrixOps/Makefile.am b/MatrixOps/Makefile.am new file mode 100644 --- /dev/null +++ b/MatrixOps/Makefile.am -@@ -0,0 +1,34 @@ +@@ -0,0 +1,36 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) + +EXTRA_DIST = \ @@ -881,12 +978,14 @@ new file mode 100644 + libmatrixops.la + +libmatrixopsi_la_SOURCES = $(MATRIXOPSSRC) -+libmatrixopsi_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm -+libmatrixopsi_la_CPPFLAGS = $(AM_CPPFLAGS) ++libmatrixopsi_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libmatrixopsi_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libmatrixopsi_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libmatrixopsl_la_SOURCES = $(MATRIXOPSSRC) -+libmatrixopsl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm -+libmatrixopsl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libmatrixopsl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libmatrixopsl_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libmatrixopsl_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libmatrixops_la_SOURCES = +libmatrixops_la_LIBADD = libmatrixopsi.la libmatrixopsl.la @@ -894,7 +993,7 @@ diff --git a/Modify/Makefile.am b/Modify/Makefile.am new file mode 100644 --- /dev/null +++ b/Modify/Makefile.am -@@ -0,0 +1,29 @@ +@@ -0,0 +1,31 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) + +EXTRA_DIST = \ @@ -915,12 +1014,14 @@ new file mode 100644 + libmodify.la + +libmodifyi_la_SOURCES = $(MODIFYSRC) -+libmodifyi_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm -+libmodifyi_la_CPPFLAGS = $(AM_CPPFLAGS) ++libmodifyi_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libmodifyi_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libmodifyi_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libmodifyl_la_SOURCES = $(MODIFYSRC) -+libmodifyl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm -+libmodifyl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libmodifyl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libmodifyl_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libmodifyl_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libmodify_la_SOURCES = +libmodify_la_LIBADD = libmodifyi.la libmodifyl.la @@ -928,7 +1029,7 @@ diff --git a/Partition/Makefile.am b/Partition/Makefile.am new file mode 100644 --- /dev/null +++ b/Partition/Makefile.am -@@ -0,0 +1,33 @@ +@@ -0,0 +1,35 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(METIS_CFLAGS) $(CCOLAMD_CFLAGS) $(CAMD_CFLAGS) $(SUITESPARSECONFIG_CFLAGS) + +EXTRA_DIST = \ @@ -948,12 +1049,14 @@ new file mode 100644 + libpartition.la + +libpartitioni_la_SOURCES = $(PARTITIONSRC) -+libpartitioni_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm -+libpartitioni_la_CPPFLAGS = $(AM_CPPFLAGS) ++libpartitioni_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libpartitioni_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libpartitioni_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libpartitionl_la_SOURCES = $(PARTITIONSRC) -+libpartitionl_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm -+libpartitionl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libpartitionl_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libpartitionl_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libpartitionl_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +if MOD_PARTITION_METIS +libpartitioni_la_SOURCES += $(METISSRC) @@ -966,7 +1069,7 @@ diff --git a/Supernodal/Makefile.am b/Supernodal/Makefile.am new file mode 100644 --- /dev/null +++ b/Supernodal/Makefile.am -@@ -0,0 +1,35 @@ +@@ -0,0 +1,37 @@ +AM_CFLAGS = $(OPENMP_CFLAGS) +AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) + @@ -988,12 +1091,14 @@ new file mode 100644 + libsupernodal.la + +libsupernodali_la_SOURCES = $(SUPERNODALSRC) -+libsupernodali_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS) -+libsupernodali_la_CPPFLAGS = $(AM_CPPFLAGS) ++libsupernodali_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS) $(CODE_COVERAGE_LIBS) ++libsupernodali_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libsupernodali_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +libsupernodall_la_SOURCES = $(SUPERNODALSRC) -+libsupernodall_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS) -+libsupernodall_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++libsupernodall_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS) $(CODE_COVERAGE_LIBS) ++libsupernodall_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) -DDLONG ++libsupernodall_la_CFLAGS = $(AM_CFLAGS) $(CODE_COVERAGE_CFLAGS) + +if !TIMING +libsupernodali_la_CPPFLAGS += -DNTIMER @@ -1002,13 +1107,592 @@ new file mode 100644 + +libsupernodal_la_SOURCES = +libsupernodal_la_LIBADD = libsupernodali.la libsupernodall.la -diff --git a/ax_blas.m4 b/ax_blas.m4 +diff --git a/Tcov/Makefile.am b/Tcov/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Tcov/Makefile.am +@@ -0,0 +1,330 @@ ++AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS) ++ ++EXTRA_DIST = \ ++ README.txt \ ++ gpl.txt ++ ++dist_noinst_DATA = \ ++ comments.txt \ ++ Matrix/0 \ ++ Matrix/0_1 \ ++ Matrix/1_0 \ ++ Matrix/1e99 \ ++ Matrix/2.tri \ ++ Matrix/20lo \ ++ Matrix/2diag.tri \ ++ Matrix/2lo.tri \ ++ Matrix/2up.tri \ ++ Matrix/3_2 \ ++ Matrix/3b \ ++ Matrix/3by0.mtx \ ++ Matrix/3singular \ ++ Matrix/5by50 \ ++ Matrix/C9840 \ ++ Matrix/afiro \ ++ Matrix/c10 \ ++ Matrix/c30lo \ ++ Matrix/c30up \ ++ Matrix/c3singular \ ++ Matrix/c5lo \ ++ Matrix/c5up2 \ ++ Matrix/cha.mtx \ ++ Matrix/cpi \ ++ Matrix/crud1 \ ++ Matrix/crud2 \ ++ Matrix/cs.mtx \ ++ Matrix/csa.mtx \ ++ Matrix/cza \ ++ Matrix/cza.mtx \ ++ Matrix/diag \ ++ Matrix/ex5lo \ ++ Matrix/fullcha.mtx \ ++ Matrix/fullcrud.mtx \ ++ Matrix/fullcrud1.mtx \ ++ Matrix/fullcrud2.mtx \ ++ Matrix/fullcsa.mtx \ ++ Matrix/fullcza.mtx \ ++ Matrix/fullrsa.mtx \ ++ Matrix/fullrza.mtx \ ++ Matrix/galenet \ ++ Matrix/huge.tri \ ++ Matrix/ibm32 \ ++ Matrix/k01up \ ++ Matrix/one \ ++ Matrix/pi \ ++ Matrix/plskz362.mtx \ ++ Matrix/r5lo \ ++ Matrix/r5lo2 \ ++ Matrix/r5up \ ++ Matrix/r5up2 \ ++ Matrix/rza.mtx \ ++ Matrix/z10 \ ++ Matrix/z30lo \ ++ Matrix/z30up \ ++ Matrix/z3singular \ ++ Matrix/z5lo \ ++ Matrix/z5up \ ++ Matrix/z5up2 \ ++ Matrix/zero ++ ++TEST = \ ++ amdtest.c \ ++ aug.c \ ++ camdtest.c \ ++ cctest.c \ ++ cm.c \ ++ cm.h \ ++ ctest.c \ ++ huge.c \ ++ lpdemo.c \ ++ memory.c \ ++ null.c \ ++ null2.c \ ++ raw_factor.c \ ++ solve.c \ ++ test_ops.c \ ++ unpack.c ++ ++if MOD_CHECK ++if MOD_CHOLESKY ++if MOD_PARTITION ++if MOD_MATRIXOPS ++if MOD_MODIFY ++if MOD_SUPERNODAL ++if CODE_COVERAGE_ENABLED ++ ++check_PROGRAMS = \ ++ cm \ ++ cl \ ++ cmread \ ++ clread ++ ++cm_SOURCES = $(TEST) ++cm_LDADD = $(top_builddir)/libcholmod.la $(COLAMD_LIBS) $(AMD_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS) ++cm_CPPFLAGS = $(AM_CPPFLAGS) $(COLAMD_CFLAGS) $(AMD_CFLAGS) $(CCOLAMD_CFLAGS) $(CAMD_CFLAGS) ++ ++cl_SOURCES = $(TEST) ++cl_LDADD = $(top_builddir)/libcholmod.la $(COLAMD_LIBS) $(AMD_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS) ++cl_CPPFLAGS = $(AM_CPPFLAGS) $(COLAMD_CFLAGS) $(AMD_CFLAGS) $(CCOLAMD_CFLAGS) $(CAMD_CFLAGS) -DDLONG ++ ++cmread_SOURCES = cmread.c ++cmread_LDADD = $(top_builddir)/libcholmod.la ++ ++clread_SOURCES = cmread.c ++clread_LDADD = $(top_builddir)/libcholmod.la ++clread_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG ++ ++MATRICES = \ ++ $(srcdir)/Matrix/0 \ ++ $(srcdir)/Matrix/0_1 \ ++ $(srcdir)/Matrix/1_0 \ ++ $(srcdir)/Matrix/1e99 \ ++ $(srcdir)/Matrix/2.tri \ ++ $(srcdir)/Matrix/20lo \ ++ $(srcdir)/Matrix/2diag.tri \ ++ $(srcdir)/Matrix/2lo.tri \ ++ $(srcdir)/Matrix/2up.tri \ ++ $(srcdir)/Matrix/3b \ ++ $(srcdir)/Matrix/3by0.mtx \ ++ $(srcdir)/Matrix/3singular \ ++ $(srcdir)/Matrix/5by50 \ ++ $(srcdir)/Matrix/C9840 \ ++ $(srcdir)/Matrix/afiro \ ++ $(srcdir)/Matrix/c10 \ ++ $(srcdir)/Matrix/c30lo \ ++ $(srcdir)/Matrix/c30up \ ++ $(srcdir)/Matrix/c3singular \ ++ $(srcdir)/Matrix/c5lo \ ++ $(srcdir)/Matrix/c5up2 \ ++ $(srcdir)/Matrix/cha.mtx \ ++ $(srcdir)/Matrix/cpi \ ++ $(srcdir)/Matrix/crud1 \ ++ $(srcdir)/Matrix/crud2 \ ++ $(srcdir)/Matrix/cs.mtx \ ++ $(srcdir)/Matrix/csa.mtx \ ++ $(srcdir)/Matrix/cza \ ++ $(srcdir)/Matrix/cza.mtx \ ++ $(srcdir)/Matrix/diag \ ++ $(srcdir)/Matrix/ex5lo \ ++ $(srcdir)/Matrix/fullcha.mtx \ ++ $(srcdir)/Matrix/fullcrud.mtx \ ++ $(srcdir)/Matrix/fullcrud1.mtx \ ++ $(srcdir)/Matrix/fullcrud2.mtx \ ++ $(srcdir)/Matrix/fullcsa.mtx \ ++ $(srcdir)/Matrix/fullcza.mtx \ ++ $(srcdir)/Matrix/fullrsa.mtx \ ++ $(srcdir)/Matrix/fullrza.mtx \ ++ $(srcdir)/Matrix/galenet \ ++ $(srcdir)/Matrix/huge.tri \ ++ $(srcdir)/Matrix/ibm32 \ ++ $(srcdir)/Matrix/k01up \ ++ $(srcdir)/Matrix/one \ ++ $(srcdir)/Matrix/pi \ ++ $(srcdir)/Matrix/plskz362.mtx \ ++ $(srcdir)/Matrix/r5lo \ ++ $(srcdir)/Matrix/r5lo2 \ ++ $(srcdir)/Matrix/r5up \ ++ $(srcdir)/Matrix/r5up2 \ ++ $(srcdir)/Matrix/rza.mtx \ ++ $(srcdir)/Matrix/z10 \ ++ $(srcdir)/Matrix/z30lo \ ++ $(srcdir)/Matrix/z30up \ ++ $(srcdir)/Matrix/z3singular \ ++ $(srcdir)/Matrix/z5lo \ ++ $(srcdir)/Matrix/z5up \ ++ $(srcdir)/Matrix/z5up2 \ ++ $(srcdir)/Matrix/zero \ ++ $(top_srcdir)/Demo/Matrix/empty.tri \ ++ $(top_srcdir)/Demo/Matrix/mangle5.tri \ ++ $(top_srcdir)/Demo/Matrix/mangle6.tri \ ++ $(top_srcdir)/Demo/Matrix/mangle7.tri \ ++ $(top_srcdir)/Demo/Matrix/mangle8.tri \ ++ $(top_srcdir)/Demo/Matrix/one.tri ++ ++check-local: $(check_PROGRAMS) $(MATRICES) ++ ./cmread no_such_file > no_such_file.out ++ ./cmread $(srcdir)/Matrix/crud1 > crud1.out ++ ./cmread $(srcdir)/Matrix/crud2 > crud2.out ++ ./cmread $(srcdir)/Matrix/fullcrud.mtx > fullcrud.out ++ ./cmread $(srcdir)/Matrix/fullcrud1.mtx > fullcrud1.out ++ ./cmread $(srcdir)/Matrix/fullcrud2.mtx > fullcrud2.out ++ ./cmread $(srcdir)/Matrix/3by0.mtx > 3by0.out ++ ./cmread $(srcdir)/Matrix/fullrza.mtx > fullrza.out ++ ./cmread $(srcdir)/Matrix/fullrsa.mtx > fullrsa.out ++ ./cmread $(srcdir)/Matrix/fullcsa.mtx > fullcsa.out ++ ./cmread $(srcdir)/Matrix/fullcza.mtx > fullcza.out ++ ./cmread $(srcdir)/Matrix/fullcha.mtx > fullcha.out ++ ./cmread $(srcdir)/Matrix/cha.mtx > cha.out ++ ./cmread $(srcdir)/Matrix/cza.mtx > cza.out ++ ./cmread $(srcdir)/Matrix/csa.mtx > csa.out ++ ./cmread $(srcdir)/Matrix/one > one.out ++ ./cmread $(srcdir)/Matrix/rza.mtx > rza.out ++ ./cmread $(top_srcdir)/Demo/Matrix/mangle5.tri > mangle5.out ++ ./cmread $(top_srcdir)/Demo/Matrix/mangle6.tri > mangle6.out ++ ./cmread $(top_srcdir)/Demo/Matrix/mangle7.tri > mangle6.out ++ ./cmread $(top_srcdir)/Demo/Matrix/mangle8.tri > mangle8.out ++ ./cmread $(top_srcdir)/Demo/Matrix/empty.tri > empty.out ++ ./cmread $(top_srcdir)/Demo/Matrix/one.tri > one.out ++ ./cmread $(srcdir)/Matrix/plskz362.mtx > plskz363.out ++ ./cmread $(srcdir)/Matrix/2diag.tri > 2diag.out ++ ./cmread $(srcdir)/Matrix/r5lo > r5lo.out ++ ./cmread $(srcdir)/Matrix/r5lo2 > r5lo2.out ++ ./cmread $(srcdir)/Matrix/cs.mtx > cs.out ++ ./cmread $(srcdir)/Matrix/2lo.tri > 2lo.out ++ ./cmread $(srcdir)/Matrix/2.tri > 2.out ++ ./cmread $(srcdir)/Matrix/2up.tri > 2up.out ++ ./cmread $(srcdir)/Matrix/huge.tri > huge.out ++ ./cmread $(srcdir)/Matrix/1e99 > 1e99.out ++ ./clread no_such_file > l_no_such_file.out ++ ./clread $(srcdir)/Matrix/crud1 > l_crud1.out ++ ./clread $(srcdir)/Matrix/crud2 > l_crud2.out ++ ./clread $(srcdir)/Matrix/fullcrud.mtx > l_fullcrud.out ++ ./clread $(srcdir)/Matrix/fullcrud1.mtx > l_fullcrud1.out ++ ./clread $(srcdir)/Matrix/fullcrud2.mtx > l_fullcrud2.out ++ ./clread $(srcdir)/Matrix/3by0.mtx > l_3by0.out ++ ./clread $(srcdir)/Matrix/fullrza.mtx > l_fullrza.out ++ ./clread $(srcdir)/Matrix/fullrsa.mtx > l_fullrsa.out ++ ./clread $(srcdir)/Matrix/fullcsa.mtx > l_fullcsa.out ++ ./clread $(srcdir)/Matrix/fullcza.mtx > l_fullcza.out ++ ./clread $(srcdir)/Matrix/fullcha.mtx > l_fullcha.out ++ ./clread $(srcdir)/Matrix/cha.mtx > l_cha.out ++ ./clread $(srcdir)/Matrix/cza.mtx > l_cza.out ++ ./clread $(srcdir)/Matrix/csa.mtx > l_csa.out ++ ./clread $(srcdir)/Matrix/one > l_one.out ++ ./clread $(srcdir)/Matrix/rza.mtx > l_rza.out ++ ./clread $(top_srcdir)/Demo/Matrix/mangle5.tri > l_mangle5.out ++ ./clread $(top_srcdir)/Demo/Matrix/mangle6.tri > l_mangle6.out ++ ./clread $(top_srcdir)/Demo/Matrix/mangle7.tri > l_mangle6.out ++ ./clread $(top_srcdir)/Demo/Matrix/mangle8.tri > l_mangle8.out ++ ./clread $(top_srcdir)/Demo/Matrix/empty.tri > l_empty.out ++ ./clread $(top_srcdir)/Demo/Matrix/one.tri > l_one.out ++ ./clread $(srcdir)/Matrix/plskz362.mtx > l_plskz363.out ++ ./clread $(srcdir)/Matrix/2diag.tri > l_2diag.out ++ ./clread $(srcdir)/Matrix/r5lo > l_r5lo.out ++ ./clread $(srcdir)/Matrix/r5lo2 > l_r5lo2.out ++ ./clread $(srcdir)/Matrix/cs.mtx > l_cs.out ++ ./clread $(srcdir)/Matrix/2lo.tri > l_l_2lo.out ++ ./clread $(srcdir)/Matrix/2.tri > l_2.out ++ ./clread $(srcdir)/Matrix/2up.tri > l_2up.out ++ ./clread $(srcdir)/Matrix/huge.tri > l_huge.out ++ ./clread $(srcdir)/Matrix/1e99 > l_1e99.out ++ ./cm < $(srcdir)/Matrix/galenet > galenet.out ++ ./cl < $(srcdir)/Matrix/galenet > l_galenet.out ++ ./cm < $(srcdir)/Matrix/5by50 > 5by50.out ++ ./cl < $(srcdir)/Matrix/5by50 > l_5by50.out ++ ./cm < $(srcdir)/Matrix/r5lo > r5lo.out ++ ./cl < $(srcdir)/Matrix/r5lo > l_r5lo.out ++ ./cm < $(srcdir)/Matrix/r5up > r5up.out ++ ./cl < $(srcdir)/Matrix/r5up > l_r5up.out ++ ./cm < $(srcdir)/Matrix/r5up2 > r5up2.out ++ ./cl < $(srcdir)/Matrix/r5up2 > l_r5up2.out ++ ./cm < $(srcdir)/Matrix/c5up2 > c5up2.out ++ ./cl < $(srcdir)/Matrix/c5up2 > l_c5up2.out ++ ./cm < $(srcdir)/Matrix/z5up2 > z5up2.out ++ ./cl < $(srcdir)/Matrix/z5up2 > l_z5up2.out ++ ./cm -m < $(srcdir)/Matrix/z5lo > z5lo.out ++ ./cl -m < $(srcdir)/Matrix/z5lo > l_z5lo.out ++ ./cm < $(srcdir)/Matrix/ibm32 > ibm.out ++ ./cl < $(srcdir)/Matrix/ibm32 > l_ibm.out ++ ./cm -m < $(srcdir)/Matrix/c5lo > c5lo.out ++ ./cl -m < $(srcdir)/Matrix/c5lo > l_c5lo.out ++ ./cm -m < $(srcdir)/Matrix/z10 > z10.out ++ ./cl -m < $(srcdir)/Matrix/z10 > l_z10.out ++ ./cm -m < $(srcdir)/Matrix/z5up > z5up.out ++ ./cl -m < $(srcdir)/Matrix/z5up > l_z5up.out ++ ./cm -s < $(srcdir)/Matrix/3singular > 3singular.out ++ ./cl -s < $(srcdir)/Matrix/3singular > l_3singular.out ++ ./cm -s < $(srcdir)/Matrix/z3singular > z3singular.out ++ ./cl -s < $(srcdir)/Matrix/z3singular > l_z3singular.out ++ ./cm -s < $(srcdir)/Matrix/c3singular > c3singular.out ++ ./cl -s < $(srcdir)/Matrix/c3singular > l_c3singular.out ++ ./cm -m < $(srcdir)/Matrix/0 > 0.out ++ ./cl -m < $(srcdir)/Matrix/0 > l_0.out ++ ./cm -m < $(srcdir)/Matrix/afiro > afiro.out ++ ./cl -m < $(srcdir)/Matrix/afiro > l_afiro.out ++ ./cm -m < $(srcdir)/Matrix/k01up > k01up.out ++ ./cl -m < $(srcdir)/Matrix/k01up > l_k01up.out ++ ./cm < $(srcdir)/Matrix/diag > diag.out ++ ./cl < $(srcdir)/Matrix/diag > l_diag.out ++ ./cm -m < $(srcdir)/Matrix/ex5lo > ex5lo.out ++ ./cl -m < $(srcdir)/Matrix/ex5lo > l_ex5lo.out ++ ./cm < $(srcdir)/Matrix/20lo > 20lo.out ++ ./cl < $(srcdir)/Matrix/20lo > l_20lo.out ++ ./cm < $(srcdir)/Matrix/z30lo > z30lo.out ++ ./cl < $(srcdir)/Matrix/z30lo > l_z30lo.out ++ ./cm -m < $(srcdir)/Matrix/z30up > z30up.out ++ ./cl -m < $(srcdir)/Matrix/z30up > l_z30up.out ++ ./cm < $(srcdir)/Matrix/c10 > c10.out ++ ./cl < $(srcdir)/Matrix/c10 > l_c10.out ++ ./cm < $(srcdir)/Matrix/c30lo > c30lo.out ++ ./cl < $(srcdir)/Matrix/c30lo > l_c30lo.out ++ ./cm < $(srcdir)/Matrix/C9840 > C9840.out ++ ./cl < $(srcdir)/Matrix/C9840 > l_C9840.out ++ ./cm -m < $(srcdir)/Matrix/c30up > c30up.out ++ ./cl -m < $(srcdir)/Matrix/c30up > l_c30up.out ++ ./cm < $(srcdir)/Matrix/pi > pi.out ++ ./cl < $(srcdir)/Matrix/pi > l_pi.out ++ ./cm < $(srcdir)/Matrix/cpi > cpi.out ++ ./cl < $(srcdir)/Matrix/cpi > l_cpi.out ++ ./cm < $(srcdir)/Matrix/1_0 > 1_0.out ++ ./cl < $(srcdir)/Matrix/1_0 > l_1_0.out ++ ./cm -s < $(srcdir)/Matrix/3b > 3b.out ++ ./cl -s < $(srcdir)/Matrix/3b > l_3b.out ++ ./cm -s < $(srcdir)/Matrix/cza > cza2.out ++ ./cl -s < $(srcdir)/Matrix/cza > l_cza2.out ++ ./cm < $(srcdir)/Matrix/0_1 > 0_1.out ++ ./cl < $(srcdir)/Matrix/0_1 > l_0_1.out ++ ./cm -n < $(srcdir)/Matrix/galenet > galenet_nan.out ++ ./cl -n < $(srcdir)/Matrix/galenet > l_galenet_nan.out ++ ./cm < $(srcdir)/Matrix/zero > zero.out ++ ./cl < $(srcdir)/Matrix/zero > zero.out ++ ++endif ++endif ++endif ++endif ++endif ++endif ++endif ++ ++CLEANFILES = temp*.mtx *.out +diff --git a/cholmod.pc.in b/cholmod.pc.in +new file mode 100644 +--- /dev/null ++++ b/cholmod.pc.in +@@ -0,0 +1,13 @@ ++prefix=@prefix@ ++exec_prefix=@exec_prefix@ ++libdir=@libdir@ ++includedir=@includedir@ ++ ++Name: @PACKAGE_NAME@ ++Description: Sparse Cholesky factorization ++Version: @PACKAGE_VERSION@ ++URL: @PACKAGE_URL@ ++Requires.private: @CHOLMOD_REQUIRES@ ++Libs: -L${libdir} -lcholmod ++Libs.private: @LAPACK_LIBS@ @BLAS_LIBS@ -lm ++Cflags: -I${includedir}/cholmod +diff --git a/configure.ac b/configure.ac +new file mode 100644 +--- /dev/null ++++ b/configure.ac +@@ -0,0 +1,221 @@ ++# -*- Autoconf -*- ++# Process this file with autoconf to produce a configure script. ++ ++AC_PREREQ([2.69]) ++AC_INIT([CHOLMOD],[3.0.11],[DrTimothyAldenDavis@gmail.com],[cholmod],[http://www.suitesparse.com/]) ++AC_CONFIG_SRCDIR([Core/cholmod_common.c]) ++AC_CONFIG_AUX_DIR([build-aux]) ++AC_CONFIG_MACRO_DIR([m4]) ++AC_CONFIG_HEADERS([config.h Include/cholmod_config.h]) ++AM_INIT_AUTOMAKE([foreign]) ++AM_SILENT_RULES([yes]) ++LT_INIT([disable-static]) ++ ++# Checks for programs. ++PKG_PROG_PKG_CONFIG ++AC_PROG_INSTALL ++AC_PROG_CC ++AC_PROG_F77 ++AC_PROG_AWK ++AC_OPENMP ++AX_CODE_COVERAGE ++ ++AC_ARG_ENABLE([mod-check], ++ [AS_HELP_STRING( ++ [--disable-mod-check], ++ [do not build the Check module])], ++ [], ++ [AS_VAR_SET([enable_mod_check], [yes])]) ++ ++AC_ARG_ENABLE([mod-cholesky], ++ [AS_HELP_STRING( ++ [--disable-mod-cholesky], ++ [do not build the Cholesky module])], ++ [], ++ [AS_VAR_SET([enable_mod_cholesky], [yes])]) ++ ++AC_ARG_ENABLE([mod-partition], ++ [AS_HELP_STRING( ++ [--disable-mod-partition], ++ [do not build the Partition module])], ++ [], ++ [AS_VAR_SET([enable_mod_partition], [yes])]) ++ ++AC_ARG_ENABLE([mod-matrixops], ++ [AS_HELP_STRING( ++ [--disable-mod-matrixops], ++ [do not build the MatrixOps module])], ++ [], ++ [AS_VAR_SET([enable_mod_matrixops], [yes])]) ++ ++AC_ARG_ENABLE([mod-modify], ++ [AS_HELP_STRING( ++ [--disable-mod-modify], ++ [do not build the Modify module])], ++ [], ++ [AS_VAR_SET([enable_mod_modify], [yes])]) ++ ++AC_ARG_ENABLE([mod-supernodal], ++ [AS_HELP_STRING( ++ [--disable-mod-supernodal], ++ [do not build the Supernodal module])], ++ [], ++ [AS_VAR_SET([enable_mod_supernodal], [yes])]) ++ ++AC_ARG_ENABLE([gpl-modules], ++ [AS_HELP_STRING( ++ [--disable-gpl-modules], ++ [do not build GPL-licensed modules])], ++ [], ++ [AS_VAR_SET([enable_gpl_modules], [yes])]) ++ ++AC_ARG_ENABLE([timing], ++ [AS_HELP_STRING( ++ [--disable-timing], ++ [do not use timing routines])], ++ [], ++ [AS_VAR_SET([enable_timing], [yes])]) ++ ++AS_VAR_SET([LIBS_SAVED], [$LIBS]) ++ ++# Checks for libraries. ++AC_CHECK_LIB([m], [sqrt]) ++ ++PKG_CHECK_MODULES([SUITESPARSECONFIG], [suitesparseconfig]) ++AS_VAR_SET([CHOLMOD_REQUIRES], ["suitesparseconfig"]) ++ ++AS_IF([test "x$enable_gpl_modules" != "xyes"], [ ++ AC_DEFINE([NGPL], [], [Define to disable GPL-licensed modules]) ++ AS_VAR_SET([enable_mod_matrixops], [no]) ++ AS_VAR_SET([enable_mod_modify], [no]) ++ AS_VAR_SET([enable_mod_supernodal], [no]) ++]) ++ ++AS_IF([test "x$enable_mod_check" != "xyes"], [ ++ AC_DEFINE([NCHECK], [], [Define to disable the Check module]) ++]) ++ ++AS_IF([test "x$enable_mod_cholesky" != "xyes"], [ ++ AC_DEFINE([NCHOLESKY], [], [Define to disable the Cholesky module]) ++], [ ++ PKG_CHECK_MODULES([AMD], [amd], ++ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" amd"])], ++ [AC_MSG_ERROR([$AMD_PKG_ERRORS (required by mod-cholesky)])]) ++ ++ PKG_CHECK_MODULES([COLAMD], [colamd], ++ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" colamd"])], ++ [AC_MSG_ERROR([$COLAMD_PKG_ERRORS (required by mod-cholesky)])]) ++]) ++ ++AS_IF([test "x$enable_mod_partition" != "xyes"], [ ++ AC_DEFINE([NCAMD], [], [Define to disable the Partition module]) ++], [ ++ PKG_CHECK_MODULES([CAMD], [camd], ++ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" camd"])], ++ [AC_MSG_ERROR([$CAMD_PKG_ERRORS (required by mod-partition)])]) ++ ++ PKG_CHECK_MODULES([CCOLAMD], [ccolamd], ++ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" ccolamd"])], ++ [AC_MSG_ERROR([$CCOLAMD_PKG_ERRORS (required by mod-partition)])]) ++ ++ PKG_CHECK_MODULES([METIS], [metis >= 5.1.0], ++ [AS_VAR_SET([have_metis], [yes]) ++ AS_VAR_APPEND([CHOLMOD_REQUIRES], [" metis >= 5.1.0"])], ++ [AS_VAR_SET([have_metis], [no]) ++ AC_MSG_WARN([$METIS_PKG_ERRORS (used by mod-partition), disabling some functionality])]) ++]) ++ ++AS_IF([test "x$have_metis" != "xyes"], [ ++ AC_DEFINE([NPARTITION], [], [Define to disable METIS support in the Partition module]) ++]) ++ ++AS_IF([test "x$enable_mod_matrixops" != "xyes"], [ ++ AC_DEFINE([NMATRIXOPS], [], [Define to disable the MatrixOps module]) ++]) ++ ++AS_IF([test "x$enable_mod_modify" != "xyes"], [ ++ AC_DEFINE([NMODIFY], [], [Define to disable the Modify module]) ++]) ++ ++AS_IF([test "x$enable_mod_supernodal" != "xyes"], [ ++ AC_DEFINE([NSUPERNODAL], [], [Define to disable the Supernodal module]) ++], [ ++ AX_BLAS( ++ [], ++ [AC_MSG_ERROR([cannot find BLAS (required by mod-supernodal)])]) ++ ++ AX_LAPACK( ++ [], ++ [AC_MSG_ERROR([cannot find LAPACK (required by mod-supernodal)])]) ++]) ++ ++# Checks for header files. ++AC_CHECK_HEADERS([float.h limits.h stddef.h stdlib.h string.h]) ++ ++# Checks for typedefs, structures, and compiler characteristics. ++AC_TYPE_SIZE_T ++ ++# Checks for library functions. ++AC_FUNC_MALLOC ++AC_CHECK_FUNCS([sqrt]) ++ ++AS_VAR_SET([LIBS], [$LIBS_SAVED]) ++ ++AC_MSG_CHECKING([whether to build mod-check]) ++AC_MSG_RESULT([$enable_mod_check]) ++AM_CONDITIONAL([MOD_CHECK], [test "x$enable_mod_check" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to build mod-cholesky]) ++AC_MSG_RESULT([$enable_mod_cholesky]) ++AM_CONDITIONAL([MOD_CHOLESKY], [test "x$enable_mod_cholesky" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to build mod-partition]) ++AC_MSG_RESULT([$enable_mod_partition]) ++AM_CONDITIONAL([MOD_PARTITION], [test "x$enable_mod_partition" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to build mod-partition with METIS]) ++AC_MSG_RESULT([$have_metis]) ++AM_CONDITIONAL([MOD_PARTITION_METIS], [test "x$have_metis" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to build mod-matrixops]) ++AC_MSG_RESULT([$enable_mod_matrixops]) ++AM_CONDITIONAL([MOD_MATRIXOPS], [test "x$enable_mod_matrixops" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to build