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"./$cache_file";; esac fi else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: creating cache $cache_file" >&5 printf "%s\n" "$as_me: creating cache $cache_file" >&6;} >$cache_file fi # Test code for whether the C compiler supports C89 (global declarations) ac_c_conftest_c89_globals=' /* Does the compiler advertise C89 conformance? Do not test the value of __STDC__, because some compilers set it to 0 while being otherwise adequately conformant. */ #if !defined __STDC__ # error "Compiler does not advertise C89 conformance" #endif #include #include struct stat; /* Most of the following tests are stolen from RCS 5.7 src/conf.sh. */ struct buf { int x; }; struct buf * (*rcsopen) (struct buf *, struct stat *, int); static char *e (p, i) char **p; int i; { return p[i]; } static char *f (char * (*g) (char **, int), char **p, ...) { char *s; va_list v; va_start (v,p); s = g (p, va_arg (v,int)); va_end (v); return s; } /* OSF 4.0 Compaq cc is some sort of almost-ANSI by default. It has function prototypes and stuff, but not \xHH hex character constants. These do not provoke an error unfortunately, instead are silently treated as an "x". The following induces an error, until -std is added to get proper ANSI mode. Curiously \x00 != x always comes out true, for an array size at least. It is necessary to write \x00 == 0 to get something that is true only with -std. */ int osf4_cc_array ['\''\x00'\'' == 0 ? 1 : -1]; /* IBM C 6 for AIX is almost-ANSI by default, but it replaces macro parameters inside strings and character constants. */ #define FOO(x) '\''x'\'' int xlc6_cc_array[FOO(a) == '\''x'\'' ? 1 : -1]; int test (int i, double x); struct s1 {int (*f) (int a);}; struct s2 {int (*f) (double a);}; int pairnames (int, char **, int *(*)(struct buf *, struct stat *, int), int, int);' # Test code for whether the C compiler supports C89 (body of main). ac_c_conftest_c89_main=' ok |= (argc == 0 || f (e, argv, 0) != argv[0] || f (e, argv, 1) != argv[1]); ' # Test code for whether the C compiler supports C99 (global declarations) ac_c_conftest_c99_globals=' // Does the compiler advertise C99 conformance? #if !defined __STDC_VERSION__ || __STDC_VERSION__ < 199901L # error "Compiler does not advertise C99 conformance" #endif #include extern int puts (const char *); extern int printf (const char *, ...); extern int dprintf (int, const char *, ...); extern void *malloc (size_t); // Check varargs macros. These examples are taken from C99 6.10.3.5. // dprintf is used instead of fprintf to avoid needing to declare // FILE and stderr. #define debug(...) dprintf (2, __VA_ARGS__) #define showlist(...) puts (#__VA_ARGS__) #define report(test,...) ((test) ? puts (#test) : printf (__VA_ARGS__)) static void test_varargs_macros (void) { int x = 1234; int y = 5678; debug ("Flag"); debug ("X = %d\n", x); showlist (The first, second, and third items.); report (x>y, "x is %d but y is %d", x, y); } // Check long long types. #define BIG64 18446744073709551615ull #define BIG32 4294967295ul #define BIG_OK (BIG64 / BIG32 == 4294967297ull && BIG64 % BIG32 == 0) #if !BIG_OK #error "your preprocessor is broken" #endif #if BIG_OK #else #error "your preprocessor is broken" #endif static long long int bignum = -9223372036854775807LL; static unsigned long long int ubignum = BIG64; struct incomplete_array { int datasize; double data[]; }; struct named_init { int number; const wchar_t *name; double average; }; typedef const char *ccp; static inline int test_restrict (ccp restrict text) { // See if C++-style comments work. // Iterate through items via the restricted pointer. // Also check for declarations in for loops. for (unsigned int i = 0; *(text+i) != '\''\0'\''; ++i) continue; return 0; } // Check varargs and va_copy. static bool test_varargs (const char *format, ...) { va_list args; va_start (args, format); va_list args_copy; va_copy (args_copy, args); const char *str = ""; int number = 0; float fnumber = 0; while (*format) { switch (*format++) { case '\''s'\'': // string str = va_arg (args_copy, const char *); break; case '\''d'\'': // int number = va_arg (args_copy, int); break; case '\''f'\'': // float fnumber = va_arg (args_copy, double); break; default: break; } } va_end (args_copy); va_end (args); return *str && number && fnumber; } ' # Test code for whether the C compiler supports C99 (body of main). ac_c_conftest_c99_main=' // Check bool. _Bool success = false; success |= (argc != 0); // Check restrict. if (test_restrict ("String literal") == 0) success = true; char *restrict newvar = "Another string"; // Check varargs. success &= test_varargs ("s, d'\'' f .", "string", 65, 34.234); test_varargs_macros (); // Check flexible array members. struct incomplete_array *ia = malloc (sizeof (struct incomplete_array) + (sizeof (double) * 10)); ia->datasize = 10; for (int i = 0; i < ia->datasize; ++i) ia->data[i] = i * 1.234; // Check named initializers. struct named_init ni = { .number = 34, .name = L"Test wide string", .average = 543.34343, }; ni.number = 58; int dynamic_array[ni.number]; dynamic_array[0] = argv[0][0]; dynamic_array[ni.number - 1] = 543; // work around unused variable warnings ok |= (!success || bignum == 0LL || ubignum == 0uLL || newvar[0] == '\''x'\'' || dynamic_array[ni.number - 1] != 543); ' # Test code for whether the C compiler supports C11 (global declarations) ac_c_conftest_c11_globals=' // Does the compiler advertise C11 conformance? #if !defined __STDC_VERSION__ || __STDC_VERSION__ < 201112L # error "Compiler does not advertise C11 conformance" #endif // Check _Alignas. char _Alignas (double) aligned_as_double; char _Alignas (0) no_special_alignment; extern char aligned_as_int; char _Alignas (0) _Alignas (int) aligned_as_int; // Check _Alignof. enum { int_alignment = _Alignof (int), int_array_alignment = _Alignof (int[100]), char_alignment = _Alignof (char) }; _Static_assert (0 < -_Alignof (int), "_Alignof is signed"); // Check _Noreturn. int _Noreturn does_not_return (void) { for (;;) continue; } // Check _Static_assert. struct test_static_assert { int x; _Static_assert (sizeof (int) <= sizeof (long int), "_Static_assert does not work in struct"); long int y; }; // Check UTF-8 literals. #define u8 syntax error! char const utf8_literal[] = u8"happens to be ASCII" "another string"; // Check duplicate typedefs. typedef long *long_ptr; typedef long int *long_ptr; typedef long_ptr long_ptr; // Anonymous structures and unions -- taken from C11 6.7.2.1 Example 1. struct anonymous { union { struct { int i; int j; }; struct { int k; long int l; } w; }; int m; } v1; ' # Test code for whether the C compiler supports C11 (body of main). ac_c_conftest_c11_main=' _Static_assert ((offsetof (struct anonymous, i) == offsetof (struct anonymous, w.k)), "Anonymous union alignment botch"); v1.i = 2; v1.w.k = 5; ok |= v1.i != 5; ' # Test code for whether the C compiler supports C11 (complete). ac_c_conftest_c11_program="${ac_c_conftest_c89_globals} ${ac_c_conftest_c99_globals} ${ac_c_conftest_c11_globals} int main (int argc, char **argv) { int ok = 0; ${ac_c_conftest_c89_main} ${ac_c_conftest_c99_main} ${ac_c_conftest_c11_main} return ok; } " # Test code for whether the C compiler supports C99 (complete). ac_c_conftest_c99_program="${ac_c_conftest_c89_globals} ${ac_c_conftest_c99_globals} int main (int argc, char **argv) { int ok = 0; ${ac_c_conftest_c89_main} ${ac_c_conftest_c99_main} return ok; } " # Test code for whether the C compiler supports C89 (complete). ac_c_conftest_c89_program="${ac_c_conftest_c89_globals} int main (int argc, char **argv) { int ok = 0; ${ac_c_conftest_c89_main} return ok; } " as_fn_append ac_header_c_list " stdio.h stdio_h HAVE_STDIO_H" as_fn_append ac_header_c_list " stdlib.h stdlib_h HAVE_STDLIB_H" as_fn_append ac_header_c_list " string.h string_h HAVE_STRING_H" as_fn_append ac_header_c_list " inttypes.h inttypes_h HAVE_INTTYPES_H" as_fn_append ac_header_c_list " stdint.h stdint_h HAVE_STDINT_H" as_fn_append ac_header_c_list " strings.h strings_h HAVE_STRINGS_H" as_fn_append ac_header_c_list " sys/stat.h sys_stat_h HAVE_SYS_STAT_H" as_fn_append ac_header_c_list " sys/types.h sys_types_h HAVE_SYS_TYPES_H" as_fn_append ac_header_c_list " unistd.h unistd_h HAVE_UNISTD_H" # Auxiliary files required by this configure script. ac_aux_files="install-sh config.guess config.sub" # Locations in which to look for auxiliary files. ac_aux_dir_candidates="${srcdir}${PATH_SEPARATOR}${srcdir}/..${PATH_SEPARATOR}${srcdir}/../.." # Search for a directory containing all of the required auxiliary files, # $ac_aux_files, from the $PATH-style list $ac_aux_dir_candidates. # If we don't find one directory that contains all the files we need, # we report the set of missing files from the *first* directory in # $ac_aux_dir_candidates and give up. ac_missing_aux_files="" ac_first_candidate=: printf "%s\n" "$as_me:${as_lineno-$LINENO}: looking for aux files: $ac_aux_files" >&5 as_save_IFS=$IFS; IFS=$PATH_SEPARATOR as_found=false for as_dir in $ac_aux_dir_candidates do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac as_found=: printf "%s\n" "$as_me:${as_lineno-$LINENO}: trying $as_dir" >&5 ac_aux_dir_found=yes ac_install_sh= for ac_aux in $ac_aux_files do # As a special case, if "install-sh" is required, that requirement # can be satisfied by any of "install-sh", "install.sh", or "shtool", # and $ac_install_sh is set appropriately for whichever one is found. if test x"$ac_aux" = x"install-sh" then if test -f "${as_dir}install-sh"; then printf "%s\n" "$as_me:${as_lineno-$LINENO}: ${as_dir}install-sh found" >&5 ac_install_sh="${as_dir}install-sh -c" elif test -f "${as_dir}install.sh"; then printf "%s\n" "$as_me:${as_lineno-$LINENO}: ${as_dir}install.sh found" >&5 ac_install_sh="${as_dir}install.sh -c" elif test -f "${as_dir}shtool"; then printf "%s\n" "$as_me:${as_lineno-$LINENO}: ${as_dir}shtool found" >&5 ac_install_sh="${as_dir}shtool install -c" else ac_aux_dir_found=no if $ac_first_candidate; then ac_missing_aux_files="${ac_missing_aux_files} install-sh" else break fi fi else if test -f "${as_dir}${ac_aux}"; then printf "%s\n" "$as_me:${as_lineno-$LINENO}: ${as_dir}${ac_aux} found" >&5 else ac_aux_dir_found=no if $ac_first_candidate; then ac_missing_aux_files="${ac_missing_aux_files} ${ac_aux}" else break fi fi fi done if test "$ac_aux_dir_found" = yes; then ac_aux_dir="$as_dir" break fi ac_first_candidate=false as_found=false done IFS=$as_save_IFS if $as_found then : else $as_nop as_fn_error $? 