Loading Makefile.in +1 −0 Original line number Diff line number Diff line Loading @@ -109,6 +109,7 @@ am__aclocal_m4_deps = $(top_srcdir)/config/libtool.m4 \ $(top_srcdir)/config/fopen.m4 $(top_srcdir)/config/asm-bsr.m4 \ $(top_srcdir)/config/sse2_shift_defect.m4 \ $(top_srcdir)/config/builtin-popcount.m4 \ $(top_srcdir)/config/simd-intrinsics.m4 \ $(top_srcdir)/config/ax_cpuid_intel.m4 \ $(top_srcdir)/config/ax_cpuid_non_intel.m4 \ $(top_srcdir)/config/ax_check_compile_flag.m4 \ Loading VERSION +1 −1 Original line number Diff line number Diff line 2018-07-04 No newline at end of file 2018-09-27 No newline at end of file acinclude.m4 +1 −0 Original line number Diff line number Diff line Loading @@ -23,6 +23,7 @@ m4_include([config/asm-bsr.m4]) m4_include([config/sse2_shift_defect.m4]) m4_include([config/builtin-popcount.m4]) m4_include([config/simd-intrinsics.m4]) m4_include([config/ax_cpuid_intel.m4]) m4_include([config/ax_cpuid_non_intel.m4]) Loading config/simd-intrinsics.m4 0 → 100644 +30 −0 Original line number Diff line number Diff line # _mm_extract_epi64 is supposed to be covered by HAVE_SSE4_1, but fails on i386 machines AC_DEFUN([ACX_SIMD_INTRINSICS], [ AC_LANG_SAVE AC_LANG(C) AC_MSG_CHECKING(for _mm_extract_epi64) AC_COMPILE_IFELSE( [AC_LANG_PROGRAM([[#include <smmintrin.h>]], [[__m128i a;]], [[_mm_extract_epi64(a,0);]])], [AC_MSG_RESULT(yes) AC_DEFINE([HAVE_MM_EXTRACT_EPI64],[1],[Define to 1 if _mm_extract_epi64 intrinsic is available.])], [AC_MSG_RESULT(no)]) AC_MSG_CHECKING(for _mm_popcnt_u64) AC_COMPILE_IFELSE( [AC_LANG_PROGRAM([[#include <smmintrin.h>]], [[int a;]], [[_mm_popcnt_u64(a);]])], [AC_MSG_RESULT(yes) AC_DEFINE([HAVE_MM_POPCNT_U64],[1],[Define to 1 if _mm_popcnt_u64 intrinsic is available.])], [AC_MSG_RESULT(no)]) AC_LANG_RESTORE ]) configure +78 −12 Original line number Diff line number Diff line #! /bin/sh # Guess values for system-dependent variables and create Makefiles. # Generated by GNU Autoconf 2.69 for gmap 2018-07-04. # Generated by GNU Autoconf 2.69 for gmap 2018-09-27. # # Report bugs to <Thomas Wu <twu@gene.com>>. # Loading Loading @@ -590,8 +590,8 @@ MAKEFLAGS= # Identity of this package. PACKAGE_NAME='gmap' PACKAGE_TARNAME='gmap' PACKAGE_VERSION='2018-07-04' PACKAGE_STRING='gmap 2018-07-04' PACKAGE_VERSION='2018-09-27' PACKAGE_STRING='gmap 2018-09-27' PACKAGE_BUGREPORT='Thomas Wu <twu@gene.com>' PACKAGE_URL='' Loading Loading @@ -1373,7 +1373,7 @@ if test "$ac_init_help" = "long"; then # Omit some internal or obsolete options to make the list less imposing. # This message is too long to be a string in the A/UX 3.1 sh. cat <<_ACEOF \`configure' configures gmap 2018-07-04 to adapt to many kinds of systems. \`configure' configures gmap 2018-09-27 to adapt to many kinds of systems. Usage: $0 [OPTION]... [VAR=VALUE]... Loading Loading @@ -1444,7 +1444,7 @@ fi if test -n "$ac_init_help"; then case $ac_init_help in short | recursive ) echo "Configuration of gmap 2018-07-04:";; short | recursive ) echo "Configuration of gmap 2018-09-27:";; esac cat <<\_ACEOF Loading Loading @@ -1585,7 +1585,7 @@ fi test -n "$ac_init_help" && exit $ac_status if $ac_init_version; then cat <<\_ACEOF gmap configure 2018-07-04 gmap configure 2018-09-27 generated by GNU Autoconf 2.69 Copyright (C) 2012 Free Software Foundation, Inc. Loading Loading @@ -2191,7 +2191,7 @@ cat >config.log <<_ACEOF This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by gmap $as_me 2018-07-04, which was It was created by gmap $as_me 2018-09-27, which was generated by GNU Autoconf 2.69. Invocation command line was $ $0 $@ Loading Loading @@ -2541,8 +2541,8 @@ ac_compiler_gnu=$ac_cv_c_compiler_gnu { $as_echo "$as_me:${as_lineno-$LINENO}: checking package version" >&5 $as_echo_n "checking package version... " >&6; } { $as_echo "$as_me:${as_lineno-$LINENO}: result: 2018-07-04" >&5 $as_echo "2018-07-04" >&6; } { $as_echo "$as_me:${as_lineno-$LINENO}: result: 2018-09-27" >&5 $as_echo "2018-09-27" >&6; } ### Read defaults Loading Loading @@ -4409,7 +4409,7 @@ fi # Define the identity of the package. PACKAGE='gmap' VERSION='2018-07-04' VERSION='2018-09-27' cat >>confdefs.h <<_ACEOF Loading Loading @@ -16869,6 +16869,72 @@ ac_compiler_gnu=$ac_cv_c_compiler_gnu ac_ext=c ac_cpp='$CPP $CPPFLAGS' ac_compile='$CC -c $CFLAGS $CPPFLAGS conftest.$ac_ext >&5' ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5' ac_compiler_gnu=$ac_cv_c_compiler_gnu { $as_echo "$as_me:${as_lineno-$LINENO}: checking for _mm_extract_epi64" >&5 $as_echo_n "checking for _mm_extract_epi64... " >&6; } cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include <smmintrin.h> int main () { __m128i a; ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO"; then : { $as_echo "$as_me:${as_lineno-$LINENO}: result: yes" >&5 $as_echo "yes" >&6; } $as_echo "#define HAVE_MM_EXTRACT_EPI64 1" >>confdefs.h else { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5 $as_echo "no" >&6; } fi rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext { $as_echo "$as_me:${as_lineno-$LINENO}: checking for _mm_popcnt_u64" >&5 $as_echo_n "checking for _mm_popcnt_u64... " >&6; } cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include <smmintrin.h> int main () { int a; ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO"; then : { $as_echo "$as_me:${as_lineno-$LINENO}: result: yes" >&5 $as_echo "yes" >&6; } $as_echo "#define HAVE_MM_POPCNT_U64 1" >>confdefs.h else { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5 $as_echo "no" >&6; } fi rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext ac_ext=c ac_cpp='$CPP $CPPFLAGS' ac_compile='$CC -c $CFLAGS $CPPFLAGS conftest.$ac_ext >&5' ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5' ac_compiler_gnu=$ac_cv_c_compiler_gnu { $as_echo "$as_me:${as_lineno-$LINENO}: checking for whether simd is enabled" >&5 $as_echo_n "checking for whether simd is enabled... " >&6; } # Check whether --enable-simd was given. Loading Loading @@ -19871,7 +19937,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1 # report actual input values of CONFIG_FILES etc. instead of their # values after options handling. ac_log=" This file was extended by gmap $as_me 2018-07-04, which was This file was extended by gmap $as_me 2018-09-27, which was generated by GNU Autoconf 2.69. Invocation command line was CONFIG_FILES = $CONFIG_FILES Loading Loading @@ -19937,7 +20003,7 @@ _ACEOF cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1 ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`" ac_cs_version="\\ gmap config.status 2018-07-04 gmap config.status 2018-09-27 configured by $0, generated by GNU Autoconf 2.69, with options \\"\$ac_cs_config\\" Loading