mod-modify]) ++AC_MSG_RESULT([$enable_mod_modify]) ++AM_CONDITIONAL([MOD_MODIFY], [test "x$enable_mod_modify" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to build mod-supernodal]) ++AC_MSG_RESULT([$enable_mod_supernodal]) ++AM_CONDITIONAL([MOD_SUPERNODAL], [test "x$enable_mod_supernodal" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to build mod-gpu]) ++AC_MSG_RESULT([no]) ++AM_CONDITIONAL([MOD_GPU], [false]) ++ ++AC_MSG_CHECKING([whether to use timing routines]) ++AC_MSG_RESULT([$enable_timing]) ++AM_CONDITIONAL([TIMING], [test "x$enable_timing" = "xyes"]) ++ ++AC_SUBST([CHOLMOD_REQUIRES]) ++ ++PKG_INSTALLDIR ++AC_CONFIG_FILES([ ++ cholmod.pc ++ Makefile ++ Check/Makefile ++ Cholesky/Makefile ++ Core/Makefile ++ Demo/Makefile ++ Doc/Makefile ++ GPU/Makefile ++ Include/Makefile ++ MATLAB/Makefile ++ MatrixOps/Makefile ++ Modify/Makefile ++ Partition/Makefile ++ Supernodal/Makefile ++ Tcov/Makefile ++]) ++AC_CONFIG_LINKS([Tcov/comments.txt:Tcov/comments.txt]) ++AC_OUTPUT +diff --git a/m4/ax_blas.m4 b/m4/ax_blas.m4 new file mode 100644 --- /dev/null -+++ b/ax_blas.m4 ++++ b/m4/ax_blas.m4 @@ -0,0 +1,238 @@ +# =========================================================================== -+# http://www.gnu.org/software/autoconf-archive/ax_blas.html ++# https://www.gnu.org/software/autoconf-archive/ax_blas.html +# =========================================================================== +# +# SYNOPSIS @@ -1057,7 +1741,7 @@ new file mode 100644 +# Public License for more details. +# +# You should have received a copy of the GNU General Public License along -+# with this program. If not, see <http://www.gnu.org/licenses/>. ++# with this program. If not, see <https://www.gnu.org/licenses/>. +# +# As a special exception, the respective Autoconf Macro's copyright owner +# gives unlimited permission to copy, distribute and modify the configure @@ -1072,7 +1756,7 @@ new file mode 100644 +# 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 ++#serial 15 + +AU_ALIAS([ACX_BLAS], [AX_BLAS]) +AC_DEFUN([AX_BLAS], [ @@ -1245,13 +1929,282 @@ new file mode 100644 + $2 +fi +])dnl AX_BLAS -diff --git a/ax_lapack.m4 b/ax_lapack.m4 +diff --git a/m4/ax_code_coverage.m4 b/m4/ax_code_coverage.m4 +new file mode 100644 +--- /dev/null ++++ b/m4/ax_code_coverage.m4 +@@ -0,0 +1,264 @@ ++# =========================================================================== ++# https://www.gnu.org/software/autoconf-archive/ax_code_coverage.html ++# =========================================================================== ++# ++# SYNOPSIS ++# ++# AX_CODE_COVERAGE() ++# ++# DESCRIPTION ++# ++# Defines CODE_COVERAGE_CPPFLAGS, CODE_COVERAGE_CFLAGS, ++# CODE_COVERAGE_CXXFLAGS and CODE_COVERAGE_LIBS which should be included ++# in the CPPFLAGS, CFLAGS CXXFLAGS and LIBS/LIBADD variables of every ++# build target (program or library) which should be built with code ++# coverage support. Also defines CODE_COVERAGE_RULES which should be ++# substituted in your Makefile; and $enable_code_coverage which can be ++# used in subsequent configure output. CODE_COVERAGE_ENABLED is defined ++# and substituted, and corresponds to the value of the ++# --enable-code-coverage option, which defaults to being disabled. ++# ++# Test also for gcov program and create GCOV variable that could be ++# substituted. ++# ++# Note that all optimization flags in CFLAGS must be disabled when code ++# coverage is enabled. ++# ++# Usage example: ++# ++# configure.ac: ++# ++# AX_CODE_COVERAGE ++# ++# Makefile.am: ++# ++# @CODE_COVERAGE_RULES@ ++# my_program_LIBS = ... $(CODE_COVERAGE_LIBS) ... ++# my_program_CPPFLAGS = ... $(CODE_COVERAGE_CPPFLAGS) ... ++# my_program_CFLAGS = ... $(CODE_COVERAGE_CFLAGS) ... ++# my_program_CXXFLAGS = ... $(CODE_COVERAGE_CXXFLAGS) ... ++# ++# This results in a "check-code-coverage" rule being added to any ++# Makefile.am which includes "@CODE_COVERAGE_RULES@" (assuming the module ++# has been configured with --enable-code-coverage). Running `make ++# check-code-coverage` in that directory will run the module's test suite ++# (`make check`) and build a code coverage report detailing the code which ++# was touched, then print the URI for the report. ++# ++# In earlier versions of this macro, CODE_COVERAGE_LDFLAGS was defined ++# instead of CODE_COVERAGE_LIBS. They are both still defined, but use of ++# CODE_COVERAGE_LIBS is preferred for clarity; CODE_COVERAGE_LDFLAGS is ++# deprecated. They have the same value. ++# ++# This code was derived from Makefile.decl in GLib, originally licenced ++# under LGPLv2.1+. ++# ++# LICENSE ++# ++# Copyright (c) 2012, 2016 Philip Withnall ++# Copyright (c) 2012 Xan Lopez ++# Copyright (c) 2012 Christian Persch ++# Copyright (c) 2012 Paolo Borelli ++# Copyright (c) 2012 Dan Winship ++# Copyright (c) 2015 Bastien ROUCARIES ++# ++# This library is free software; you can redistribute it and/or modify it ++# under the terms of the GNU Lesser General Public License as published by ++# the Free Software Foundation; either version 2.1 of the License, or (at ++# your option) any later version. ++# ++# This library 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 Lesser ++# General Public License for more details. ++# ++# You should have received a copy of the GNU Lesser General Public License ++# along with this program. If not, see <https://www.gnu.org/licenses/>. ++ ++#serial 24 ++ ++AC_DEFUN([AX_CODE_COVERAGE],[ ++ dnl Check for --enable-code-coverage ++ AC_REQUIRE([AC_PROG_SED]) ++ ++ # allow to override gcov location ++ AC_ARG_WITH([gcov], ++ [AS_HELP_STRING([--with-gcov[=GCOV]], [use given GCOV for coverage (GCOV=gcov).])], ++ [_AX_CODE_COVERAGE_GCOV_PROG_WITH=$with_gcov], ++ [_AX_CODE_COVERAGE_GCOV_PROG_WITH=gcov]) ++ ++ AC_MSG_CHECKING([whether to build with code coverage support]) ++ AC_ARG_ENABLE([code-coverage], ++ AS_HELP_STRING([--enable-code-coverage], ++ [Whether to enable code coverage support]),, ++ enable_code_coverage=no) ++ ++ AM_CONDITIONAL([CODE_COVERAGE_ENABLED], [test x$enable_code_coverage = xyes]) ++ AC_SUBST([CODE_COVERAGE_ENABLED], [$enable_code_coverage]) ++ AC_MSG_RESULT($enable_code_coverage) ++ ++ AS_IF([ test "$enable_code_coverage" = "yes" ], [ ++ # check for gcov ++ AC_CHECK_TOOL([GCOV], ++ [$_AX_CODE_COVERAGE_GCOV_PROG_WITH], ++ [:]) ++ AS_IF([test "X$GCOV" = "X:"], ++ [AC_MSG_ERROR([gcov is needed to do coverage])]) ++ AC_SUBST([GCOV]) ++ ++ dnl Check if gcc is being used ++ AS_IF([ test "$GCC" = "no" ], [ ++ AC_MSG_ERROR([not compiling with gcc, which is required for gcov code coverage]) ++ ]) ++ ++ AC_CHECK_PROG([LCOV], [lcov], [lcov]) ++ AC_CHECK_PROG([GENHTML], [genhtml], [genhtml]) ++ ++ AS_IF([ test -z "$LCOV" ], [ ++ AC_MSG_ERROR([To enable code coverage reporting you must have lcov installed]) ++ ]) ++ ++ AS_IF([ test -z "$GENHTML" ], [ ++ AC_MSG_ERROR([Could not find genhtml from the lcov package]) ++ ]) ++ ++ dnl Build the code coverage flags ++ dnl Define CODE_COVERAGE_LDFLAGS for backwards compatibility ++ CODE_COVERAGE_CPPFLAGS="-DNDEBUG" ++ CODE_COVERAGE_CFLAGS="-O0 -g -fprofile-arcs -ftest-coverage" ++ CODE_COVERAGE_CXXFLAGS="-O0 -g -fprofile-arcs -ftest-coverage" ++ CODE_COVERAGE_LIBS="-lgcov" ++ CODE_COVERAGE_LDFLAGS="$CODE_COVERAGE_LIBS" ++ ++ AC_SUBST([CODE_COVERAGE_CPPFLAGS]) ++ AC_SUBST([CODE_COVERAGE_CFLAGS]) ++ AC_SUBST([CODE_COVERAGE_CXXFLAGS]) ++ AC_SUBST([CODE_COVERAGE_LIBS]) ++ AC_SUBST([CODE_COVERAGE_LDFLAGS]) ++ ++ [CODE_COVERAGE_RULES_CHECK=' ++ -$(A''M_V_at)$(MAKE) $(AM_MAKEFLAGS) -k check ++ $(A''M_V_at)$(MAKE) $(AM_MAKEFLAGS) code-coverage-capture ++'] ++ [CODE_COVERAGE_RULES_CAPTURE=' ++ $(code_coverage_v_lcov_cap)$(LCOV) $(code_coverage_quiet) $(addprefix --directory ,$(CODE_COVERAGE_DIRECTORY)) --capture --output-file "$(CODE_COVERAGE_OUTPUT_FILE).tmp" --test-name "$(call code_coverage_sanitize,$(PACKAGE_NAME)-$(PACKAGE_VERSION))" --no-checksum --compat-libtool $(CODE_COVERAGE_LCOV_SHOPTS) $(CODE_COVERAGE_LCOV_OPTIONS) ++ $(code_coverage_v_lcov_ign)$(LCOV) $(code_coverage_quiet) $(addprefix --directory ,$(CODE_COVERAGE_DIRECTORY)) --remove "$(CODE_COVERAGE_OUTPUT_FILE).tmp" "/tmp/*" $(CODE_COVERAGE_IGNORE_PATTERN) --output-file "$(CODE_COVERAGE_OUTPUT_FILE)" $(CODE_COVERAGE_LCOV_SHOPTS) $(CODE_COVERAGE_LCOV_RMOPTS) ++ -@rm -f $(CODE_COVERAGE_OUTPUT_FILE).tmp ++ $(code_coverage_v_genhtml)LANG=C $(GENHTML) $(code_coverage_quiet) $(addprefix --prefix ,$(CODE_COVERAGE_DIRECTORY)) --output-directory "$(CODE_COVERAGE_OUTPUT_DIRECTORY)" --title "$(PACKAGE_NAME)-$(PACKAGE_VERSION) Code Coverage" --legend --show-details "$(CODE_COVERAGE_OUTPUT_FILE)" $(CODE_COVERAGE_GENHTML_OPTIONS) ++ @echo "file://$(abs_builddir)/$(CODE_COVERAGE_OUTPUT_DIRECTORY)/index.html" ++'] ++ [CODE_COVERAGE_RULES_CLEAN=' ++clean: code-coverage-clean ++distclean: code-coverage-clean ++code-coverage-clean: ++ -$(LCOV) --directory $(top_builddir) -z ++ -rm -rf $(CODE_COVERAGE_OUTPUT_FILE) $(CODE_COVERAGE_OUTPUT_FILE).tmp $(CODE_COVERAGE_OUTPUT_DIRECTORY) ++ -find . \( -name "*.gcda" -o -name "*.gcno" -o -name "*.gcov" \) -delete ++'] ++ ], [ ++ [CODE_COVERAGE_RULES_CHECK=' ++ @echo "Need to reconfigure with --enable-code-coverage" ++'] ++ CODE_COVERAGE_RULES_CAPTURE="$CODE_COVERAGE_RULES_CHECK" ++ CODE_COVERAGE_RULES_CLEAN='' ++ ]) ++ ++[CODE_COVERAGE_RULES=' ++# Code coverage ++# ++# Optional: ++# - CODE_COVERAGE_DIRECTORY: Top-level directory for code coverage reporting. ++# Multiple directories may be specified, separated by whitespace. ++# (Default: $(top_builddir)) ++# - CODE_COVERAGE_OUTPUT_FILE: Filename and path for the .info file generated ++# by lcov for code coverage. (Default: ++# $(PACKAGE_NAME)-$(PACKAGE_VERSION)-coverage.info) ++# - CODE_COVERAGE_OUTPUT_DIRECTORY: Directory for generated code coverage ++# reports to be created. (Default: ++# $(PACKAGE_NAME)-$(PACKAGE_VERSION)-coverage) ++# - CODE_COVERAGE_BRANCH_COVERAGE: Set to 1 to enforce branch coverage, ++# set to 0 to disable it and leave empty to stay with the default. ++# (Default: empty) ++# - CODE_COVERAGE_LCOV_SHOPTS_DEFAULT: Extra options shared between both lcov ++# instances. (Default: based on $CODE_COVERAGE_BRANCH_COVERAGE) ++# - CODE_COVERAGE_LCOV_SHOPTS: Extra options to shared between both lcov ++# instances. (Default: $CODE_COVERAGE_LCOV_SHOPTS_DEFAULT) ++# - CODE_COVERAGE_LCOV_OPTIONS_GCOVPATH: --gcov-tool pathtogcov ++# - CODE_COVERAGE_LCOV_OPTIONS_DEFAULT: Extra options to pass to the ++# collecting lcov instance. (Default: $CODE_COVERAGE_LCOV_OPTIONS_GCOVPATH) ++# - CODE_COVERAGE_LCOV_OPTIONS: Extra options to pass to the collecting lcov ++# instance. (Default: $CODE_COVERAGE_LCOV_OPTIONS_DEFAULT) ++# - CODE_COVERAGE_LCOV_RMOPTS_DEFAULT: Extra options to pass to the filtering ++# lcov instance. (Default: empty) ++# - CODE_COVERAGE_LCOV_RMOPTS: Extra options to pass to the filtering lcov ++# instance. (Default: $CODE_COVERAGE_LCOV_RMOPTS_DEFAULT) ++# - CODE_COVERAGE_GENHTML_OPTIONS_DEFAULT: Extra options to pass to the ++# genhtml instance. (Default: based on $CODE_COVERAGE_BRANCH_COVERAGE) ++# - CODE_COVERAGE_GENHTML_OPTIONS: Extra options to pass to the genhtml ++# instance. (Default: $CODE_COVERAGE_GENHTML_OPTIONS_DEFAULT) ++# - CODE_COVERAGE_IGNORE_PATTERN: Extra glob pattern of files to ignore ++# ++# The generated report will be titled using the $(PACKAGE_NAME) and ++# $(PACKAGE_VERSION). In order to add the current git hash to the title, ++# use the git-version-gen script, available online. ++ ++# Optional variables ++CODE_COVERAGE_DIRECTORY ?