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Info on the package ################################################################ # # AC_INIT args set these output variables and preprocessor symbols: # PACKAGE_NAME e.g. "HMMER" # PACKAGE_VERSION e.g. "3.2" # PACKAGE_BUGREPORT e.g. "sean@eddylab.org" # PACKAGE_TARNAME e.g. "hmmer" # From them, AC_INIT automatically derives one more: # PACKAGE_STRING , e.g. "HMMER 3.2" # and we define additional output variables of our own: # HMMER_DATE release date: e.g. "August 2017" # HMMER_COPYRIGHT one-line copyright string # HMMER_LICENSE one-line license string # HMMER_VERSION copy of version code, e.g. "3.2" # HMMER_URL URL home for HMMER. # And we have to define the relevant package variables for Easel as well. # # We avoid using AC_INIT's PACKAGE_ variables anywhere, because we want to be able # to use HMMER as a library inside other packages, with no name clashes. ################################################################ HMMER_DATE="Aug 2023" HMMER_COPYRIGHT="Copyright (C) 2023 Howard Hughes Medical Institute." HMMER_LICENSE="Freely distributed under the BSD open source license." HMMER_VERSION=$PACKAGE_VERSION HMMER_URL="http://hmmer.org/" HMMER_ESLDIR="easel" HMMER_SADIR="libdivsufsort" EASEL_DATE="Aug 2023" EASEL_COPYRIGHT="Copyright (C) 2023 Howard Hughes Medical Institute." EASEL_LICENSE="Freely distributed under the BSD open source license." EASEL_VERSION="0.49" EASEL_URL="http://bioeasel.org/" printf "%s\n" "#define HMMER_DATE \"$HMMER_DATE\"" >>confdefs.h printf "%s\n" "#define HMMER_COPYRIGHT \"$HMMER_COPYRIGHT\"" >>confdefs.h printf "%s\n" "#define HMMER_LICENSE \"$HMMER_LICENSE\"" >>confdefs.h printf "%s\n" "#define HMMER_VERSION \"$HMMER_VERSION\"" >>confdefs.h printf "%s\n" "#define HMMER_URL \"$HMMER_URL\"" >>confdefs.h printf "%s\n" "#define EASEL_DATE \"$EASEL_DATE\"" >>confdefs.h printf "%s\n" "#define EASEL_COPYRIGHT \"$EASEL_COPYRIGHT\"" >>confdefs.h printf "%s\n" "#define EASEL_LICENSE \"$EASEL_LICENSE\"" >>confdefs.h printf "%s\n" "#define EASEL_VERSION \"$EASEL_VERSION\"" >>confdefs.h printf "%s\n" "#define EASEL_URL \"$EASEL_URL\"" >>confdefs.h # Figure out what host we're compiling on. # Three GNU scripts must be included in the distro: # install.sh, config.guess, config.sub # This sets four shell variables: # host example: i686-pc-linux-gnu # host_cpu example: i686 # host_vendor example: pc # host_os example: linux-gnu # Make sure we can run config.sub. $SHELL "${ac_aux_dir}config.sub" sun4 >/dev/null 2>&1 || as_fn_error $? "cannot run $SHELL ${ac_aux_dir}config.sub" "$LINENO" 5 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking build system type" >&5 printf %s "checking build system type... " >&6; } if test ${ac_cv_build+y} then : printf %s "(cached) " >&6 else $as_nop ac_build_alias=$build_alias test "x$ac_build_alias" = x && ac_build_alias=`$SHELL "${ac_aux_dir}config.guess"` test "x$ac_build_alias" = x && as_fn_error $? "cannot guess build type; you must specify one" "$LINENO" 5 ac_cv_build=`$SHELL "${ac_aux_dir}config.sub" $ac_build_alias` || as_fn_error $? "$SHELL ${ac_aux_dir}config.sub $ac_build_alias failed" "$LINENO" 5 fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_build" >&5 printf "%s\n" "$ac_cv_build" >&6; } case $ac_cv_build in *-*-*) ;; *) as_fn_error $? "invalid value of canonical build" "$LINENO" 5;; esac build=$ac_cv_build ac_save_IFS=$IFS; IFS='-' set x $ac_cv_build shift build_cpu=$1 build_vendor=$2 shift; shift # Remember, the first character of IFS is used to create $*, # except with old shells: build_os=$* IFS=$ac_save_IFS case $build_os in *\ *) build_os=`echo "$build_os" | sed 's/ /-/g'`;; esac { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking host system type" >&5 printf %s "checking host system type... " >&6; } if test ${ac_cv_host+y} then : printf %s "(cached) " >&6 else $as_nop if test "x$host_alias" = x; then ac_cv_host=$ac_cv_build else ac_cv_host=`$SHELL "${ac_aux_dir}config.sub" $host_alias` || as_fn_error $? "$SHELL ${ac_aux_dir}config.sub $host_alias failed" "$LINENO" 5 fi fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_host" >&5 printf "%s\n" "$ac_cv_host" >&6; } case $ac_cv_host in *-*-*) ;; *) as_fn_error $? "invalid value of canonical host" "$LINENO" 5;; esac host=$ac_cv_host ac_save_IFS=$IFS; IFS='-' set x $ac_cv_host shift host_cpu=$1 host_vendor=$2 shift; shift # Remember, the first character of IFS is used to create $*, # except with old shells: host_os=$* IFS=$ac_save_IFS case $host_os in *\ *) host_os=`echo "$host_os" | sed 's/ /-/g'`;; esac ################################################################ # 4. Process the ./configure command line ################################################################ # --enable-debugging - set basic debugging (level 0) # --enable-debugging=x - set debugging level to (1-3) # # At all levels, including 0, replaces CFLAGS w/ "-g -Wall" (so it assumes gcc). # Sets eslDEBUGLEVEL preprocessor symbol, which compiles in debugging support, to 0..3. # # Check whether --enable-debugging was given. if test ${enable_debugging+y} then : enableval=$enable_debugging; enable_debugging=$enableval else $as_nop enable_debugging=no fi case $enable_debugging in yes) printf "%s\n" "#define eslDEBUGLEVEL 1" >>confdefs.h ;; 1) printf "%s\n" "#define eslDEBUGLEVEL 1" >>confdefs.h ;; 2) printf "%s\n" "#define eslDEBUGLEVEL 2" >>confdefs.h ;; 3) printf "%s\n" "#define eslDEBUGLEVEL 3" >>confdefs.h ;; no) printf "%s\n" "#define eslDEBUGLEVEL 0" >>confdefs.h ;; *) as_fn_error $? "Unknown argument to --enable-debugging: $enable_debugging" "$LINENO" 5;; esac # Check whether --enable-gcov was given. if test ${enable_gcov+y} then : enableval=$enable_gcov; enable_gcov=$enableval else $as_nop enable_gcov=no fi # Check whether --enable-gprof was given. if test ${enable_gprof+y} then : enableval=$enable_gprof; enable_gprof=$enableval else $as_nop enable_gprof=no fi # Check whether --enable-asan was given. if test ${enable_asan+y} then : enableval=$enable_asan; enable_asan=$enableval else $as_nop enable_asan=no fi # Check whether --enable-tsan was given. if test ${enable_tsan+y} then : enableval=$enable_tsan; enable_tsan=$enableval else $as_nop enable_tsan=no fi # Check whether --enable-fortify was given. if test ${enable_fortify+y} then : enableval=$enable_fortify; enable_fortify=$enableval else $as_nop enable_fortify=no fi # Check whether --enable-neon was given. if test ${enable_neon+y} then : enableval=$enable_neon; enable_neon=$enableval else $as_nop enable_neon=check fi # Check whether --enable-sse was given. if test ${enable_sse+y} then : enableval=$enable_sse; enable_sse=$enableval else $as_nop enable_sse=check fi # Check whether --enable-vmx was given. if test ${enable_vmx+y} then : enableval=$enable_vmx; enable_vmx=$enableval else $as_nop enable_vmx=check fi # Check whether --enable-threads was given. if test ${enable_threads+y} then : enableval=$enable_threads; enable_threads=$enableval else $as_nop enable_threads=check fi # Check whether --enable-mpi was given. if test ${enable_mpi+y} then : enableval=$enable_mpi; enable_mpi=$enableval else $as_nop enable_mpi=no fi # Check whether --enable-pic was given. if test ${enable_pic+y} then : enableval=$enable_pic; enable_pic=$enableval else $as_nop enable_pic=no fi # Check whether --with-gsl was given. if test ${with_gsl+y} then : withval=$with_gsl; with_gsl=$withval else $as_nop with_gsl=no fi # If a vector implementation is force-selected, make sure only one is, # and turn off checking for the others. vecsel=0 if test "$enable_neon" = "yes"; then vecsel=$((vecsel+1)); fi if test "$enable_sse" = "yes"; then vecsel=$((vecsel+1)); fi if test "$enable_vmx" = "yes"; then vecsel=$((vecsel+1)); fi if test "$enable_neon" = "yes"; then vecsel= ; fi if [ $vecsel -gt 1 ]; then as_fn_error $? "Select only one implementation: sse, neon, or vmx" "$LINENO" 5 elif [ $vecsel -eq 1 ]; then if test "$enable_neon" = "check"; then enable_neon="no"; fi if test "$enable_sse" = "check"; then enable_sse="no"; fi if test "$enable_vmx" = "check"; then enable_vmx="no"; fi if test "$enable_neon" = "check"; then enable_neon="no"; fi fi ################################################################ # 5. Checks for programs, including ${CC} and ${CFLAGS}. ################################################################ # Choose our compiler - which might be mpicc, if enable_mpi is "yes". # AX_PROG_CC_MPI will call AC_PROG_CC if enable_mpi is "no". # # If CFLAGS hasn't been set by the user, set it to an empty string # in the environment. This prevents AC_PROG_CC from setting it to # "-g -O2" or "-g". Some of our --enable-* options will add to CFLAGS. # # The `: ${CFLAGS=""}` shell syntax uses the null operator `:` to # discard the output of `${CFLAGS=""}`, which returns the value of # CFLAGS if already set. # : ${CFLAGS=""} { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether to compile using MPI" >&5 printf %s "checking whether to compile using MPI... " >&6; } if test x"$enable_mpi" = xyes; then _ax_prog_cc_mpi_mpi_wanted=yes else _ax_prog_cc_mpi_mpi_wanted=no fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $_ax_prog_cc_mpi_mpi_wanted" >&5 printf "%s\n" "$_ax_prog_cc_mpi_mpi_wanted" >&6; } if test x"$_ax_prog_cc_mpi_mpi_wanted" = xyes; then if test -z "$CC" && test -n "$MPICC"; then CC="$MPICC" else if test -n "$ac_tool_prefix"; then for ac_prog in mpicc mpixlc_r mpixlc hcc mpxlc_r mpxlc sxmpicc mpifcc mpgcc mpcc cmpicc cc gcc do # Extract the first word of "$ac_tool_prefix$ac_prog", so it can be a program name with args. set dummy $ac_tool_prefix$ac_prog; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$CC"; then ac_cv_prog_CC="$CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_CC="$ac_tool_prefix$ac_prog" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi CC=$ac_cv_prog_CC if test -n "$CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $CC" >&5 printf "%s\n" "$CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi test -n "$CC" && break done fi if test -z "$CC"; then ac_ct_CC=$CC for ac_prog in mpicc mpixlc_r mpixlc hcc mpxlc_r mpxlc sxmpicc mpifcc mpgcc mpcc cmpicc cc gcc do # Extract the first word of "$ac_prog", so it can be a program name with args. set dummy $ac_prog; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_ac_ct_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$ac_ct_CC"; then ac_cv_prog_ac_ct_CC="$ac_ct_CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_ac_ct_CC="$ac_prog" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi ac_ct_CC=$ac_cv_prog_ac_ct_CC if test -n "$ac_ct_CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_ct_CC" >&5 printf "%s\n" "$ac_ct_CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi test -n "$ac_ct_CC" && break done if test "x$ac_ct_CC" = x; then CC="" else case $cross_compiling:$ac_tool_warned in yes:) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: WARNING: using cross tools not prefixed with host triplet" >&5 printf "%s\n" "$as_me: WARNING: using cross tools not prefixed with host triplet" >&2;} ac_tool_warned=yes ;; esac CC=$ac_ct_CC fi fi fi fi ac_ext=c ac_cpp='$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 if test -n "$ac_tool_prefix"; then # Extract the first word of "${ac_tool_prefix}gcc", so it can be a program name with args. set dummy ${ac_tool_prefix}gcc; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$CC"; then ac_cv_prog_CC="$CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_CC="${ac_tool_prefix}gcc" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi CC=$ac_cv_prog_CC if test -n "$CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $CC" >&5 printf "%s\n" "$CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi fi if test -z "$ac_cv_prog_CC"; then ac_ct_CC=$CC # Extract the first word of "gcc", so it can be a program name with args. set dummy gcc; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_ac_ct_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$ac_ct_CC"; then ac_cv_prog_ac_ct_CC="$ac_ct_CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_ac_ct_CC="gcc" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi ac_ct_CC=$ac_cv_prog_ac_ct_CC if test -n "$ac_ct_CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_ct_CC" >&5 printf "%s\n" "$ac_ct_CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi if test "x$ac_ct_CC" = x; then CC="" else case $cross_compiling:$ac_tool_warned in yes:) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: WARNING: using cross tools not prefixed with host triplet" >&5 printf "%s\n" "$as_me: WARNING: using cross tools not prefixed with host triplet" >&2;} ac_tool_warned=yes ;; esac CC=$ac_ct_CC fi else CC="$ac_cv_prog_CC" fi if test -z "$CC"; then if test -n "$ac_tool_prefix"; then # Extract the first word of "${ac_tool_prefix}cc", so it can be a program name with args. set dummy ${ac_tool_prefix}cc; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$CC"; then ac_cv_prog_CC="$CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_CC="${ac_tool_prefix}cc" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi CC=$ac_cv_prog_CC if test -n "$CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $CC" >&5 printf "%s\n" "$CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi fi fi if test -z "$CC"; then # Extract the first word of "cc", so it can be a program name with args. set dummy cc; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$CC"; then ac_cv_prog_CC="$CC" # Let the user override the test. else ac_prog_rejected=no as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then if test "$as_dir$ac_word$ac_exec_ext" = "/usr/ucb/cc"; then ac_prog_rejected=yes continue fi ac_cv_prog_CC="cc" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS if test $ac_prog_rejected = yes; then # We found a bogon in the path, so make sure we never use it. set dummy $ac_cv_prog_CC shift if test $# != 0; then # We chose a different compiler from the bogus one. # However, it has the same basename, so the bogon will be chosen # first if we set CC to just the basename; use the full file name. shift ac_cv_prog_CC="$as_dir$ac_word${1+' '}$@" fi fi fi fi CC=$ac_cv_prog_CC if test -n "$CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $CC" >&5 printf "%s\n" "$CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi fi if test -z "$CC"; then if test -n "$ac_tool_prefix"; then for ac_prog in cl.exe do # Extract the first word of "$ac_tool_prefix$ac_prog", so it can be a program name with args. set dummy $ac_tool_prefix$ac_prog; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$CC"; then ac_cv_prog_CC="$CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_CC="$ac_tool_prefix$ac_prog" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi CC=$ac_cv_prog_CC if test -n "$CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $CC" >&5 printf "%s\n" "$CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi test -n "$CC" && break done fi if test -z "$CC"; then ac_ct_CC=$CC for ac_prog in cl.exe do # Extract the first word of "$ac_prog", so it can be a program name with args. set dummy $ac_prog; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... 