Makefile.in +1 −0 Original line number Diff line number Diff line Loading @@ -109,6 +109,7 @@ am__aclocal_m4_deps = $(top_srcdir)/config/libtool.m4 \ $(top_srcdir)/config/fopen.m4 $(top_srcdir)/config/asm-bsr.m4 \ $(top_srcdir)/config/sse2_shift_defect.m4 \ $(top_srcdir)/config/builtin-popcount.m4 \ $(top_srcdir)/config/simd-intrinsics.m4 \ $(top_srcdir)/config/ax_cpuid_intel.m4 \ $(top_srcdir)/config/ax_cpuid_non_intel.m4 \ $(top_srcdir)/config/ax_check_compile_flag.m4 \ Loading
VERSION +1 −1 Original line number Diff line number Diff line 2018-07-04 No newline at end of file 2018-09-27 No newline at end of file
acinclude.m4 +1 −0 Original line number Diff line number Diff line Loading @@ -23,6 +23,7 @@ m4_include([config/asm-bsr.m4]) m4_include([config/sse2_shift_defect.m4]) m4_include([config/builtin-popcount.m4]) m4_include([config/simd-intrinsics.m4]) m4_include([config/ax_cpuid_intel.m4]) m4_include([config/ax_cpuid_non_intel.m4]) Loading
config/simd-intrinsics.m4 0 → 100644 +30 −0 Original line number Diff line number Diff line # _mm_extract_epi64 is supposed to be covered by HAVE_SSE4_1, but fails on i386 machines AC_DEFUN([ACX_SIMD_INTRINSICS], [ AC_LANG_SAVE AC_LANG(C) AC_MSG_CHECKING(for _mm_extract_epi64) AC_COMPILE_IFELSE( [AC_LANG_PROGRAM([[#include <smmintrin.h>]], [[__m128i a;]], [[_mm_extract_epi64(a,0);]])], [AC_MSG_RESULT(yes) AC_DEFINE([HAVE_MM_EXTRACT_EPI64],[1],[Define to 1 if _mm_extract_epi64 intrinsic is available.])], [AC_MSG_RESULT(no)]) AC_MSG_CHECKING(for _mm_popcnt_u64) AC_COMPILE_IFELSE( [AC_LANG_PROGRAM([[#include <smmintrin.h>]], [[int a;]], [[_mm_popcnt_u64(a);]])], [AC_MSG_RESULT(yes) AC_DEFINE([HAVE_MM_POPCNT_U64],[1],[Define to 1 if _mm_popcnt_u64 intrinsic is available.])], [AC_MSG_RESULT(no)]) AC_LANG_RESTORE ])
configure +78 −12 Original line number Diff line number Diff line #! /bin/sh # Guess values for system-dependent variables and create Makefiles. # Generated by GNU Autoconf 2.69 for gmap 2018-07-04. # Generated by GNU Autoconf 2.69 for gmap 2018-09-27. # # Report bugs to <Thomas Wu <twu@gene.com>>. # Loading Loading @@ -590,8 +590,8 @@ MAKEFLAGS= # Identity of this package. PACKAGE_NAME='gmap' PACKAGE_TARNAME='gmap' PACKAGE_VERSION='2018-07-04' PACKAGE_STRING='gmap 2018-07-04' PACKAGE_VERSION='2018-09-27' PACKAGE_STRING='gmap 2018-09-27' PACKAGE_BUGREPORT='Thomas Wu <twu@gene.com>' PACKAGE_URL='' Loading Loading @@ -1373,7 +1373,7 @@ if test "$ac_init_help" = "long"; then # Omit some internal or obsolete options to make the list less imposing. # This message is too long to be a string in the A/UX 3.1 sh. cat <<_ACEOF \`configure' configures gmap 2018-07-04 to adapt to many kinds of systems. \`configure' configures gmap 2018-09-27 to adapt to many kinds of systems. Usage: $0 [OPTION]... [VAR=VALUE]... Loading Loading @@ -1444,7 +1444,7 @@ fi if test -n "$ac_init_help"; then case $ac_init_help in short | recursive ) echo "Configuration of gmap 2018-07-04:";; short | recursive ) echo "Configuration of gmap 2018-09-27:";; esac cat <<\_ACEOF Loading Loading @@ -1585,7 +1585,7 @@ fi test -n "$ac_init_help" && exit $ac_status if $ac_init_version; then cat <<\_ACEOF gmap configure 2018-07-04 gmap configure 2018-09-27 generated by GNU Autoconf 2.69 Copyright (C) 2012 Free Software Foundation, Inc. Loading Loading @@ -2191,7 +2191,7 @@ cat >config.log <<_ACEOF This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by gmap $as_me 2018-07-04, which was It was created by gmap $as_me 2018-09-27, which was generated by GNU Autoconf 2.69. Invocation command line was $ $0 $@ Loading Loading @@ -2541,8 +2541,8 @@ ac_compiler_gnu=$ac_cv_c_compiler_gnu { $as_echo "$as_me:${as_lineno-$LINENO}: checking package version" >&5 $as_echo_n "checking package version... " >&6; } { $as_echo "$as_me:${as_lineno-$LINENO}: result: 2018-07-04" >&5 $as_echo "2018-07-04" >&6; } { $as_echo "$as_me:${as_lineno-$LINENO}: result: 2018-09-27" >&5 $as_echo "2018-09-27" >&6; } ### Read defaults Loading Loading @@ -4409,7 +4409,7 @@ fi # Define the identity of the package. PACKAGE='gmap' VERSION='2018-07-04' VERSION='2018-09-27' cat >>confdefs.h <<_ACEOF Loading Loading @@ -16869,6 +16869,72 @@ ac_compiler_gnu=$ac_cv_c_compiler_gnu ac_ext=c ac_cpp='$CPP $CPPFLAGS' ac_compile='$CC -c $CFLAGS $CPPFLAGS conftest.$ac_ext >&5' ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5' ac_compiler_gnu=$ac_cv_c_compiler_gnu { $as_echo "$as_me:${as_lineno-$LINENO}: checking for _mm_extract_epi64" >&5 $as_echo_n "checking for _mm_extract_epi64... " >&6; } cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include <smmintrin.h> int main () { __m128i a; ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO"; then : { $as_echo "$as_me:${as_lineno-$LINENO}: result: yes" >&5 $as_echo "yes" >&6; } $as_echo "#define HAVE_MM_EXTRACT_EPI64 1" >>confdefs.h else { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5 $as_echo "no" >&6; } fi rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext { $as_echo "$as_me:${as_lineno-$LINENO}: checking for _mm_popcnt_u64" >&5 $as_echo_n "checking for _mm_popcnt_u64... " >&6; } cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include <smmintrin.h> int main () { int a; ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO"; then : { $as_echo "$as_me:${as_lineno-$LINENO}: result: yes" >&5 $as_echo "yes" >&6; } $as_echo "#define HAVE_MM_POPCNT_U64 1" >>confdefs.h else { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5 $as_echo "no" >&6; } fi rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext ac_ext=c ac_cpp='$CPP $CPPFLAGS' ac_compile='$CC -c $CFLAGS $CPPFLAGS conftest.$ac_ext >&5' ac_link='$CC -o conftest$ac_exeext $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS >&5' ac_compiler_gnu=$ac_cv_c_compiler_gnu { $as_echo "$as_me:${as_lineno-$LINENO}: checking for whether simd is enabled" >&5 $as_echo_n "checking for whether simd is enabled... " >&6; } # Check whether --enable-simd was given. Loading Loading @@ -19871,7 +19937,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1 # report actual input values of CONFIG_FILES etc. instead of their # values after options handling. ac_log=" This file was extended by gmap $as_me 2018-07-04, which was This file was extended by gmap $as_me 2018-09-27, which was generated by GNU Autoconf 2.69. Invocation command line was CONFIG_FILES = $CONFIG_FILES Loading Loading @@ -19937,7 +20003,7 @@ _ACEOF cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1 ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`" ac_cs_version="\\ gmap config.status 2018-07-04 gmap config.status 2018-09-27 configured by $0, generated by GNU Autoconf 2.69, with options \\"\$ac_cs_config\\"