= $(top_builddir) ++CODE_COVERAGE_OUTPUT_FILE ?= $(PACKAGE_NAME)-$(PACKAGE_VERSION)-coverage.info ++CODE_COVERAGE_OUTPUT_DIRECTORY ?= $(PACKAGE_NAME)-$(PACKAGE_VERSION)-coverage ++CODE_COVERAGE_BRANCH_COVERAGE ?= ++CODE_COVERAGE_LCOV_SHOPTS_DEFAULT ?= $(if $(CODE_COVERAGE_BRANCH_COVERAGE),\ ++--rc lcov_branch_coverage=$(CODE_COVERAGE_BRANCH_COVERAGE)) ++CODE_COVERAGE_LCOV_SHOPTS ?= $(CODE_COVERAGE_LCOV_SHOPTS_DEFAULT) ++CODE_COVERAGE_LCOV_OPTIONS_GCOVPATH ?= --gcov-tool "$(GCOV)" ++CODE_COVERAGE_LCOV_OPTIONS_DEFAULT ?= $(CODE_COVERAGE_LCOV_OPTIONS_GCOVPATH) ++CODE_COVERAGE_LCOV_OPTIONS ?= $(CODE_COVERAGE_LCOV_OPTIONS_DEFAULT) ++CODE_COVERAGE_LCOV_RMOPTS_DEFAULT ?= ++CODE_COVERAGE_LCOV_RMOPTS ?= $(CODE_COVERAGE_LCOV_RMOPTS_DEFAULT) ++CODE_COVERAGE_GENHTML_OPTIONS_DEFAULT ?=\ ++$(if $(CODE_COVERAGE_BRANCH_COVERAGE),\ ++--rc genhtml_branch_coverage=$(CODE_COVERAGE_BRANCH_COVERAGE)) ++CODE_COVERAGE_GENHTML_OPTIONS ?= $(CODE_COVERAGE_GENHTML_OPTIONS_DEFAULT) ++CODE_COVERAGE_IGNORE_PATTERN ?= ++ ++code_coverage_v_lcov_cap = $(code_coverage_v_lcov_cap_$(V)) ++code_coverage_v_lcov_cap_ = $(code_coverage_v_lcov_cap_$(AM_DEFAULT_VERBOSITY)) ++code_coverage_v_lcov_cap_0 = @echo " LCOV --capture"\ ++ $(CODE_COVERAGE_OUTPUT_FILE); ++code_coverage_v_lcov_ign = $(code_coverage_v_lcov_ign_$(V)) ++code_coverage_v_lcov_ign_ = $(code_coverage_v_lcov_ign_$(AM_DEFAULT_VERBOSITY)) ++code_coverage_v_lcov_ign_0 = @echo " LCOV --remove /tmp/*"\ ++ $(CODE_COVERAGE_IGNORE_PATTERN); ++code_coverage_v_genhtml = $(code_coverage_v_genhtml_$(V)) ++code_coverage_v_genhtml_ = $(code_coverage_v_genhtml_$(AM_DEFAULT_VERBOSITY)) ++code_coverage_v_genhtml_0 = @echo " GEN " $(CODE_COVERAGE_OUTPUT_DIRECTORY); ++code_coverage_quiet = $(code_coverage_quiet_$(V)) ++code_coverage_quiet_ = $(code_coverage_quiet_$(AM_DEFAULT_VERBOSITY)) ++code_coverage_quiet_0 = --quiet ++ ++# sanitizes the test-name: replaces with underscores: dashes and dots ++code_coverage_sanitize = $(subst -,_,$(subst .,_,$(1))) ++ ++# Use recursive makes in order to ignore errors during check ++check-code-coverage:'"$CODE_COVERAGE_RULES_CHECK"' ++ ++# Capture code coverage data ++code-coverage-capture: code-coverage-capture-hook'"$CODE_COVERAGE_RULES_CAPTURE"' ++ ++# Hook rule executed before code-coverage-capture, overridable by the user ++code-coverage-capture-hook: ++ ++'"$CODE_COVERAGE_RULES_CLEAN"' ++ ++GITIGNOREFILES ?= ++GITIGNOREFILES += $(CODE_COVERAGE_OUTPUT_FILE) $(CODE_COVERAGE_OUTPUT_DIRECTORY) ++ ++A''M_DISTCHECK_CONFIGURE_FLAGS ?= ++A''M_DISTCHECK_CONFIGURE_FLAGS += --disable-code-coverage ++ ++.PHONY: check-code-coverage code-coverage-capture code-coverage-capture-hook code-coverage-clean ++'] ++ ++ AC_SUBST([CODE_COVERAGE_RULES]) ++ m4_ifdef([_AM_SUBST_NOTMAKE], [_AM_SUBST_NOTMAKE([CODE_COVERAGE_RULES])]) ++]) +diff --git a/m4/ax_lapack.m4 b/m4/ax_lapack.m4 new file mode 100644 --- /dev/null -+++ b/ax_lapack.m4 ++++ b/m4/ax_lapack.m4 @@ -0,0 +1,131 @@ +# =========================================================================== -+# http://www.gnu.org/software/autoconf-archive/ax_lapack.html ++# https://www.gnu.org/software/autoconf-archive/ax_lapack.html +# =========================================================================== +# +# SYNOPSIS @@ -1301,7 +2254,7 @@ new file mode 100644 +# Public License for more details. +# +# You should have received a copy of the GNU General Public License along -+# with this program. If not, see <http://www.gnu.org/licenses/>. ++# with this program. If not, see <https://www.gnu.org/licenses/>. +# +# As a special exception, the respective Autoconf Macro's copyright owner +# gives unlimited permission to copy, distribute and modify the configure @@ -1316,7 +2269,7 @@ new file mode 100644 +# 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 ++#serial 8 + +AU_ALIAS([ACX_LAPACK], [AX_LAPACK]) +AC_DEFUN([AX_LAPACK], [ @@ -1381,243 +2334,3 @@ new file mode 100644 + $2 +fi +])dnl AX_LAPACK -diff --git a/cholmod.pc.in b/cholmod.pc.in -new file mode 100644 ---- /dev/null -+++ b/cholmod.pc.in -@@ -0,0 +1,13 @@ -+prefix=@prefix@ -+exec_prefix=@exec_prefix@ -+libdir=@libdir@ -+includedir=@includedir@ -+ -+Name: @PACKAGE_NAME@ -+Description: Sparse Cholesky factorization -+Version: @PACKAGE_VERSION@ -+URL: @PACKAGE_URL@ -+Requires.private: @CHOLMOD_REQUIRES@ -+Libs: -L${libdir} -lcholmod -+Libs.private: @LAPACK_LIBS@ @BLAS_LIBS@ -lm -+Cflags: -I${includedir}/cholmod -diff --git a/configure.ac b/configure.ac -new file mode 100644 ---- /dev/null -+++ b/configure.ac -@@ -0,0 +1,217 @@ -+# -*- Autoconf -*- -+# Process this file with autoconf to produce a configure script. -+ -+AC_PREREQ([2.69]) -+AC_INIT([CHOLMOD],[3.0.11],[DrTimothyAldenDavis@gmail.com],[cholmod],[http://www.suitesparse.com/]) -+AC_CONFIG_SRCDIR([Core/cholmod_common.c]) -+AC_CONFIG_HEADERS([config.h Include/cholmod_config.h]) -+AM_INIT_AUTOMAKE([foreign]) -+LT_INIT -+ -+# Checks for programs. -+PKG_PROG_PKG_CONFIG -+AC_PROG_INSTALL -+AC_PROG_CC -+AC_PROG_F77 -+AC_PROG_AWK -+AC_OPENMP -+ -+AC_ARG_ENABLE([mod-check], -+ [AS_HELP_STRING( -+ [--disable-mod-check], -+ [do not build the Check module])], -+ [], -+ [AS_VAR_SET([enable_mod_check], [yes])]) -+ -+AC_ARG_ENABLE([mod-cholesky], -+ [AS_HELP_STRING( -+ [--disable-mod-cholesky], -+ [do not build the Cholesky module])], -+ [], -+ [AS_VAR_SET([enable_mod_cholesky], [yes])]) -+ -+AC_ARG_ENABLE([mod-partition], -+ [AS_HELP_STRING( -+ [--disable-mod-partition], -+ [do not build the Partition module])], -+ [], -+ [AS_VAR_SET([enable_mod_partition], [yes])]) -+ -+AC_ARG_ENABLE([mod-matrixops], -+ [AS_HELP_STRING( -+ [--disable-mod-matrixops], -+ [do not build the MatrixOps module])], -+ [], -+ [AS_VAR_SET([enable_mod_matrixops], [yes])]) -+ -+AC_ARG_ENABLE([mod-modify], -+ [AS_HELP_STRING( -+ [--disable-mod-modify], -+ [do not build the Modify module])], -+ [], -+ [AS_VAR_SET([enable_mod_modify], [yes])]) -+ -+AC_ARG_ENABLE([mod-supernodal], -+ [AS_HELP_STRING( -+ [--disable-mod-supernodal], -+ [do not build the Supernodal module])], -+ [], -+ [AS_VAR_SET([enable_mod_supernodal], [yes])]) -+ -+AC_ARG_ENABLE([gpl-modules], -+ [AS_HELP_STRING( -+ [--disable-gpl-modules], -+ [do not build GPL-licensed modules])], -+ [], -+ [AS_VAR_SET([enable_gpl_modules], [yes])]) -+ -+AC_ARG_ENABLE([timing], -+ [AS_HELP_STRING( -+ [--disable-timing], -+ [do not use timing routines])], -+ [], -+ [AS_VAR_SET([enable_timing], [yes])]) -+ -+AS_VAR_SET([LIBS_SAVED], [$LIBS]) -+ -+# Checks for libraries. -+AC_CHECK_LIB([m], [sqrt]) -+ -+PKG_CHECK_MODULES([SUITESPARSECONFIG], [suitesparseconfig]) -+AS_VAR_SET([CHOLMOD_REQUIRES], ["suitesparseconfig"]) -+ -+AS_IF([test "x$enable_gpl_modules" != "xyes"], [ -+ AC_DEFINE([NGPL], [], [Define to disable GPL-licensed modules]) -+ AS_VAR_SET([enable_mod_matrixops], [no]) -+ AS_VAR_SET([enable_mod_modify], [no]) -+ AS_VAR_SET([enable_mod_supernodal], [no]) -+]) -+ -+AS_IF([test "x$enable_mod_check" != "xyes"], [ -+ AC_DEFINE([NCHECK], [], [Define to disable the Check module]) -+]) -+ -+AS_IF([test "x$enable_mod_cholesky" != "xyes"], [ -+ AC_DEFINE([NCHOLESKY], [], [Define to disable the Cholesky module]) -+], [ -+ PKG_CHECK_MODULES([AMD], [amd], -+ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" amd"])], -+ [AC_MSG_ERROR([$AMD_PKG_ERRORS (required by mod-cholesky)])]) -+ -+ PKG_CHECK_MODULES([COLAMD], [colamd], -+ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" colamd"])], -+ [AC_MSG_ERROR([$COLAMD_PKG_ERRORS (required by mod-cholesky)])]) -+]) -+ -+AS_IF([test "x$enable_mod_partition" != "xyes"], [ -+ AC_DEFINE([NCAMD], [], [Define to disable the Partition module]) -+], [ -+ PKG_CHECK_MODULES([CAMD], [camd], -+ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" camd"])], -+ [AC_MSG_ERROR([$CAMD_PKG_ERRORS (required by mod-partition)])]) -+ -+ PKG_CHECK_MODULES([CCOLAMD], [ccolamd], -+ [AS_VAR_APPEND([CHOLMOD_REQUIRES], [" ccolamd"])], -+ [AC_MSG_ERROR([$CCOLAMD_PKG_ERRORS (required by mod-partition)])]) -+ -+ PKG_CHECK_MODULES([METIS], [metis >= 5.1.0], -+ [AS_VAR_SET([have_metis], [yes]) -+ AS_VAR_APPEND([CHOLMOD_REQUIRES], [" metis >= 5.1.0"])], -+ [AS_VAR_SET([have_metis], [no]) -+ AC_MSG_WARN([$METIS_PKG_ERRORS (used by mod-partition), disabling some functionality])]) -+]) -+ -+AS_IF([test "x$have_metis" != "xyes"], [ -+ AC_DEFINE([NPARTITION], [], [Define to disable METIS support in the Partition module]) -+]) -+ -+AS_IF([test "x$enable_mod_matrixops" != "xyes"], [ -+ AC_DEFINE([NMATRIXOPS], [], [Define to disable the MatrixOps module]) -+]) -+ -+AS_IF([test "x$enable_mod_modify" != "xyes"], [ -+ AC_DEFINE([NMODIFY], [], [Define to disable the Modify module]) -+]) -+ -+AS_IF([test "x$enable_mod_supernodal" != "xyes"], [ -+ AC_DEFINE([NSUPERNODAL], [], [Define to disable the Supernodal module]) -+], [ -+ sinclude([ax_blas.m4]) -+ AX_BLAS( -+ [], -+ [AC_MSG_ERROR([cannot find BLAS (required by mod-supernodal)])]) -+ -+ sinclude([ax_lapack.m4]) -+ AX_LAPACK( -+ [], -+ [AC_MSG_ERROR([cannot find LAPACK (required by mod-supernodal)])]) -+]) -+ -+# Checks for header files. -+AC_CHECK_HEADERS([float.h limits.h stddef.h stdlib.h string.h]) -+ -+# Checks for typedefs, structures, and compiler characteristics. -+AC_TYPE_SIZE_T -+ -+# Checks for library functions. -+AC_FUNC_MALLOC -+AC_CHECK_FUNCS([sqrt]) -+ -+AS_VAR_SET([LIBS], [$LIBS_SAVED]) -+ -+AC_MSG_CHECKING([whether to build mod-check]) -+AC_MSG_RESULT([$enable_mod_check]) -+AM_CONDITIONAL([MOD_CHECK], [test "x$enable_mod_check" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to build mod-cholesky]) -+AC_MSG_RESULT([$enable_mod_cholesky]) -+AM_CONDITIONAL([MOD_CHOLESKY], [test "x$enable_mod_cholesky" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to build mod-partition]) -+AC_MSG_RESULT([$enable_mod_partition]) -+AM_CONDITIONAL([MOD_PARTITION], [test "x$enable_mod_partition" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to build mod-partition with METIS]) -+AC_MSG_RESULT([$have_metis]) -+AM_CONDITIONAL([MOD_PARTITION_METIS], [test "x$have_metis" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to build mod-matrixops]) -+AC_MSG_RESULT([$enable_mod_matrixops]) -+AM_CONDITIONAL([MOD_MATRIXOPS], [test "x$enable_mod_matrixops" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to build mod-modify]) -+AC_MSG_RESULT([$enable_mod_modify]) -+AM_CONDITIONAL([MOD_MODIFY], [test "x$enable_mod_modify" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to build mod-supernodal]) -+AC_MSG_RESULT([$enable_mod_supernodal]) -+AM_CONDITIONAL([MOD_SUPERNODAL], [test "x$enable_mod_supernodal" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to build mod-gpu]) -+AC_MSG_RESULT([no]) -+AM_CONDITIONAL([MOD_GPU], [false]) -+ -+AC_MSG_CHECKING([whether to use timing routines]) -+AC_MSG_RESULT([$enable_timing]) -+AM_CONDITIONAL([TIMING], [test "x$enable_timing" = "xyes"]) -+ -+AC_SUBST([CHOLMOD_REQUIRES]) -+ -+PKG_INSTALLDIR -+AC_CONFIG_FILES([ -+ cholmod.pc -+ Makefile -+ Check/Makefile -+ Cholesky/Makefile -+ Core/Makefile -+ Demo/Makefile -+ Doc/Makefile -+ GPU/Makefile -+ Include/Makefile -+ MATLAB/Makefile -+ MatrixOps/Makefile -+ Modify/Makefile -+ Partition/Makefile -+ Supernodal/Makefile -+]) -+AC_OUTPUT |