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" >&6; } if test ${ac_cv_prog_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$CC"; then ac_cv_prog_CC="$CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_CC="${ac_tool_prefix}clang" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi CC=$ac_cv_prog_CC if test -n "$CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $CC" >&5 printf "%s\n" "$CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi fi if test -z "$ac_cv_prog_CC"; then ac_ct_CC=$CC # Extract the first word of "clang", so it can be a program name with args. set dummy clang; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... 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" >&6; } if test ${ax_cv_PTHREAD_CLANG+y} then : printf %s "(cached) " >&6 else $as_nop ax_cv_PTHREAD_CLANG=no # Note that Autoconf sets GCC=yes for Clang as well as GCC if test "x$GCC" = "xyes"; then cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Note: Clang 2.7 lacks __clang_[a-z]+__ */ # if defined(__clang__) && defined(__llvm__) AX_PTHREAD_CC_IS_CLANG # endif _ACEOF if (eval "$ac_cpp conftest.$ac_ext") 2>&5 | $EGREP "AX_PTHREAD_CC_IS_CLANG" >/dev/null 2>&1 then : ax_cv_PTHREAD_CLANG=yes fi rm -rf conftest* fi fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_cv_PTHREAD_CLANG" >&5 printf "%s\n" "$ax_cv_PTHREAD_CLANG" >&6; } ax_pthread_clang="$ax_cv_PTHREAD_CLANG" # GCC generally uses -pthread, or -pthreads on some platforms (e.g. SPARC) # Note that for GCC and Clang -pthread generally implies -lpthread, # except when -nostdlib is passed. # This is problematic using libtool to build C++ shared libraries with pthread: # [1] https://gcc.gnu.org/bugzilla/show_bug.cgi?id=25460 # [2] https://bugzilla.redhat.com/show_bug.cgi?id=661333 # [3] https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=468555 # To solve this, first try -pthread together with -lpthread for GCC if test "x$GCC" = "xyes" then : ax_pthread_flags="-pthread,-lpthread -pthread -pthreads $ax_pthread_flags" fi # Clang takes -pthread (never supported any other flag), but we'll try with -lpthread first if test "x$ax_pthread_clang" = "xyes" then : ax_pthread_flags="-pthread,-lpthread -pthread" fi # The presence of a feature test macro requesting re-entrant function # definitions is, on some systems, a strong hint that pthreads support is # correctly enabled case $host_os in darwin* | hpux* | linux* | osf* | solaris*) ax_pthread_check_macro="_REENTRANT" ;; aix*) ax_pthread_check_macro="_THREAD_SAFE" ;; *) ax_pthread_check_macro="--" ;; esac if test "x$ax_pthread_check_macro" = "x--" then : ax_pthread_check_cond=0 else $as_nop ax_pthread_check_cond="!defined($ax_pthread_check_macro)" fi if test "x$ax_pthread_ok" = "xno"; then for ax_pthread_try_flag in $ax_pthread_flags; do case $ax_pthread_try_flag in none) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether pthreads work without any flags" >&5 printf %s "checking whether pthreads work without any flags... 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" >&6; } if test ${ac_cv_prog_ax_pthread_config+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$ax_pthread_config"; then ac_cv_prog_ax_pthread_config="$ax_pthread_config" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_ax_pthread_config="yes" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS test -z "$ac_cv_prog_ax_pthread_config" && ac_cv_prog_ax_pthread_config="no" fi fi ax_pthread_config=$ac_cv_prog_ax_pthread_config if test -n "$ax_pthread_config"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_pthread_config" >&5 printf "%s\n" "$ax_pthread_config" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi if test "x$ax_pthread_config" = "xno" then : continue fi PTHREAD_CFLAGS="`pthread-config --cflags`" PTHREAD_LIBS="`pthread-config --ldflags` `pthread-config --libs`" ;; *) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for the pthreads library -l$ax_pthread_try_flag" >&5 printf %s "checking for the pthreads library -l$ax_pthread_try_flag... " >&6; } PTHREAD_LIBS="-l$ax_pthread_try_flag" ;; esac ax_pthread_save_CFLAGS="$CFLAGS" ax_pthread_save_LIBS="$LIBS" CFLAGS="$CFLAGS $PTHREAD_CFLAGS" LIBS="$PTHREAD_LIBS $LIBS" # Check for various functions. We must include pthread.h, # since some functions may be macros. (On the Sequent, we # need a special flag -Kthread to make this header compile.) # We check for pthread_join because it is in -lpthread on IRIX # while pthread_create is in libc. We check for pthread_attr_init # due to DEC craziness with -lpthreads. We check for # pthread_cleanup_push because it is one of the few pthread # functions on Solaris that doesn't have a non-functional libc stub. # We try pthread_create on general principles. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include # if $ax_pthread_check_cond # error "$ax_pthread_check_macro must be defined" # endif static void *some_global = NULL; static void routine(void *a) { /* To avoid any unused-parameter or unused-but-set-parameter warning. */ some_global = a; } static void *start_routine(void *a) { return a; } int main (void) { pthread_t th; pthread_attr_t attr; pthread_create(&th, 0, start_routine, 0); pthread_join(th, 0); pthread_attr_init(&attr); pthread_cleanup_push(routine, 0); pthread_cleanup_pop(0) /* ; */ ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : ax_pthread_ok=yes fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext CFLAGS="$ax_pthread_save_CFLAGS" LIBS="$ax_pthread_save_LIBS" { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_pthread_ok" >&5 printf "%s\n" "$ax_pthread_ok" >&6; } if test "x$ax_pthread_ok" = "xyes" then : break fi PTHREAD_LIBS="" PTHREAD_CFLAGS="" done fi # Clang needs special handling, because older versions handle the -pthread # option in a rather... idiosyncratic way if test "x$ax_pthread_clang" = "xyes"; then # Clang takes -pthread; it has never supported any other flag # (Note 1: This will need to be revisited if a system that Clang # supports has POSIX threads in a separate library. This tends not # to be the way of modern systems, but it's conceivable.) # (Note 2: On some systems, notably Darwin, -pthread is not needed # to get POSIX threads support; the API is always present and # active. We could reasonably leave PTHREAD_CFLAGS empty. But # -pthread does define _REENTRANT, and while the Darwin headers # ignore this macro, third-party headers might not.) # However, older versions of Clang make a point of warning the user # that, in an invocation where only linking and no compilation is # taking place, the -pthread option has no effect ("argument unused # during compilation"). They expect -pthread to be passed in only # when source code is being compiled. # # Problem is, this is at odds with the way Automake and most other # C build frameworks function, which is that the same flags used in # compilation (CFLAGS) are also used in linking. Many systems # supported by AX_PTHREAD require exactly this for POSIX threads # support, and in fact it is often not straightforward to specify a # flag that is used only in the compilation phase and not in # linking. Such a scenario is extremely rare in practice. # # Even though use of the -pthread flag in linking would only print # a warning, this can be a nuisance for well-run software projects # that build with -Werror. So if the active version of Clang has # this misfeature, we search for an option to squash it. { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether Clang needs flag to prevent \"argument unused\" warning when linking with -pthread" >&5 printf %s "checking whether Clang needs flag to prevent \"argument unused\" warning when linking with -pthread... " >&6; } if test ${ax_cv_PTHREAD_CLANG_NO_WARN_FLAG+y} then : printf %s "(cached) " >&6 else $as_nop ax_cv_PTHREAD_CLANG_NO_WARN_FLAG=unknown # Create an alternate version of $ac_link that compiles and # links in two steps (.c -> .o, .o -> exe) instead of one # (.c -> exe), because the warning occurs only in the second # step ax_pthread_save_ac_link="$ac_link" ax_pthread_sed='s/conftest\.\$ac_ext/conftest.$ac_objext/g' ax_pthread_link_step=`printf "%s\n" "$ac_link" | sed "$ax_pthread_sed"` ax_pthread_2step_ac_link="($ac_compile) && (echo ==== >&5) && ($ax_pthread_link_step)" ax_pthread_save_CFLAGS="$CFLAGS" for ax_pthread_try in '' -Qunused-arguments -Wno-unused-command-line-argument unknown; do if test "x$ax_pthread_try" = "xunknown" then : break fi CFLAGS="-Werror -Wunknown-warning-option $ax_pthread_try -pthread $ax_pthread_save_CFLAGS" ac_link="$ax_pthread_save_ac_link" cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ int main(void){return 0;} _ACEOF if ac_fn_c_try_link "$LINENO" then : ac_link="$ax_pthread_2step_ac_link" cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ int main(void){return 0;} _ACEOF if ac_fn_c_try_link "$LINENO" then : break fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext done ac_link="$ax_pthread_save_ac_link" CFLAGS="$ax_pthread_save_CFLAGS" if test "x$ax_pthread_try" = "x" then : ax_pthread_try=no fi ax_cv_PTHREAD_CLANG_NO_WARN_FLAG="$ax_pthread_try" fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_cv_PTHREAD_CLANG_NO_WARN_FLAG" >&5 printf "%s\n" "$ax_cv_PTHREAD_CLANG_NO_WARN_FLAG" >&6; } case "$ax_cv_PTHREAD_CLANG_NO_WARN_FLAG" in no | unknown) ;; *) PTHREAD_CFLAGS="$ax_cv_PTHREAD_CLANG_NO_WARN_FLAG $PTHREAD_CFLAGS" ;; esac fi # $ax_pthread_clang = yes # Various other checks: if test "x$ax_pthread_ok" = "xyes"; then ax_pthread_save_CFLAGS="$CFLAGS" ax_pthread_save_LIBS="$LIBS" CFLAGS="$CFLAGS $PTHREAD_CFLAGS" LIBS="$PTHREAD_LIBS $LIBS" # Detect AIX lossage: JOINABLE attribute is called UNDETACHED. { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for joinable pthread attribute" >&5 printf %s "checking for joinable pthread attribute... " >&6; } if test ${ax_cv_PTHREAD_JOINABLE_ATTR+y} then : printf %s "(cached) " >&6 else $as_nop ax_cv_PTHREAD_JOINABLE_ATTR=unknown for ax_pthread_attr in PTHREAD_CREATE_JOINABLE PTHREAD_CREATE_UNDETACHED; do cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include int main (void) { int attr = $ax_pthread_attr; return attr /* ; */ ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : ax_cv_PTHREAD_JOINABLE_ATTR=$ax_pthread_attr; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext done fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_cv_PTHREAD_JOINABLE_ATTR" >&5 printf "%s\n" "$ax_cv_PTHREAD_JOINABLE_ATTR" >&6; } if test "x$ax_cv_PTHREAD_JOINABLE_ATTR" != "xunknown" && \ test "x$ax_cv_PTHREAD_JOINABLE_ATTR" != "xPTHREAD_CREATE_JOINABLE" && \ test "x$ax_pthread_joinable_attr_defined" != "xyes" then : printf "%s\n" "#define