diff options
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/spqr/patches/autoconfiscate.diff (renamed from academic/spqr/patches/autotoolize.diff) | 591 | ||||
| -rw-r--r-- | academic/spqr/spqr.SlackBuild | 14 | ||||
| -rw-r--r-- | academic/spqr/spqr.info | 6 |
3 files changed, 488 insertions, 123 deletions
diff --git a/academic/spqr/patches/autotoolize.diff b/academic/spqr/patches/autoconfiscate.diff index 86bc23333ae9e..fbf3dce1db02b 100644 --- a/academic/spqr/patches/autotoolize.diff +++ b/academic/spqr/patches/autoconfiscate.diff @@ -2,9 +2,8 @@ diff --git a/Demo/Makefile.am b/Demo/Makefile.am new file mode 100644 --- /dev/null +++ b/Demo/Makefile.am -@@ -0,0 +1,111 @@ +@@ -0,0 +1,115 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(CHOLMOD_CFLAGS) $(SUITESPARSECONFIG_CFLAGS) -+LDADD = $(top_builddir)/Source/libspqr.la + +EXTRA_DIST = \ + README.txt \ @@ -18,11 +17,16 @@ new file mode 100644 + qrdemoc + +qrsimple_SOURCES = qrsimple.cpp ++qrsimple_LDADD = $(top_builddir)/Source/libspqr.la $(CHOLMOD_LIBS) ++ +qrsimplec_SOURCES = qrsimplec.c -+qrsimplec_CFLAGS = $(AM_CFLAGS) -ansi ++qrsimplec_LDADD = $(top_builddir)/Source/libspqr.la $(CHOLMOD_LIBS) ++ +qrdemo_SOURCES = qrdemo.cpp ++qrdemo_LDADD = $(top_builddir)/Source/libspqr.la $(CHOLMOD_LIBS) ++ +qrdemoc_SOURCES = qrdemoc.c -+qrdemoc_CFLAGS = $(AM_CFLAGS) -ansi ++qrdemoc_LDADD = $(top_builddir)/Source/libspqr.la $(CHOLMOD_LIBS) + +MATRICES = \ + $(top_srcdir)/Matrix/GD01_b.mtx \ @@ -162,11 +166,16 @@ diff --git a/Makefile.am b/Makefile.am new file mode 100644 --- /dev/null +++ b/Makefile.am -@@ -0,0 +1,4 @@ -+SUBDIRS = Include Source Matrix Demo Doc +@@ -0,0 +1,9 @@ ++ACLOCAL_AMFLAGS = -I m4 ++ ++SUBDIRS = Include Source Matrix Demo Tcov Doc +EXTRA_DIST = README.txt + +pkgconfig_DATA = spqr.pc ++ ++CODE_COVERAGE_BRANCH_COVERAGE = 1 ++@CODE_COVERAGE_RULES@ diff --git a/Matrix/Makefile.am b/Matrix/Makefile.am new file mode 100644 --- /dev/null @@ -212,7 +221,7 @@ diff --git a/Source/Makefile.am b/Source/Makefile.am new file mode 100644 --- /dev/null +++ b/Source/Makefile.am -@@ -0,0 +1,54 @@ +@@ -0,0 +1,56 @@ +AM_CPPFLAGS = -I$(top_srcdir)/Include $(TBB_CFLAGS) $(CHOLMOD_CFLAGS) $(SUITESPARSECONFIG_CFLAGS) +if !EXPERT +AM_CPPFLAGS += -DNEXPERT @@ -265,15 +274,198 @@ new file mode 100644 + spqr_trapezoidal.cpp \ + spqr_type.cpp + -+libspqr_la_LIBADD = $(TBB_LIBS) $(CHOLMOD_LIBS) $(SUITESPARSECONFIG_LIBS) $(LAPACK_LIBS) $(BLAS_LIBS) -lm ++libspqr_la_LIBADD = $(TBB_LIBS) $(CHOLMOD_LIBS) $(SUITESPARSECONFIG_LIBS) $(LAPACK_LIBS) $(BLAS_LIBS) -lm $(CODE_COVERAGE_LIBS) ++libspqr_la_CPPFLAGS = $(AM_CPPFLAGS) $(CODE_COVERAGE_CPPFLAGS) ++libspqr_la_CXXFLAGS = $(AM_CXXFLAGS) $(CODE_COVERAGE_CXXFLAGS) +libspqr_la_LDFLAGS = -no-undefined -release $(PACKAGE_VERSION) -diff --git a/ax_blas.m4 b/ax_blas.m4 +diff --git a/Tcov/Makefile.am b/Tcov/Makefile.am +new file mode 100644 +--- /dev/null ++++ b/Tcov/Makefile.am +@@ -0,0 +1,52 @@ ++AM_CPPFLAGS = -I$(top_srcdir)/Include $(CHOLMOD_CFLAGS) $(SUITESPARSECONFIG_CFLAGS) ++ ++EXTRA_DIST = \ ++ README.txt ++ ++dist_noinst_DATA = \ ++ matrix1.txt \ ++ matrixlist.txt ++ ++if CODE_COVERAGE_ENABLED ++check_PROGRAMS = \ ++ qrtest ++ ++qrtest_SOURCES = qrtestc.c qrtest.cpp ++qrtest_LDADD = $(top_builddir)/Source/libspqr.la $(CHOLMOD_LIBS) $(SUITESPARSECONFIG_LIBS) ++ ++MATRICES = \ ++ $(srcdir)/matrix1.txt \ ++ $(srcdir)/matrixlist.txt \ ++ $(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/arrow.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 ++ ++check-local: $(check_PROGRAMS) $(MATRICES) ++ ./qrtest $(srcdir)/matrixlist.txt > qrtest_out.txt ++ ./qrtest $(srcdir)/matrix1.txt > qrtest_out1.txt ++endif ++ ++CLEANFILES = qrtest_out.txt qrtest_out1.txt +diff --git a/configure.ac b/configure.ac +new file mode 100644 +--- /dev/null ++++ b/configure.ac +@@ -0,0 +1,119 @@ ++# -*- Autoconf -*- ++# Process this file with autoconf to produce a configure script. ++ ++AC_PREREQ([2.69]) ++AC_INIT([SPQR],[2.0.8],[DrTimothyAldenDavis@gmail.com],[spqr],[http://www.suitesparse.com/]) ++AC_CONFIG_SRCDIR([Source/spqr_kernel.cpp]) ++AC_CONFIG_AUX_DIR([build-aux]) ++AC_CONFIG_MACRO_DIR([m4]) ++AC_CONFIG_HEADERS([config.h]) ++AM_INIT_AUTOMAKE([foreign]) ++AM_SILENT_RULES([yes]) ++LT_INIT([disable-static]) ++ ++# Checks for programs. ++PKG_PROG_PKG_CONFIG ++AC_PROG_INSTALL ++AC_PROG_F77 ++AC_PROG_CC ++AC_PROG_CXX ++AC_LANG([C++]) ++AX_CODE_COVERAGE ++ ++AC_ARG_ENABLE([expert], ++ [AS_HELP_STRING( ++ [--disable-expert], ++ [compile without the min 2-norm solution option])], ++ [], ++ [AS_VAR_SET([enable_expert], [yes])]) ++ ++AC_ARG_WITH([tbb], ++ [AS_HELP_STRING( ++ [--without-tbb], ++ [do not use Intel Threading Building Blocks for multithreading])], ++ [], ++ [AS_VAR_SET([with_tbb], [yes])]) ++ ++AS_VAR_SET([LIBS_SAVED], [$LIBS]) ++ ++# Checks for libraries. ++AC_CHECK_LIB([m], [sqrt]) ++ ++AX_BLAS( ++ [], ++ [AC_MSG_ERROR([cannot find BLAS])]) ++ ++AX_LAPACK( ++ [], ++ [AC_MSG_ERROR([cannot find LAPACK])]) ++ ++PKG_CHECK_MODULES([SUITESPARSECONFIG], [suitesparseconfig]) ++PKG_CHECK_MODULES([CHOLMOD], [cholmod]) ++ ++# Checks for header files. ++AC_CHECK_HEADERS([float.h stdlib.h]) ++ ++AS_IF([test "x$with_tbb" = "xyes"], [ ++ AC_CHECK_HEADERS([tbb/task_scheduler_init.h tbb/task.h]) ++]) ++ ++# Checks for typedefs, structures, and compiler characteristics. ++AC_TYPE_SIZE_T ++ ++# Checks for library functions. ++AC_CHECK_FUNCS([sqrt]) ++ ++AS_VAR_SET([LIBS], [$LIBS_SAVED]) ++ ++AS_IF([test "x$with_tbb" = "xyes"], [ ++ AC_SUBST([TBB_CFLAGS], [""]) ++ AC_SUBST([TBB_LIBS], ["-ltbb"]) ++]) ++ ++AC_MSG_CHECKING([whether to use expert routines]) ++AC_MSG_RESULT([$enable_expert]) ++AM_CONDITIONAL([EXPERT], [test "x$enable_expert" = "xyes"]) ++ ++AC_MSG_CHECKING([whether to use Intel Threading Building Blocks]) ++AC_MSG_RESULT([$with_tbb]) ++AM_CONDITIONAL([TBB], [test "x$with_tbb" = "xyes"]) ++ ++PKG_INSTALLDIR ++AC_CONFIG_FILES([ ++ spqr.pc ++ Makefile ++ Demo/Makefile ++ Doc/Makefile ++ Include/Makefile ++ Matrix/Makefile ++ Source/Makefile ++ Tcov/Makefile ++]) ++#AC_CONFIG_LINKS([Matrix:Matrix]) # Can't link an entire directory? ++AC_CONFIG_LINKS([Matrix/GD01_b.mtx:Matrix/GD01_b.mtx]) ++AC_CONFIG_LINKS([Matrix/GD06_theory.mtx:Matrix/GD06_theory.mtx]) ++AC_CONFIG_LINKS([Matrix/GD98_a.mtx:Matrix/GD98_a.mtx]) ++AC_CONFIG_LINKS([Matrix/LFAT5.mtx:Matrix/LFAT5.mtx]) ++AC_CONFIG_LINKS([Matrix/Ragusa16.mtx:Matrix/Ragusa16.mtx]) ++AC_CONFIG_LINKS([Matrix/Tina_AskCal.mtx:Matrix/Tina_AskCal.mtx]) ++AC_CONFIG_LINKS([Matrix/Tina_AskCal_perm.mtx:Matrix/Tina_AskCal_perm.mtx]) ++AC_CONFIG_LINKS([Matrix/a0.mtx:Matrix/a0.mtx]) ++AC_CONFIG_LINKS([Matrix/a04.mtx:Matrix/a04.mtx]) ++AC_CONFIG_LINKS([Matrix/a1.mtx:Matrix/a1.mtx]) ++AC_CONFIG_LINKS([Matrix/a2.mtx:Matrix/a2.mtx]) ++AC_CONFIG_LINKS([Matrix/a4.mtx:Matrix/a4.mtx]) ++AC_CONFIG_LINKS([Matrix/arrow.mtx:Matrix/arrow.mtx]) ++AC_CONFIG_LINKS([Matrix/ash219.mtx:Matrix/ash219.mtx]) ++AC_CONFIG_LINKS([Matrix/b1_ss.mtx:Matrix/b1_ss.mtx]) ++AC_CONFIG_LINKS([Matrix/bcspwr01.mtx:Matrix/bcspwr01.mtx]) ++AC_CONFIG_LINKS([Matrix/bfwa62.mtx:Matrix/bfwa62.mtx]) ++AC_CONFIG_LINKS([Matrix/c2.mtx:Matrix/c2.mtx]) ++AC_CONFIG_LINKS([Matrix/c32.mtx:Matrix/c32.mtx]) ++AC_CONFIG_LINKS([Matrix/lfat5b.mtx:Matrix/lfat5b.mtx]) ++AC_CONFIG_LINKS([Matrix/lp_share1b.mtx:Matrix/lp_share1b.mtx]) ++AC_CONFIG_LINKS([Matrix/lpi_galenet.mtx:Matrix/lpi_galenet.mtx]) ++AC_CONFIG_LINKS([Matrix/lpi_itest6.mtx:Matrix/lpi_itest6.mtx]) ++AC_CONFIG_LINKS([Matrix/r2.mtx:Matrix/r2.mtx]) ++AC_CONFIG_LINKS([Matrix/s32.mtx:Matrix/s32.mtx]) ++AC_CONFIG_LINKS([Matrix/west0067.mtx:Matrix/west0067.mtx]) ++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 @@ -322,7 +514,7 @@ 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 @@ -337,7 +529,7 @@ 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], [ @@ -510,13 +702,282 @@ 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 @@ -566,7 +1027,7 @@ 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 @@ -581,7 +1042,7 @@ 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], [ @@ -646,100 +1107,6 @@ new file mode 100644 + $2 +fi +])dnl AX_LAPACK -diff --git a/configure.ac b/configure.ac -new file mode 100644 ---- /dev/null -+++ b/configure.ac -@@ -0,0 +1,89 @@ -+# -*- Autoconf -*- -+# Process this file with autoconf to produce a configure script. -+ -+AC_PREREQ([2.69]) -+AC_INIT([SPQR],[2.0.7],[DrTimothyAldenDavis@gmail.com],[spqr],[http://www.suitesparse.com/]) -+AC_CONFIG_SRCDIR([Source/spqr_kernel.cpp]) -+AC_CONFIG_HEADERS([config.h]) -+AM_INIT_AUTOMAKE([foreign]) -+LT_INIT -+ -+# Checks for programs. -+PKG_PROG_PKG_CONFIG -+AC_PROG_INSTALL -+AC_PROG_F77 -+AC_PROG_CC -+AC_PROG_CXX -+AC_LANG([C++]) -+ -+AC_ARG_ENABLE([expert], -+ [AS_HELP_STRING( -+ [--disable-expert], -+ [compile without the min 2-norm solution option])], -+ [], -+ [AS_VAR_SET([enable_expert], [yes])]) -+ -+AC_ARG_WITH([tbb], -+ [AS_HELP_STRING( -+ [--without-tbb], -+ [do not use Intel Threading Building Blocks for multithreading])], -+ [], -+ [AS_VAR_SET([with_tbb], [yes])]) -+ -+AS_VAR_SET([LIBS_SAVED], [$LIBS]) -+ -+# Checks for libraries. -+AC_CHECK_LIB([m], [sqrt]) -+ -+sinclude([ax_blas.m4]) -+AX_BLAS( -+ [], -+ [AC_MSG_ERROR([cannot find BLAS])]) -+ -+sinclude([ax_lapack.m4]) -+AX_LAPACK( -+ [], -+ [AC_MSG_ERROR([cannot find LAPACK])]) -+ -+PKG_CHECK_MODULES([SUITESPARSECONFIG], [suitesparseconfig]) -+PKG_CHECK_MODULES([CHOLMOD], [cholmod]) -+ -+# Checks for header files. -+AC_CHECK_HEADERS([float.h stdlib.h]) -+ -+AS_IF([test "x$with_tbb" = "xyes"], [ -+ AC_CHECK_HEADERS([tbb/task_scheduler_init.h tbb/task.h]) -+]) -+ -+# Checks for typedefs, structures, and compiler characteristics. -+AC_TYPE_SIZE_T -+ -+# Checks for library functions. -+AC_CHECK_FUNCS([sqrt]) -+ -+AS_VAR_SET([LIBS], [$LIBS_SAVED]) -+ -+AS_IF([test "x$with_tbb" = "xyes"], [ -+ AC_SUBST([TBB_CFLAGS], [""]) -+ AC_SUBST([TBB_LIBS], ["-ltbb"]) -+]) -+ -+AC_MSG_CHECKING([whether to use expert routines]) -+AC_MSG_RESULT([$enable_expert]) -+AM_CONDITIONAL([EXPERT], [test "x$enable_expert" = "xyes"]) -+ -+AC_MSG_CHECKING([whether to use Intel Threading Building Blocks]) -+AC_MSG_RESULT([$with_tbb]) -+AM_CONDITIONAL([TBB], [test "x$with_tbb" = "xyes"]) -+ -+PKG_INSTALLDIR -+AC_CONFIG_FILES([ -+ spqr.pc -+ Makefile -+ Demo/Makefile -+ Doc/Makefile -+ Include/Makefile -+ Matrix/Makefile -+ Source/Makefile -+]) -+AC_OUTPUT diff --git a/spqr.pc.in b/spqr.pc.in new file mode 100644 --- /dev/null diff --git a/academic/spqr/spqr.SlackBuild b/academic/spqr/spqr.SlackBuild index aa9380fc4bb72..4fb6a77e9b534 100644 --- a/academic/spqr/spqr.SlackBuild +++ b/academic/spqr/spqr.SlackBuild @@ -2,7 +2,7 @@ # Slackware build script for SPQR -# Copyright 2013-2016 Kyle Guinn <elyk03@gmail.com>, USA +# Copyright 2013-2017 Kyle Guinn <elyk03@gmail.com>, USA # All rights reserved. # # Redistribution and use of this script, with or without modification, is @@ -25,8 +25,8 @@ PRGNAM=spqr SRCNAM=SuiteSparse SUBDIR=SPQR -VERSION=${VERSION:-2.0.7} -SRCVER=${SRCVER:-4.5.3} +VERSION=${VERSION:-2.0.8} +SRCVER=${SRCVER:-4.5.5} BUILD=${BUILD:-1} TAG=${TAG:-_SBo} @@ -40,7 +40,7 @@ fi CWD=$(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 Doc/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 < $CWD/patches/atlas-lib-rename.diff autoreconf -vif # Avoid rebuilding the docs. @@ -91,8 +91,6 @@ touch Doc/spqr_user_guide.pdf --mandir=/usr/man \ --infodir=/usr/info \ --docdir=/usr/doc/$PRGNAM-$VERSION \ - --enable-shared \ - --disable-static \ --disable-dependency-tracking \ --build=$ARCH-slackware-linux \ CFLAGS="$SLKCFLAGS" \ diff --git a/academic/spqr/spqr.info b/academic/spqr/spqr.info index cf8bd8799bb8a..424db31cd78ab 100644 --- a/academic/spqr/spqr.info +++ b/academic/spqr/spqr.info @@ -1,8 +1,8 @@ PRGNAM="spqr" -VERSION="2.0.7" +VERSION="2.0.8" 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 cholmod tbb" |