PTHREAD_CREATE_JOINABLE $ax_cv_PTHREAD_JOINABLE_ATTR" >>confdefs.h ax_pthread_joinable_attr_defined=yes fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether more special flags are required for pthreads" >&5 printf %s "checking whether more special flags are required for pthreads... " >&6; } if test ${ax_cv_PTHREAD_SPECIAL_FLAGS+y} then : printf %s "(cached) " >&6 else $as_nop ax_cv_PTHREAD_SPECIAL_FLAGS=no case $host_os in solaris*) ax_cv_PTHREAD_SPECIAL_FLAGS="-D_POSIX_PTHREAD_SEMANTICS" ;; esac fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_cv_PTHREAD_SPECIAL_FLAGS" >&5 printf "%s\n" "$ax_cv_PTHREAD_SPECIAL_FLAGS" >&6; } if test "x$ax_cv_PTHREAD_SPECIAL_FLAGS" != "xno" && \ test "x$ax_pthread_special_flags_added" != "xyes" then : PTHREAD_CFLAGS="$ax_cv_PTHREAD_SPECIAL_FLAGS $PTHREAD_CFLAGS" ax_pthread_special_flags_added=yes fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for PTHREAD_PRIO_INHERIT" >&5 printf %s "checking for PTHREAD_PRIO_INHERIT... " >&6; } if test ${ax_cv_PTHREAD_PRIO_INHERIT+y} then : printf %s "(cached) " >&6 else $as_nop cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include int main (void) { int i = PTHREAD_PRIO_INHERIT; return i; ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : ax_cv_PTHREAD_PRIO_INHERIT=yes else $as_nop ax_cv_PTHREAD_PRIO_INHERIT=no fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_cv_PTHREAD_PRIO_INHERIT" >&5 printf "%s\n" "$ax_cv_PTHREAD_PRIO_INHERIT" >&6; } if test "x$ax_cv_PTHREAD_PRIO_INHERIT" = "xyes" && \ test "x$ax_pthread_prio_inherit_defined" != "xyes" then : printf "%s\n" "#define HAVE_PTHREAD_PRIO_INHERIT 1" >>confdefs.h ax_pthread_prio_inherit_defined=yes fi CFLAGS="$ax_pthread_save_CFLAGS" LIBS="$ax_pthread_save_LIBS" # More AIX lossage: compile with *_r variant if test "x$GCC" != "xyes"; then case $host_os in aix*) case "x/$CC" in #( x*/c89|x*/c89_128|x*/c99|x*/c99_128|x*/cc|x*/cc128|x*/xlc|x*/xlc_v6|x*/xlc128|x*/xlc128_v6) : #handle absolute path differently from PATH based program lookup case "x$CC" in #( x/*) : if as_fn_executable_p ${CC}_r then : PTHREAD_CC="${CC}_r" fi if test "x${CXX}" != "x" then : if as_fn_executable_p ${CXX}_r then : PTHREAD_CXX="${CXX}_r" fi fi ;; #( *) : for ac_prog in ${CC}_r do # Extract the first word of "$ac_prog", so it can be a program name with args. set dummy $ac_prog; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_PTHREAD_CC+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$PTHREAD_CC"; then ac_cv_prog_PTHREAD_CC="$PTHREAD_CC" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_PTHREAD_CC="$ac_prog" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi PTHREAD_CC=$ac_cv_prog_PTHREAD_CC if test -n "$PTHREAD_CC"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $PTHREAD_CC" >&5 printf "%s\n" "$PTHREAD_CC" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi test -n "$PTHREAD_CC" && break done test -n "$PTHREAD_CC" || PTHREAD_CC="$CC" if test "x${CXX}" != "x" then : for ac_prog in ${CXX}_r do # Extract the first word of "$ac_prog", so it can be a program name with args. set dummy $ac_prog; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_PTHREAD_CXX+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$PTHREAD_CXX"; then ac_cv_prog_PTHREAD_CXX="$PTHREAD_CXX" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_PTHREAD_CXX="$ac_prog" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi PTHREAD_CXX=$ac_cv_prog_PTHREAD_CXX if test -n "$PTHREAD_CXX"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $PTHREAD_CXX" >&5 printf "%s\n" "$PTHREAD_CXX" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi test -n "$PTHREAD_CXX" && break done test -n "$PTHREAD_CXX" || PTHREAD_CXX="$CXX" fi ;; esac ;; #( *) : ;; esac ;; esac fi fi test -n "$PTHREAD_CC" || PTHREAD_CC="$CC" test -n "$PTHREAD_CXX" || PTHREAD_CXX="$CXX" # Finally, execute ACTION-IF-FOUND/ACTION-IF-NOT-FOUND: if test "x$ax_pthread_ok" = "xyes"; then printf "%s\n" "#define HAVE_PTHREAD 1" >>confdefs.h printf "%s\n" "#define HMMER_THREADS 1" >>confdefs.h : else ax_pthread_ok=no if test "$enable_threads" = "yes"; then { { printf "%s\n" "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5 printf "%s\n" "$as_me: error: in \`$ac_pwd':" >&2;} as_fn_error $? "Unable to compile with POSIX multithreading. See \`config.log' for more details" "$LINENO" 5; } fi enable_threads=no fi 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 fi # Support for vector implementations # # If we were explicitly told to enable one ($enable_foo="yes") and we # can't, fail with an error. # # If we're autodetecting ($enable_foo="check"), set $enable_foo to the # result ("yes" or "no"). # # If vector support "foo" is enabled: # - define preprocessor symbol eslENABLE_FOO (esl_config.h.in, p7_config.h.in) # - set output variable FOO_CFLAGS, if needed (Makefile.in) # - set shell variable $enable_foo to "yes" # - set shell variable $impl_choice to "foo" # and if vector support is available (regardless of whether we # decide to enable it), the autoconf macros: # - set shell variable $esl_have_foo to "yes" # - set shell var $esl_foo_cflags to any necessary compiler flags # if test "$enable_neon" = "yes" || test "$enable_neon" = "check"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether $CC can compile our NEON code" >&5 printf %s "checking whether $CC can compile our NEON code... " >&6; } esl_have_neon=no esl_have_neon_aarch64=no if test "x$NEON_CFLAGS" != x; then esl_neon_try_flags=$NEON_CFLAGS else esl_neon_try_flags="none -mfpu=neon" fi save_CFLAGS=$CFLAGS for esl_neon_cflags in $esl_neon_try_flags; do case $esl_neon_cflags in none) CFLAGS=$save_CFLAGS;; *) CFLAGS="$save_CFLAGS $esl_neon_cflags";; esac cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int stub_neon(void) { int32x4_t v1 = vdupq_n_s32(42); int32x4_t v2 = vdupq_n_s32(86); union { int32x4_t v; int32_t x[4]; } v3; v3.v = vaddq_s32(v1, v2); return (int) v3.x[0]; } int main(void) { if (stub_neon() != 128) return 1; else return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : esl_have_neon=yes; break; fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext done # Test for the AARCH64 (ARMv8) flavor of the NEON intrinsics, # or at least the instructions we need from it, using the # same CFLAGS we just figured out. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int main(void) { int16x8_t a1 = { 1, 2, 8, 3, 4, 5, 6, 7 }; int16_t r1 = vmaxvq_s16(a1); // = 8 : horizontal max uint8x16_t a2 = { 1, 2, 16, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15 }; uint8_t r2 = vmaxvq_u8(a2); // = 16 : horizontal max float32x4_t a3 = { 1.0, 2.0, 3.0, 4.0 }; float r3 = vaddvq_f32(a3); // = 10.0 : horizontal sum return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : esl_have_neon_aarch64=yes fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext CFLAGS=$save_CFLAGS if test "$esl_have_neon" = "no"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } esl_neon_cflags= else if test "$esl_have_neon_aarch64" = "no"; then if test "$esl_neon_cflags" = "none"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, armv7 flavor" >&5 printf "%s\n" "yes, armv7 flavor" >&6; } esl_neon_cflags= else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, armv7 flavor, with $esl_neon_cflags" >&5 printf "%s\n" "yes, armv7 flavor, with $esl_neon_cflags" >&6; } fi else if test "$esl_neon_cflags" = "none"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, aarch64 flavor" >&5 printf "%s\n" "yes, aarch64 flavor" >&6; } esl_neon_cflags= else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, aarch64 flavor, with $esl_neon_cflags" >&5 printf "%s\n" "yes, aarch64 flavor, with $esl_neon_cflags" >&6; } fi fi fi if test "x$esl_have_neon" = xyes then : printf "%s\n" "#define eslENABLE_NEON 1" >>confdefs.h if test "x$esl_have_neon_aarch64" = xyes then : printf "%s\n" "#define eslHAVE_NEON_AARCH64 1" >>confdefs.h fi HMMERIMPLLIB="impl_neon/libhmmerimpl.a" NEON_CFLAGS="$esl_neon_cflags" enable_neon=yes impl_choice=neon else $as_nop if test "$enable_neon" = "yes"; then { { printf "%s\n" "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5 printf "%s\n" "$as_me: error: in \`$ac_pwd':" >&2;} as_fn_error $? "Unable to compile our ARM Neon implementations. Try another compiler? See \`config.log' for more details" "$LINENO" 5; } fi enable_neon=no fi fi if test "$enable_vmx" = "yes" || test "$enable_vmx" = "check"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether $CC can compile our Altivec/VMX code" >&5 printf %s "checking whether $CC can compile our Altivec/VMX code... " >&6; } esl_have_vmx=no if test "x$VMX_CFLAGS" != x; then esl_vmx_try_flags=$VMX_CFLAGS else esl_vmx_try_flags="none -maltivec -faltivec" fi save_CFLAGS=$CFLAGS for esl_vmx_cflags in $esl_vmx_try_flags; do case $esl_vmx_cflags in none) CFLAGS=$save_CFLAGS;; *) CFLAGS="$save_CFLAGS $esl_vmx_cflags";; esac cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int stub_vmx(void) { vector signed int v1,v2; union { vector signed int v; int32_t x[4]; } v3; v1 = vec_splat_s32(6); v2 = vec_splat_s32(12); v3.v = vec_add(v1,v2); return (int) v3.x[0];} int main(void) { if (stub_vmx() != 18) return 1; else return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : esl_have_vmx=yes; break; fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext done CFLAGS=$save_CFLAGS if test "$esl_have_vmx" = "no"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } esl_vmx_cflags= else if test "$esl_vmx_cflags" = "none"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes" >&5 printf "%s\n" "yes" >&6; } esl_vmx_cflags= else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, with $esl_vmx_cflags" >&5 printf "%s\n" "yes, with $esl_vmx_cflags" >&6; } fi fi if test "x$esl_have_vmx" = xyes then : printf "%s\n" "#define eslENABLE_VMX 1" >>confdefs.h HMMERIMPLLIB="impl_vmx/libhmmerimpl.a" VMX_CFLAGS=$esl_vmx_cflags enable_vmx=yes impl_choice=vmx else $as_nop if test "$enable_vmx" = "yes"; then { { printf "%s\n" "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5 printf "%s\n" "$as_me: error: in \`$ac_pwd':" >&2;} as_fn_error $? "Unable to compile our Altivec/VMX implementations. Try another compiler? See \`config.log' for more details" "$LINENO" 5; } fi enable_vmx=no fi fi if test "$enable_sse" = "yes" || test "$enable_sse" = "check"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether $CC can compile our SSE code" >&5 printf %s "checking whether $CC can compile our SSE code... " >&6; } esl_have_sse=no if test "x$SSE_CFLAGS" != x; then esl_sse_try_flags=$SSE_CFLAGS else esl_sse_try_flags="none -msse2" fi save_CFLAGS=$CFLAGS for esl_sse_cflags in $esl_sse_try_flags; do case $esl_sse_cflags in none) CFLAGS=$save_CFLAGS;; *) CFLAGS="$save_CFLAGS $esl_sse_cflags";; esac cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int stub_sse(void) { __m128i v1 = _mm_set1_epi32(42); __m128i v2 = _mm_set1_epi32(86); union { __m128i v; int32_t x[4]; } v3; v3.v = _mm_add_epi32(v1, v2); return (int) v3.x[0]; } int main(void) { if (stub_sse() != 128) return 1; else return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : esl_have_sse=yes; break; fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext done CFLAGS=$save_CFLAGS if test "$esl_have_sse" = "no"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } esl_sse_cflags= else if test "$esl_sse_cflags" = "none"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes" >&5 printf "%s\n" "yes" >&6; } esl_sse_cflags= else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, with $esl_sse_cflags" >&5 printf "%s\n" "yes, with $esl_sse_cflags" >&6; } fi fi if test "x$esl_have_sse" = xyes then : printf "%s\n" "#define eslENABLE_SSE 1" >>confdefs.h HMMERIMPLLIB="impl_sse/libhmmerimpl.a" SSE_CFLAGS=$esl_sse_cflags enable_sse=yes impl_choice=sse else $as_nop if test "$enable_sse" = "yes"; then { { printf "%s\n" "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5 printf "%s\n" "$as_me: error: in \`$ac_pwd':" >&2;} as_fn_error $? "Unable to compile our SSE implementations. Try another compiler? See \`config.log' for more details" "$LINENO" 5; } fi enable_sse=no fi fi if test "$enable_neon" = "yes" || test "$enable_neon" = "check"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether $CC can compile our NEON code" >&5 printf %s "checking whether $CC can compile our NEON code... " >&6; } esl_have_neon=no esl_have_neon_aarch64=no if test "x$NEON_CFLAGS" != x; then esl_neon_try_flags=$NEON_CFLAGS else esl_neon_try_flags="none -mfpu=neon" fi save_CFLAGS=$CFLAGS for esl_neon_cflags in $esl_neon_try_flags; do case $esl_neon_cflags in none) CFLAGS=$save_CFLAGS;; *) CFLAGS="$save_CFLAGS $esl_neon_cflags";; esac cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int stub_neon(void) { int32x4_t v1 = vdupq_n_s32(42); int32x4_t v2 = vdupq_n_s32(86); union { int32x4_t v; int32_t x[4]; } v3; v3.v = vaddq_s32(v1, v2); return (int) v3.x[0]; } int main(void) { if (stub_neon() != 128) return 1; else return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : esl_have_neon=yes; break; fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext done # Test for the AARCH64 (ARMv8) flavor of the NEON intrinsics, # or at least the instructions we need from it, using the # same CFLAGS we just figured out. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int main(void) { int16x8_t a1 = { 1, 2, 8, 3, 4, 5, 6, 7 }; int16_t r1 = vmaxvq_s16(a1); // = 8 : horizontal max uint8x16_t a2 = { 1, 2, 16, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15 }; uint8_t r2 = vmaxvq_u8(a2); // = 16 : horizontal max float32x4_t a3 = { 1.0, 2.0, 3.0, 4.0 }; float r3 = vaddvq_f32(a3); // = 10.0 : horizontal sum return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : esl_have_neon_aarch64=yes fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext CFLAGS=$save_CFLAGS if test "$esl_have_neon" = "no"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } esl_neon_cflags= else if test "$esl_have_neon_aarch64" = "no"; then if test "$esl_neon_cflags" = "none"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, armv7 flavor" >&5 printf "%s\n" "yes, armv7 flavor" >&6; } esl_neon_cflags= else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, armv7 flavor, with $esl_neon_cflags" >&5 printf "%s\n" "yes, armv7 flavor, with $esl_neon_cflags" >&6; } fi else if test "$esl_neon_cflags" = "none"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, aarch64 flavor" >&5 printf "%s\n" "yes, aarch64 flavor" >&6; } esl_neon_cflags= else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes, aarch64 flavor, with $esl_neon_cflags" >&5 printf "%s\n" "yes, aarch64 flavor, with $esl_neon_cflags" >&6; } fi fi fi if test "x$esl_have_neon" = xyes then : printf "%s\n" "#define eslENABLE_NEON 1" >>confdefs.h NEON_CFLAGS=$esl_neon_cflags HMMERIMPLLIB="impl_sse/libhmmerimpl.a" enable_neon=yes impl_choice=neon else $as_nop if test "$enable_neon" = "yes"; then { { printf "%s\n" "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5 printf "%s\n" "$as_me: error: in \`$ac_pwd':" >&2;} as_fn_error $? "Unable to compile our NEON implementation. Try another compiler? See \`config.log' for more details" "$LINENO" 5; } fi enable_neon=no fi fi # If we didn't choose an implementation, die. case "$impl_choice" in neon) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: Activating ARM Neon vector DP implementation" >&5 printf "%s\n" "$as_me: Activating ARM Neon vector DP implementation" >&6;} ;; sse) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: Activating Intel/AMD SSE vector DP implementation" >&5 printf "%s\n" "$as_me: Activating Intel/AMD SSE vector DP implementation" >&6;} ;; vmx) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: Activating Altivec/VMX vector DP implementation" >&5 printf "%s\n" "$as_me: Activating Altivec/VMX vector DP implementation" >&6;} ;; neon) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: Activating ARM NEON vector DP implementation" >&5 printf "%s\n" "$as_me: Activating ARM NEON vector DP implementation" >&6;} ;; *) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: ::::::::::--- no vector instruction set ---::::::::::" >&5 printf "%s\n" "$as_me: ::::::::::--- no vector instruction set ---::::::::::" >&6;} { printf "%s\n" "$as_me:${as_lineno-$LINENO}: HMMER3 requires SSE, NEON or VMX vector instructions." >&5 printf "%s\n" "$as_me: HMMER3 requires SSE, NEON or VMX vector instructions." >&6;} { printf "%s\n" "$as_me:${as_lineno-$LINENO}: Supported platforms are x86 (Intel/AMD), ARM (v7 or later) and PowerPC." >&5 printf "%s\n" "$as_me: Supported platforms are x86 (Intel/AMD), ARM (v7 or later) and PowerPC." >&6;} as_fn_error $? "No supported vectorization found for your machine." "$LINENO" 5 ;; esac IMPL_CHOICE=$impl_choice # Easel has additional vector implementations that HMMER3 does not # support. Provide blank config for those CFLAGS. # For x86 processors check if the flush to zero macro is available # in order to avoid the performance penalty dealing with sub-normal # values in the floating point calculations. if test "$impl_choice" = "sse"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether _MM_SET_FLUSH_ZERO_MODE is supported" >&5 printf %s "checking whether _MM_SET_FLUSH_ZERO_MODE is supported... " >&6; } esl_save_cflags="$CFLAGS" CFLAGS="$CFLAGS $SSE_CFLAGS" cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include int main (void) { _MM_SET_FLUSH_ZERO_MODE (_MM_FLUSH_ZERO_ON); ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes" >&5 printf "%s\n" "yes" >&6; } printf "%s\n" "#define HAVE_FLUSH_ZERO_MODE 1" >>confdefs.h else $as_nop { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext CFLAGS="$esl_save_cflags" fi # Check if the linker supports library groups for recursive libraries if test "x$impl_choice" != xno then : { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking compiler support --start-group" >&5 printf %s "checking compiler support --start-group... " >&6; } LDFLAGS_save=$LDFLAGS LDFLAGS="-Wl,--start-group -Wl,--end-group $LDFLAGS" cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: yes" >&5 printf "%s\n" "yes" >&6; } GROUPHMMERLIBS="-Wl,--start-group -lhmmer -lhmmerimpl -Wl,--end-group" else $as_nop { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } GROUPHMMERLIBS="-lhmmer -lhmmerimpl" fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext LDFLAGS=$LDFLAGS_save else $as_nop GROUPHMMERLIBS="-lhmmer" fi # Define HAVE_GZIP if gzip is in $PATH (or if HAVE_GZIP is already set) # Extract the first word of ""gzip"", so it can be a program name with args. set dummy "gzip"; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_path_HAVE_GZIP+y} then : printf %s "(cached) " >&6 else $as_nop case $HAVE_GZIP in [\\/]* | ?:[\\/]*) ac_cv_path_HAVE_GZIP="$HAVE_GZIP" # Let the user override the test with a path. ;; *) as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_path_HAVE_GZIP="$as_dir$ac_word$ac_exec_ext" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS test -z "$ac_cv_path_HAVE_GZIP" && ac_cv_path_HAVE_GZIP=""no"" ;; esac fi HAVE_GZIP=$ac_cv_path_HAVE_GZIP if test -n "$HAVE_GZIP"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $HAVE_GZIP" >&5 printf "%s\n" "$HAVE_GZIP" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi if test "${HAVE_GZIP}" = "no"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: WARNING: gzip not found" >&5 printf "%s\n" "$as_me: WARNING: gzip not found" >&2;} else printf "%s\n" "#define HAVE_GZIP 1" >>confdefs.h fi # We need python 3 for 'make check' and some dev tools. sqc checks # too, as does the Makefile, but we also check in ./configure, so we # don't recommend 'make check' to the user if they can't use it. # # Extract the first word of "python3", so it can be a program name with args. set dummy python3; ac_word=$2 { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for $ac_word" >&5 printf %s "checking for $ac_word... " >&6; } if test ${ac_cv_prog_HAVE_PYTHON3+y} then : printf %s "(cached) " >&6 else $as_nop if test -n "$HAVE_PYTHON3"; then ac_cv_prog_HAVE_PYTHON3="$HAVE_PYTHON3" # Let the user override the test. else as_save_IFS=$IFS; IFS=$PATH_SEPARATOR for as_dir in $PATH do IFS=$as_save_IFS case $as_dir in #((( '') as_dir=./ ;; */) ;; *) as_dir=$as_dir/ ;; esac for ac_exec_ext in '' $ac_executable_extensions; do if as_fn_executable_p "$as_dir$ac_word$ac_exec_ext"; then ac_cv_prog_HAVE_PYTHON3="yes" printf "%s\n" "$as_me:${as_lineno-$LINENO}: found $as_dir$ac_word$ac_exec_ext" >&5 break 2 fi done done IFS=$as_save_IFS fi fi HAVE_PYTHON3=$ac_cv_prog_HAVE_PYTHON3 if test -n "$HAVE_PYTHON3"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $HAVE_PYTHON3" >&5 printf "%s\n" "$HAVE_PYTHON3" >&6; } else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: no" >&5 printf "%s\n" "no" >&6; } fi ################################################################ # 6. Checks for libraries ################################################################# LIBGSL= if test "x$with_gsl" != xno then : { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for gsl_expm1 in -lgsl" >&5 printf %s "checking for gsl_expm1 in -lgsl... " >&6; } if test ${ac_cv_lib_gsl_gsl_expm1+y} then : printf %s "(cached) " >&6 else $as_nop ac_check_lib_save_LIBS=$LIBS LIBS="-lgsl -lgslcblas $LIBS" cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char gsl_expm1 (); int main (void) { return gsl_expm1 (); ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : ac_cv_lib_gsl_gsl_expm1=yes else $as_nop ac_cv_lib_gsl_gsl_expm1=no fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext LIBS=$ac_check_lib_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_lib_gsl_gsl_expm1" >&5 printf "%s\n" "$ac_cv_lib_gsl_gsl_expm1" >&6; } if test "x$ac_cv_lib_gsl_gsl_expm1" = xyes then : LIBGSL="-lgsl -lgslcblas" printf "%s\n" "#define HAVE_LIBGSL 1" >>confdefs.h else $as_nop if test "x$with_gsl" != xcheck; then { { printf "%s\n" "$as_me:${as_lineno-$LINENO}: error: in \`$ac_pwd':" >&5 printf "%s\n" "$as_me: error: in \`$ac_pwd':" >&2;} as_fn_error $? "--with-gsl was given, but GSL library was not found See \`config.log' for more details" "$LINENO" 5; } fi fi fi # Easel stopwatch high-res timer may try to use clock_gettime, # which may be in librt { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for library containing clock_gettime" >&5 printf %s "checking for library containing clock_gettime... " >&6; } if test ${ac_cv_search_clock_gettime+y} then : printf %s "(cached) " >&6 else $as_nop ac_func_search_save_LIBS=$LIBS cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char clock_gettime (); int main (void) { return clock_gettime (); ; return 0; } _ACEOF for ac_lib in '' rt posix4 do if test -z "$ac_lib"; then ac_res="none required" else ac_res=-l$ac_lib LIBS="-l$ac_lib $ac_func_search_save_LIBS" fi if ac_fn_c_try_link "$LINENO" then : ac_cv_search_clock_gettime=$ac_res fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext if test ${ac_cv_search_clock_gettime+y} then : break fi done if test ${ac_cv_search_clock_gettime+y} then : else $as_nop ac_cv_search_clock_gettime=no fi rm conftest.$ac_ext LIBS=$ac_func_search_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_search_clock_gettime" >&5 printf "%s\n" "$ac_cv_search_clock_gettime" >&6; } ac_res=$ac_cv_search_clock_gettime if test "$ac_res" != no then : test "$ac_res" = "none required" || LIBS="$ac_res $LIBS" fi ################################################################ # 7. Checks for headers ################################################################# # Defines HAVE_SYS_TYPES_H, HAVE_STDINT_H, etc. ac_header= ac_cache= for ac_item in $ac_header_c_list do if test $ac_cache; then ac_fn_c_check_header_compile "$LINENO" $ac_header ac_cv_header_$ac_cache "$ac_includes_default" if eval test \"x\$ac_cv_header_$ac_cache\" = xyes; then printf "%s\n" "#define $ac_item 1" >> confdefs.h fi ac_header= ac_cache= elif test $ac_header; then ac_cache=$ac_item else ac_header=$ac_item fi done if test $ac_cv_header_stdlib_h = yes && test $ac_cv_header_string_h = yes then : printf "%s\n" "#define STDC_HEADERS 1" >>confdefs.h fi ac_fn_c_check_header_compile "$LINENO" "endian.h" "ac_cv_header_endian_h" "$ac_includes_default" if test "x$ac_cv_header_endian_h" = xyes then : printf "%s\n" "#define HAVE_ENDIAN_H 1" >>confdefs.h fi ac_fn_c_check_header_compile "$LINENO" "inttypes.h" "ac_cv_header_inttypes_h" "$ac_includes_default" if test "x$ac_cv_header_inttypes_h" = xyes then : printf "%s\n" "#define HAVE_INTTYPES_H 1" >>confdefs.h fi ac_fn_c_check_header_compile "$LINENO" "stdint.h" "ac_cv_header_stdint_h" "$ac_includes_default" if test "x$ac_cv_header_stdint_h" = xyes then : printf "%s\n" "#define HAVE_STDINT_H 1" >>confdefs.h fi ac_fn_c_check_header_compile "$LINENO" "unistd.h" "ac_cv_header_unistd_h" "$ac_includes_default" if test "x$ac_cv_header_unistd_h" = xyes then : printf "%s\n" "#define HAVE_UNISTD_H 1" >>confdefs.h fi ac_fn_c_check_header_compile "$LINENO" "sys/types.h" "ac_cv_header_sys_types_h" "$ac_includes_default" if test "x$ac_cv_header_sys_types_h" = xyes then : printf "%s\n" "#define HAVE_SYS_TYPES_H 1" >>confdefs.h fi ac_fn_c_check_header_compile "$LINENO" "netinet/in.h" "ac_cv_header_netinet_in_h" "$ac_includes_default" if test "x$ac_cv_header_netinet_in_h" = xyes then : printf "%s\n" "#define HAVE_NETINET_IN_H 1" >>confdefs.h fi # Check for sysctl.h separately. On OpenBSD, it requires # and autoconf needs special logic to deal w. this as # follows. ac_fn_c_check_header_compile "$LINENO" "sys/param.h" "ac_cv_header_sys_param_h" "$ac_includes_default" if test "x$ac_cv_header_sys_param_h" = xyes then : printf "%s\n" "#define HAVE_SYS_PARAM_H 1" >>confdefs.h fi ac_fn_c_check_header_compile "$LINENO" "sys/sysctl.h" "ac_cv_header_sys_sysctl_h" "#ifdef HAVE_SYS_PARAM_H #include #endif " if test "x$ac_cv_header_sys_sysctl_h" = xyes then : printf "%s\n" "#define HAVE_SYS_SYSCTL_H 1" >>confdefs.h fi # arm_neon.h requires the simd cflags and little endian mode if test "$impl_choice" = "neon"; then esl_save_CFLAGS="$CFLAGS" esl_save_CPPFLAGS="$CPPFLAGS" CFLAGS="$CFLAGS $NEON_CFLAGS" CPPFLAGS="$CPPFLAGS $NEON_CFLAGS" ac_fn_c_check_header_compile "$LINENO" "arm_neon.h" "ac_cv_header_arm_neon_h" "$ac_includes_default" if test "x$ac_cv_header_arm_neon_h" = xyes then : printf "%s\n" "#define HAVE_ARM_NEON_H 1" >>confdefs.h fi CFLAGS="$esl_save_CFLAGS" CPPFLAGS="$esl_save_CPPFLAGS" fi # altivec.h requires the simd cflags # For reasons I don't understand, this needs to come after any other CHECK_HEADERS(). if test "$impl_choice" = "vmx"; then esl_save_CFLAGS="$CFLAGS" esl_save_CPPFLAGS="$CPPFLAGS" CFLAGS="$CFLAGS $VMX_CFLAGS" CPPFLAGS="$CPPFLAGS $VMX_CFLAGS" ac_fn_c_check_header_compile "$LINENO" "altivec.h" "ac_cv_header_altivec_h" "$ac_includes_default" if test "x$ac_cv_header_altivec_h" = xyes then : printf "%s\n" "#define HAVE_ALTIVEC_H 1" >>confdefs.h fi CFLAGS="$esl_save_CFLAGS" CPPFLAGS="$esl_save_CPPFLAGS" fi ################################################################ # 8. Checks for types ################################################################# ac_fn_c_find_uintX_t "$LINENO" "8" "ac_cv_c_uint8_t" case $ac_cv_c_uint8_t in #( no|yes) ;; #( *) printf "%s\n" "#define _UINT8_T 1" >>confdefs.h printf "%s\n" "#define uint8_t $ac_cv_c_uint8_t" >>confdefs.h ;; esac ac_fn_c_find_uintX_t "$LINENO" "16" "ac_cv_c_uint16_t" case $ac_cv_c_uint16_t in #( no|yes) ;; #( *) printf "%s\n" "#define uint16_t $ac_cv_c_uint16_t" >>confdefs.h ;; esac ac_fn_c_find_uintX_t "$LINENO" "32" "ac_cv_c_uint32_t" case $ac_cv_c_uint32_t in #( no|yes) ;; #( *) printf "%s\n" "#define _UINT32_T 1" >>confdefs.h printf "%s\n" "#define uint32_t $ac_cv_c_uint32_t" >>confdefs.h ;; esac ac_fn_c_find_uintX_t "$LINENO" "64" "ac_cv_c_uint64_t" case $ac_cv_c_uint64_t in #( no|yes) ;; #( *) printf "%s\n" "#define _UINT64_T 1" >>confdefs.h printf "%s\n" "#define uint64_t $ac_cv_c_uint64_t" >>confdefs.h ;; esac ac_fn_c_check_type "$LINENO" "off_t" "ac_cv_type_off_t" "$ac_includes_default" if test "x$ac_cv_type_off_t" = xyes then : else $as_nop printf "%s\n" "#define off_t long int" >>confdefs.h fi ################################################################ # 9. Checks for structures - currently none ################################################################ ################################################################ # 10. Checks for compiler characteristics ################################################################ { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether byte ordering is bigendian" >&5 printf %s "checking whether byte ordering is bigendian... " >&6; } if test ${ac_cv_c_bigendian+y} then : printf %s "(cached) " >&6 else $as_nop ac_cv_c_bigendian=unknown # See if we're dealing with a universal compiler. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #ifndef __APPLE_CC__ not a universal capable compiler #endif typedef int dummy; _ACEOF if ac_fn_c_try_compile "$LINENO" then : # Check for potential -arch flags. It is not universal unless # there are at least two -arch flags with different values. ac_arch= ac_prev= for ac_word in $CC $CFLAGS $CPPFLAGS $LDFLAGS; do if test -n "$ac_prev"; then case $ac_word in i?86 | x86_64 | ppc | ppc64) if test -z "$ac_arch" || test "$ac_arch" = "$ac_word"; then ac_arch=$ac_word else ac_cv_c_bigendian=universal break fi ;; esac ac_prev= elif test "x$ac_word" = "x-arch"; then ac_prev=arch fi done fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext if test $ac_cv_c_bigendian = unknown; then # See if sys/param.h defines the BYTE_ORDER macro. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int main (void) { #if ! (defined BYTE_ORDER && defined BIG_ENDIAN \ && defined LITTLE_ENDIAN && BYTE_ORDER && BIG_ENDIAN \ && LITTLE_ENDIAN) bogus endian macros #endif ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : # It does; now see whether it defined to BIG_ENDIAN or not. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include #include int main (void) { #if BYTE_ORDER != BIG_ENDIAN not big endian #endif ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : ac_cv_c_bigendian=yes else $as_nop ac_cv_c_bigendian=no fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext fi if test $ac_cv_c_bigendian = unknown; then # See if defines _LITTLE_ENDIAN or _BIG_ENDIAN (e.g., Solaris). cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include int main (void) { #if ! (defined _LITTLE_ENDIAN || defined _BIG_ENDIAN) bogus endian macros #endif ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : # It does; now see whether it defined to _BIG_ENDIAN or not. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include int main (void) { #ifndef _BIG_ENDIAN not big endian #endif ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : ac_cv_c_bigendian=yes else $as_nop ac_cv_c_bigendian=no fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext fi if test $ac_cv_c_bigendian = unknown; then # Compile a test program. if test "$cross_compiling" = yes then : # Try to guess by grepping values from an object file. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ unsigned short int ascii_mm[] = { 0x4249, 0x4765, 0x6E44, 0x6961, 0x6E53, 0x7953, 0 }; unsigned short int ascii_ii[] = { 0x694C, 0x5454, 0x656C, 0x6E45, 0x6944, 0x6E61, 0 }; int use_ascii (int i) { return ascii_mm[i] + ascii_ii[i]; } unsigned short int ebcdic_ii[] = { 0x89D3, 0xE3E3, 0x8593, 0x95C5, 0x89C4, 0x9581, 0 }; unsigned short int ebcdic_mm[] = { 0xC2C9, 0xC785, 0x95C4, 0x8981, 0x95E2, 0xA8E2, 0 }; int use_ebcdic (int i) { return ebcdic_mm[i] + ebcdic_ii[i]; } extern int foo; int main (void) { return use_ascii (foo) == use_ebcdic (foo); ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : if grep BIGenDianSyS conftest.$ac_objext >/dev/null; then ac_cv_c_bigendian=yes fi if grep LiTTleEnDian conftest.$ac_objext >/dev/null ; then if test "$ac_cv_c_bigendian" = unknown; then ac_cv_c_bigendian=no else # finding both strings is unlikely to happen, but who knows? ac_cv_c_bigendian=unknown fi fi fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext else $as_nop cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ $ac_includes_default int main (void) { /* Are we little or big endian? From Harbison&Steele. */ union { long int l; char c[sizeof (long int)]; } u; u.l = 1; return u.c[sizeof (long int) - 1] == 1; ; return 0; } _ACEOF if ac_fn_c_try_run "$LINENO" then : ac_cv_c_bigendian=no else $as_nop ac_cv_c_bigendian=yes fi rm -f core *.core core.conftest.* gmon.out bb.out conftest$ac_exeext \ conftest.$ac_objext conftest.beam conftest.$ac_ext fi fi fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_c_bigendian" >&5 printf "%s\n" "$ac_cv_c_bigendian" >&6; } case $ac_cv_c_bigendian in #( yes) printf "%s\n" "#define WORDS_BIGENDIAN 1" >>confdefs.h ;; #( no) if test "$enable_vmx" = "yes"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: ::::::::::--- no vector instruction set ---::::::::::" >&5 printf "%s\n" "$as_me: ::::::::::--- no vector instruction set ---::::::::::" >&6;} { printf "%s\n" "$as_me:${as_lineno-$LINENO}: HMMER3 Altivec/VMX only supports big-endian platforms: e.g. ppc64 not ppc64le" >&5 printf "%s\n" "$as_me: HMMER3 Altivec/VMX only supports big-endian platforms: e.g. ppc64 not ppc64le" >&6;} as_fn_error $? "No supported vectorization found for your machine." "$LINENO" 5 elif test "$enable_neon" = "yes"; then as_CACHEVAR=`printf "%s\n" "ax_cv_check_cflags_$NEON_CFLAGS_-mlittle-endian" | $as_tr_sh` { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking whether C compiler accepts -mlittle-endian" >&5 printf %s "checking whether C compiler accepts -mlittle-endian... " >&6; } if eval test \${$as_CACHEVAR+y} then : printf %s "(cached) " >&6 else $as_nop ax_check_save_flags=$CFLAGS CFLAGS="$CFLAGS $NEON_CFLAGS -mlittle-endian" cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : eval "$as_CACHEVAR=yes" else $as_nop eval "$as_CACHEVAR=no" fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext CFLAGS=$ax_check_save_flags fi eval ac_res=\$$as_CACHEVAR { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_res" >&5 printf "%s\n" "$ac_res" >&6; } if eval test \"x\$"$as_CACHEVAR"\" = x"yes" then : NEON_CFLAGS="$NEON_CFLAGS -mlittle-endian" else $as_nop : fi fi ;; #( universal) printf "%s\n" "#define AC_APPLE_UNIVERSAL_BUILD 1" >>confdefs.h ;; #( *) if test "$enable_neon" = "yes"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: ::::::::::--- no vector instruction set ---::::::::::" >&5 printf "%s\n" "$as_me: ::::::::::--- no vector instruction set ---::::::::::" >&6;} { printf "%s\n" "$as_me:${as_lineno-$LINENO}: HMMER3 NEON only supports little-endian platforms: e.g. aarch64 not aarch64be" >&5 printf "%s\n" "$as_me: HMMER3 NEON only supports little-endian platforms: e.g. aarch64 not aarch64be" >&6;} as_fn_error $? "No supported vectorization found for your machine." "$LINENO" 5 else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: ::::::::::--- no vector instruction set ---::::::::::" >&5 printf "%s\n" "$as_me: ::::::::::--- no vector instruction set ---::::::::::" >&6;} { printf "%s\n" "$as_me:${as_lineno-$LINENO}: Couldn't determine byte order for your platform." >&5 printf "%s\n" "$as_me: Couldn't determine byte order for your platform." >&6;} { printf "%s\n" "$as_me:${as_lineno-$LINENO}: HMMER3 vector code is sensitive to byte order." >&5 printf "%s\n" "$as_me: HMMER3 vector code is sensitive to byte order." >&6;} as_fn_error $? "No supported vectorization found for your machine." "$LINENO" 5 fi ;; esac # __attribute__() tags on function declarations # HAVE_FUNC_ATTRIBUTE_NORETURN # # The clang static analyzer can't figure out that some of our # varargs-dependent fatal error handlers (esl_fatal(), for example) # cannot return. To tell it so, we take advantage of __attribute__ # tags on function declarations, a non-ISO gcc extension, when # available. gcc, clang, and other gcc-like compilers support this. # # This gets set in the Easel esl_config.h. # { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for __attribute__((noreturn))" >&5 printf %s "checking for __attribute__((noreturn))... " >&6; } if test ${ax_cv_have_func_attribute_noreturn+y} then : printf %s "(cached) " >&6 else $as_nop cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ void foo( void ) __attribute__((noreturn)); int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : if test -s conftest.err then : ax_cv_have_func_attribute_noreturn=no else $as_nop ax_cv_have_func_attribute_noreturn=yes fi else $as_nop ax_cv_have_func_attribute_noreturn=no fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_cv_have_func_attribute_noreturn" >&5 printf "%s\n" "$ax_cv_have_func_attribute_noreturn" >&6; } if test yes = $ax_cv_have_func_attribute_noreturn then : printf "%s\n" "#define HAVE_FUNC_ATTRIBUTE_NORETURN 1" >>confdefs.h fi # HAVE_FUNC_ATTRIBUTE_FORMAT # # We have some printf()-style functions that use varargs. # Apparently when you do something like # int64_t bigint; # my_printf("%d", bigint); # a compiler can't normally detect the size mismatch between the # specifier (%d) and the argument (bigint). Usually this isn't a # problem (apparently most platforms cast appropriately) but we had # problems on ARM. gcc-like compilers allow declaring an attribute # of format(printf, , ), enabling the # compiler to typecheck printf()-like arguments, and warn appropriately. # We only need or use this in development. # # This gets set in the Easel esl_config.h. { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for __attribute__((format))" >&5 printf %s "checking for __attribute__((format))... " >&6; } if test ${ax_cv_have_func_attribute_format+y} then : printf %s "(cached) " >&6 else $as_nop cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ int foo(const char *p, ...) __attribute__((format(printf, 1, 2))); int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : if test -s conftest.err then : ax_cv_have_func_attribute_format=no else $as_nop ax_cv_have_func_attribute_format=yes fi else $as_nop ax_cv_have_func_attribute_format=no fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ax_cv_have_func_attribute_format" >&5 printf "%s\n" "$ax_cv_have_func_attribute_format" >&6; } if test yes = $ax_cv_have_func_attribute_format then : printf "%s\n" "#define HAVE_FUNC_ATTRIBUTE_FORMAT 1" >>confdefs.h fi ################################################################ # 11. Checks for functions, defining HAVE_FOO when foo is found ################################################################ ac_fn_c_check_func "$LINENO" "mkstemp" "ac_cv_func_mkstemp" if test "x$ac_cv_func_mkstemp" = xyes then : printf "%s\n" "#define HAVE_MKSTEMP 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "popen" "ac_cv_func_popen" if test "x$ac_cv_func_popen" = xyes then : printf "%s\n" "#define HAVE_POPEN 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "putenv" "ac_cv_func_putenv" if test "x$ac_cv_func_putenv" = xyes then : printf "%s\n" "#define HAVE_PUTENV 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "strcasecmp" "ac_cv_func_strcasecmp" if test "x$ac_cv_func_strcasecmp" = xyes then : printf "%s\n" "#define HAVE_STRCASECMP 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "strsep" "ac_cv_func_strsep" if test "x$ac_cv_func_strsep" = xyes then : printf "%s\n" "#define HAVE_STRSEP 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "times" "ac_cv_func_times" if test "x$ac_cv_func_times" = xyes then : printf "%s\n" "#define HAVE_TIMES 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "getpid" "ac_cv_func_getpid" if test "x$ac_cv_func_getpid" = xyes then : printf "%s\n" "#define HAVE_GETPID 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "sysctl" "ac_cv_func_sysctl" if test "x$ac_cv_func_sysctl" = xyes then : printf "%s\n" "#define HAVE_SYSCTL 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "sysconf" "ac_cv_func_sysconf" if test "x$ac_cv_func_sysconf" = xyes then : printf "%s\n" "#define HAVE_SYSCONF 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "getcwd" "ac_cv_func_getcwd" if test "x$ac_cv_func_getcwd" = xyes then : printf "%s\n" "#define HAVE_GETCWD 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "chmod" "ac_cv_func_chmod" if test "x$ac_cv_func_chmod" = xyes then : printf "%s\n" "#define HAVE_CHMOD 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "stat" "ac_cv_func_stat" if test "x$ac_cv_func_stat" = xyes then : printf "%s\n" "#define HAVE_STAT 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "fstat" "ac_cv_func_fstat" if test "x$ac_cv_func_fstat" = xyes then : printf "%s\n" "#define HAVE_FSTAT 1" >>confdefs.h fi ac_fn_c_check_func "$LINENO" "erfc" "ac_cv_func_erfc" if test "x$ac_cv_func_erfc" = xyes then : printf "%s\n" "#define HAVE_ERFC 1" >>confdefs.h fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for library containing ntohs" >&5 printf %s "checking for library containing ntohs... " >&6; } if test ${ac_cv_search_ntohs+y} then : printf %s "(cached) " >&6 else $as_nop ac_func_search_save_LIBS=$LIBS cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char ntohs (); int main (void) { return ntohs (); ; return 0; } _ACEOF for ac_lib in '' socket do if test -z "$ac_lib"; then ac_res="none required" else ac_res=-l$ac_lib LIBS="-l$ac_lib $ac_func_search_save_LIBS" fi if ac_fn_c_try_link "$LINENO" then : ac_cv_search_ntohs=$ac_res fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext if test ${ac_cv_search_ntohs+y} then : break fi done if test ${ac_cv_search_ntohs+y} then : else $as_nop ac_cv_search_ntohs=no fi rm conftest.$ac_ext LIBS=$ac_func_search_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_search_ntohs" >&5 printf "%s\n" "$ac_cv_search_ntohs" >&6; } ac_res=$ac_cv_search_ntohs if test "$ac_res" != no then : test "$ac_res" = "none required" || LIBS="$ac_res $LIBS" fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for library containing ntohl" >&5 printf %s "checking for library containing ntohl... " >&6; } if test ${ac_cv_search_ntohl+y} then : printf %s "(cached) " >&6 else $as_nop ac_func_search_save_LIBS=$LIBS cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char ntohl (); int main (void) { return ntohl (); ; return 0; } _ACEOF for ac_lib in '' socket do if test -z "$ac_lib"; then ac_res="none required" else ac_res=-l$ac_lib LIBS="-l$ac_lib $ac_func_search_save_LIBS" fi if ac_fn_c_try_link "$LINENO" then : ac_cv_search_ntohl=$ac_res fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext if test ${ac_cv_search_ntohl+y} then : break fi done if test ${ac_cv_search_ntohl+y} then : else $as_nop ac_cv_search_ntohl=no fi rm conftest.$ac_ext LIBS=$ac_func_search_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_search_ntohl" >&5 printf "%s\n" "$ac_cv_search_ntohl" >&6; } ac_res=$ac_cv_search_ntohl if test "$ac_res" != no then : test "$ac_res" = "none required" || LIBS="$ac_res $LIBS" fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for library containing htons" >&5 printf %s "checking for library containing htons... " >&6; } if test ${ac_cv_search_htons+y} then : printf %s "(cached) " >&6 else $as_nop ac_func_search_save_LIBS=$LIBS cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char htons (); int main (void) { return htons (); ; return 0; } _ACEOF for ac_lib in '' socket do if test -z "$ac_lib"; then ac_res="none required" else ac_res=-l$ac_lib LIBS="-l$ac_lib $ac_func_search_save_LIBS" fi if ac_fn_c_try_link "$LINENO" then : ac_cv_search_htons=$ac_res fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext if test ${ac_cv_search_htons+y} then : break fi done if test ${ac_cv_search_htons+y} then : else $as_nop ac_cv_search_htons=no fi rm conftest.$ac_ext LIBS=$ac_func_search_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_search_htons" >&5 printf "%s\n" "$ac_cv_search_htons" >&6; } ac_res=$ac_cv_search_htons if test "$ac_res" != no then : test "$ac_res" = "none required" || LIBS="$ac_res $LIBS" fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for library containing htonl" >&5 printf %s "checking for library containing htonl... " >&6; } if test ${ac_cv_search_htonl+y} then : printf %s "(cached) " >&6 else $as_nop ac_func_search_save_LIBS=$LIBS cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char htonl (); int main (void) { return htonl (); ; return 0; } _ACEOF for ac_lib in '' socket do if test -z "$ac_lib"; then ac_res="none required" else ac_res=-l$ac_lib LIBS="-l$ac_lib $ac_func_search_save_LIBS" fi if ac_fn_c_try_link "$LINENO" then : ac_cv_search_htonl=$ac_res fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext if test ${ac_cv_search_htonl+y} then : break fi done if test ${ac_cv_search_htonl+y} then : else $as_nop ac_cv_search_htonl=no fi rm conftest.$ac_ext LIBS=$ac_func_search_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_search_htonl" >&5 printf "%s\n" "$ac_cv_search_htonl" >&6; } ac_res=$ac_cv_search_htonl if test "$ac_res" != no then : test "$ac_res" = "none required" || LIBS="$ac_res $LIBS" fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for library containing socket" >&5 printf %s "checking for library containing socket... " >&6; } if test ${ac_cv_search_socket+y} then : printf %s "(cached) " >&6 else $as_nop ac_func_search_save_LIBS=$LIBS cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char socket (); int main (void) { return socket (); ; return 0; } _ACEOF for ac_lib in '' socket do if test -z "$ac_lib"; then ac_res="none required" else ac_res=-l$ac_lib LIBS="-l$ac_lib $ac_func_search_save_LIBS" fi if ac_fn_c_try_link "$LINENO" then : ac_cv_search_socket=$ac_res fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext if test ${ac_cv_search_socket+y} then : break fi done if test ${ac_cv_search_socket+y} then : else $as_nop ac_cv_search_socket=no fi rm conftest.$ac_ext LIBS=$ac_func_search_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_search_socket" >&5 printf "%s\n" "$ac_cv_search_socket" >&6; } ac_res=$ac_cv_search_socket if test "$ac_res" != no then : test "$ac_res" = "none required" || LIBS="$ac_res $LIBS" fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for library containing inet_pton" >&5 printf %s "checking for library containing inet_pton... " >&6; } if test ${ac_cv_search_inet_pton+y} then : printf %s "(cached) " >&6 else $as_nop ac_func_search_save_LIBS=$LIBS cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ /* Override any GCC internal prototype to avoid an error. Use char because int might match the return type of a GCC builtin and then its argument prototype would still apply. */ char inet_pton (); int main (void) { return inet_pton (); ; return 0; } _ACEOF for ac_lib in '' nsl do if test -z "$ac_lib"; then ac_res="none required" else ac_res=-l$ac_lib LIBS="-l$ac_lib $ac_func_search_save_LIBS" fi if ac_fn_c_try_link "$LINENO" then : ac_cv_search_inet_pton=$ac_res fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext if test ${ac_cv_search_inet_pton+y} then : break fi done if test ${ac_cv_search_inet_pton+y} then : else $as_nop ac_cv_search_inet_pton=no fi rm conftest.$ac_ext LIBS=$ac_func_search_save_LIBS fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_search_inet_pton" >&5 printf "%s\n" "$ac_cv_search_inet_pton" >&6; } ac_res=$ac_cv_search_inet_pton if test "$ac_res" != no then : test "$ac_res" = "none required" || LIBS="$ac_res $LIBS" fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for _LARGEFILE_SOURCE value needed for large files" >&5 printf %s "checking for _LARGEFILE_SOURCE value needed for large files... " >&6; } if test ${ac_cv_sys_largefile_source+y} then : printf %s "(cached) " >&6 else $as_nop while :; do cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include /* for off_t */ #include int main (void) { int (*fp) (FILE *, off_t, int) = fseeko; return fseeko (stdin, 0, 0) && fp (stdin, 0, 0); ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : ac_cv_sys_largefile_source=no; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #define _LARGEFILE_SOURCE 1 #include /* for off_t */ #include int main (void) { int (*fp) (FILE *, off_t, int) = fseeko; return fseeko (stdin, 0, 0) && fp (stdin, 0, 0); ; return 0; } _ACEOF if ac_fn_c_try_link "$LINENO" then : ac_cv_sys_largefile_source=1; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam \ conftest$ac_exeext conftest.$ac_ext ac_cv_sys_largefile_source=unknown break done fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_sys_largefile_source" >&5 printf "%s\n" "$ac_cv_sys_largefile_source" >&6; } case $ac_cv_sys_largefile_source in #( no | unknown) ;; *) printf "%s\n" "#define _LARGEFILE_SOURCE $ac_cv_sys_largefile_source" >>confdefs.h ;; esac rm -rf conftest* # We used to try defining _XOPEN_SOURCE=500 too, to work around a bug # in glibc 2.1.3, but that breaks too many other things. # If you want fseeko and ftello with glibc, upgrade to a fixed glibc. if test $ac_cv_sys_largefile_source != unknown; then printf "%s\n" "#define HAVE_FSEEKO 1" >>confdefs.h fi ################################################################# # 12. System services ################################################################# # Check whether --enable-largefile was given. if test ${enable_largefile+y} then : enableval=$enable_largefile; fi if test "$enable_largefile" != no; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for special C compiler options needed for large files" >&5 printf %s "checking for special C compiler options needed for large files... " >&6; } if test ${ac_cv_sys_largefile_CC+y} then : printf %s "(cached) " >&6 else $as_nop ac_cv_sys_largefile_CC=no if test "$GCC" != yes; then ac_save_CC=$CC while :; do # IRIX 6.2 and later do not support large files by default, # so use the C compiler's -n32 option if that helps. cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include /* Check that off_t can represent 2**63 - 1 correctly. We can't simply define LARGE_OFF_T to be 9223372036854775807, since some C++ compilers masquerading as C compilers incorrectly reject 9223372036854775807. */ #define LARGE_OFF_T (((off_t) 1 << 31 << 31) - 1 + ((off_t) 1 << 31 << 31)) int off_t_is_large[(LARGE_OFF_T % 2147483629 == 721 && LARGE_OFF_T % 2147483647 == 1) ? 1 : -1]; int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : break fi rm -f core conftest.err conftest.$ac_objext conftest.beam CC="$CC -n32" if ac_fn_c_try_compile "$LINENO" then : ac_cv_sys_largefile_CC=' -n32'; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam break done CC=$ac_save_CC rm -f conftest.$ac_ext fi fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_sys_largefile_CC" >&5 printf "%s\n" "$ac_cv_sys_largefile_CC" >&6; } if test "$ac_cv_sys_largefile_CC" != no; then CC=$CC$ac_cv_sys_largefile_CC fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for _FILE_OFFSET_BITS value needed for large files" >&5 printf %s "checking for _FILE_OFFSET_BITS value needed for large files... " >&6; } if test ${ac_cv_sys_file_offset_bits+y} then : printf %s "(cached) " >&6 else $as_nop while :; do cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include /* Check that off_t can represent 2**63 - 1 correctly. We can't simply define LARGE_OFF_T to be 9223372036854775807, since some C++ compilers masquerading as C compilers incorrectly reject 9223372036854775807. */ #define LARGE_OFF_T (((off_t) 1 << 31 << 31) - 1 + ((off_t) 1 << 31 << 31)) int off_t_is_large[(LARGE_OFF_T % 2147483629 == 721 && LARGE_OFF_T % 2147483647 == 1) ? 1 : -1]; int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : ac_cv_sys_file_offset_bits=no; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #define _FILE_OFFSET_BITS 64 #include /* Check that off_t can represent 2**63 - 1 correctly. We can't simply define LARGE_OFF_T to be 9223372036854775807, since some C++ compilers masquerading as C compilers incorrectly reject 9223372036854775807. */ #define LARGE_OFF_T (((off_t) 1 << 31 << 31) - 1 + ((off_t) 1 << 31 << 31)) int off_t_is_large[(LARGE_OFF_T % 2147483629 == 721 && LARGE_OFF_T % 2147483647 == 1) ? 1 : -1]; int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : ac_cv_sys_file_offset_bits=64; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext ac_cv_sys_file_offset_bits=unknown break done fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_sys_file_offset_bits" >&5 printf "%s\n" "$ac_cv_sys_file_offset_bits" >&6; } case $ac_cv_sys_file_offset_bits in #( no | unknown) ;; *) printf "%s\n" "#define _FILE_OFFSET_BITS $ac_cv_sys_file_offset_bits" >>confdefs.h ;; esac rm -rf conftest* if test $ac_cv_sys_file_offset_bits = unknown; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: checking for _LARGE_FILES value needed for large files" >&5 printf %s "checking for _LARGE_FILES value needed for large files... " >&6; } if test ${ac_cv_sys_large_files+y} then : printf %s "(cached) " >&6 else $as_nop while :; do cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #include /* Check that off_t can represent 2**63 - 1 correctly. We can't simply define LARGE_OFF_T to be 9223372036854775807, since some C++ compilers masquerading as C compilers incorrectly reject 9223372036854775807. */ #define LARGE_OFF_T (((off_t) 1 << 31 << 31) - 1 + ((off_t) 1 << 31 << 31)) int off_t_is_large[(LARGE_OFF_T % 2147483629 == 721 && LARGE_OFF_T % 2147483647 == 1) ? 1 : -1]; int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : ac_cv_sys_large_files=no; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext cat confdefs.h - <<_ACEOF >conftest.$ac_ext /* end confdefs.h. */ #define _LARGE_FILES 1 #include /* Check that off_t can represent 2**63 - 1 correctly. We can't simply define LARGE_OFF_T to be 9223372036854775807, since some C++ compilers masquerading as C compilers incorrectly reject 9223372036854775807. */ #define LARGE_OFF_T (((off_t) 1 << 31 << 31) - 1 + ((off_t) 1 << 31 << 31)) int off_t_is_large[(LARGE_OFF_T % 2147483629 == 721 && LARGE_OFF_T % 2147483647 == 1) ? 1 : -1]; int main (void) { ; return 0; } _ACEOF if ac_fn_c_try_compile "$LINENO" then : ac_cv_sys_large_files=1; break fi rm -f core conftest.err conftest.$ac_objext conftest.beam conftest.$ac_ext ac_cv_sys_large_files=unknown break done fi { printf "%s\n" "$as_me:${as_lineno-$LINENO}: result: $ac_cv_sys_large_files" >&5 printf "%s\n" "$ac_cv_sys_large_files" >&6; } case $ac_cv_sys_large_files in #( no | unknown) ;; *) printf "%s\n" "#define _LARGE_FILES $ac_cv_sys_large_files" >>confdefs.h ;; esac rm -rf conftest* fi fi ################################################################ # 13. Config subdirs and files ################################################################ # HMMER Makefiles. ac_config_files="$ac_config_files Makefile src/Makefile testsuite/Makefile profmark/Makefile src/impl_${impl_choice}/Makefile documentation/Makefile documentation/man/Makefile documentation/userguide/Makefile documentation/userguide/inclusions/Makefile libdivsufsort/Makefile" # Easel Makefiles. ac_config_files="$ac_config_files easel/Makefile easel/miniapps/Makefile easel/testsuite/Makefile easel/documentation/Makefile" # Substitutions in Userguide .tex files # HMMER_VERSION, HMMER_DATE, HMMER_COPYRIGHT ac_config_files="$ac_config_files documentation/userguide/titlepage.tex documentation/userguide/titlepage_daemon.tex documentation/userguide/copyright.tex" # Substitutions in HMMER man pages: # HMMER_VERSION, HMMER_DATE, HMMER_COPYRIGHT, HMMER_LICENSE, HMMER_URL ac_config_files="$ac_config_files documentation/man/alimask.man documentation/man/hmmalign.man documentation/man/hmmbuild.man documentation/man/hmmc2.man documentation/man/hmmconvert.man documentation/man/hmmemit.man documentation/man/hmmer.man documentation/man/hmmfetch.man documentation/man/hmmlogo.man documentation/man/hmmpgmd.man documentation/man/hmmpgmd_shard.man documentation/man/hmmpress.man documentation/man/hmmscan.man documentation/man/hmmsearch.man documentation/man/hmmsim.man documentation/man/hmmstat.man documentation/man/jackhmmer.man documentation/man/makehmmerdb.man documentation/man/nhmmer.man documentation/man/nhmmscan.man documentation/man/phmmer.man" # Substitutions in Easel man pages: # EASEL_VERSION, EASEL_DATE, EASEL_COPYRIGHT, EASEL_LICENSE, EASEL_URL ac_config_files="$ac_config_files easel/miniapps/esl-afetch.man easel/miniapps/esl-alimanip.man easel/miniapps/esl-alimap.man easel/miniapps/esl-alimask.man easel/miniapps/esl-alimerge.man easel/miniapps/esl-alipid.man easel/miniapps/esl-alirev.man easel/miniapps/esl-alistat.man easel/miniapps/esl-compalign.man easel/miniapps/esl-compstruct.man easel/miniapps/esl-construct.man easel/miniapps/esl-histplot.man easel/miniapps/esl-mask.man easel/miniapps/esl-mixdchlet.man easel/miniapps/esl-reformat.man easel/miniapps/esl-selectn.man easel/miniapps/esl-seqrange.man easel/miniapps/esl-seqstat.man easel/miniapps/esl-sfetch.man easel/miniapps/esl-shuffle.man easel/miniapps/esl-ssdraw.man easel/miniapps/esl-translate.man easel/miniapps/esl-weight.man" ac_config_headers="$ac_config_headers easel/decoy_config.h" # Put this first to keep gnu 'autoheader' from overwriting a real config file. ac_config_headers="$ac_config_headers src/p7_config.h" ac_config_headers="$ac_config_headers easel/esl_config.h" ac_config_headers="$ac_config_headers libdivsufsort/divsufsort.h" # the following incantation establishes a symlink of # src/impl_{whatever} to src/impl in the *build* directory. # Testsuite sqc tests rely on it. ac_config_links="$ac_config_links src/impl:${ac_top_build_prefix}src/impl_${impl_choice}" ################################################################ # 14. AC_OUTPUT ################################################################ cat >confcache <<\_ACEOF # This file is a shell script that caches the results of configure # tests run on this system so they can be shared between configure # scripts and configure runs, see configure's option --config-cache. # It is not useful on other systems. If it contains results you don't # want to keep, you may remove or edit it. # # config.status only pays attention to the cache file if you give it # the --recheck option to rerun configure. # # `ac_cv_env_foo' variables (set or unset) will be overridden when # loading this file, other *unset* `ac_cv_foo' will be assigned the # following values. _ACEOF # The following way of writing the cache mishandles newlines in values, # but we know of no workaround that is simple, portable, and efficient. # So, we kill variables containing newlines. # Ultrix sh set writes to stderr and can't be redirected directly, # and sets the high bit in the cache file unless we assign to the vars. ( for ac_var in `(set) 2>&1 | sed -n 's/^\([a-zA-Z_][a-zA-Z0-9_]*\)=.*/\1/p'`; do eval ac_val=\$$ac_var case $ac_val in #( *${as_nl}*) case $ac_var in #( *_cv_*) { printf "%s\n" "$as_me:${as_lineno-$LINENO}: WARNING: cache variable $ac_var contains a newline" >&5 printf "%s\n" "$as_me: WARNING: cache variable $ac_var contains a newline" >&2;} ;; esac case $ac_var in #( _ | IFS | as_nl) ;; #( BASH_ARGV | BASH_SOURCE) eval $ac_var= ;; #( *) { eval $ac_var=; unset $ac_var;} ;; esac ;; esac done (set) 2>&1 | case $as_nl`(ac_space=' '; set) 2>&1` in #( *${as_nl}ac_space=\ *) # `set' does not quote correctly, so add quotes: double-quote # substitution turns \\\\ into \\, and sed turns \\ into \. sed -n \ "s/'/'\\\\''/g; s/^\\([_$as_cr_alnum]*_cv_[_$as_cr_alnum]*\\)=\\(.*\\)/\\1='\\2'/p" ;; #( *) # `set' quotes correctly as required by POSIX, so do not add quotes. sed -n "/^[_$as_cr_alnum]*_cv_[_$as_cr_alnum]*=/p" ;; esac | sort ) | sed ' /^ac_cv_env_/b end t clear :clear s/^\([^=]*\)=\(.*[{}].*\)$/test ${\1+y} || &/ t end s/^\([^=]*\)=\(.*\)$/\1=${\1=\2}/ :end' >>confcache if diff "$cache_file" confcache >/dev/null 2>&1; then :; else if test -w "$cache_file"; then if test "x$cache_file" != "x/dev/null"; then { printf "%s\n" "$as_me:${as_lineno-$LINENO}: updating cache $cache_file" >&5 printf "%s\n" "$as_me: updating cache $cache_file" >&6;} if test ! -f "$cache_file" || test -h "$cache_file"; then cat confcache >"$cache_file" else case $cache_file in #( */* | ?:*) mv -f confcache "$cache_file"$$ && mv -f "$cache_file"$$ "$cache_file" ;; #( *) mv -f confcache "$cache_file" ;; esac fi fi else { printf "%s\n" "$as_me:${as_lineno-$LINENO}: not updating unwritable cache $cache_file" >&5 printf "%s\n" "$as_me: not updating unwritable cache $cache_file" >&6;} fi fi rm -f confcache test "x$prefix" = xNONE && prefix=$ac_default_prefix # Let make expand exec_prefix. test "x$exec_prefix" = xNONE && exec_prefix='${prefix}' DEFS=-DHAVE_CONFIG_H ac_libobjs= ac_ltlibobjs= U= for ac_i in : $LIBOBJS; do test "x$ac_i" = x: && continue # 1. 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