configure

hmmer源程序

   no)   ;;
   *)    echo "Ignoring unknown argument to --with-pvm: $with_pvm"
	 ;;
esac
fi


ac_aux_dir=
for ac_dir in $srcdir $srcdir/.. $srcdir/../..; do
  if test -f $ac_dir/install-sh; then
    ac_aux_dir=$ac_dir
    ac_install_sh="$ac_aux_dir/install-sh -c"
    break
  elif test -f $ac_dir/install.sh; then
    ac_aux_dir=$ac_dir
    ac_install_sh="$ac_aux_dir/install.sh -c"
    break
  fi
done
if test -z "$ac_aux_dir"; then
  { echo "configure: error: can not find install-sh or install.sh in $srcdir $srcdir/.. $srcdir/../.." 1>&2; exit 1; }
fi
ac_config_guess=$ac_aux_dir/config.guess
ac_config_sub=$ac_aux_dir/config.sub
ac_configure=$ac_aux_dir/configure # This should be Cygnus configure.


# Make sure we can run config.sub.
if ${CONFIG_SHELL-/bin/sh} $ac_config_sub sun4 >/dev/null 2>&1; then :
else { echo "configure: error: can not run $ac_config_sub" 1>&2; exit 1; }
fi

echo $ac_n "checking host system type""... $ac_c" 1>&6
echo "configure:871: checking host system type" >&5

host_alias=$host
case "$host_alias" in
NONE)
  case $nonopt in
  NONE)
    if host_alias=`${CONFIG_SHELL-/bin/sh} $ac_config_guess`; then :
    else { echo "configure: error: can not guess host type; you must specify one" 1>&2; exit 1; }
    fi ;;
  *) host_alias=$nonopt ;;
  esac ;;
esac

host=`${CONFIG_SHELL-/bin/sh} $ac_config_sub $host_alias`
host_cpu=`echo $host | sed 's/^\([^-]*\)-\([^-]*\)-\(.*\)$/\1/'`
host_vendor=`echo $host | sed 's/^\([^-]*\)-\([^-]*\)-\(.*\)$/\2/'`
host_os=`echo $host | sed 's/^\([^-]*\)-\([^-]*\)-\(.*\)$/\3/'`
echo "$ac_t""$host" 1>&6

echo $ac_n "checking how to run the C preprocessor""... $ac_c" 1>&6
echo "configure:892: checking how to run the C preprocessor" >&5
# On Suns, sometimes $CPP names a directory.
if test -n "$CPP" && test -d "$CPP"; then
  CPP=
fi
if test -z "$CPP"; then
if eval "test \"`echo '$''{'ac_cv_prog_CPP'+set}'`\" = set"; then
  echo $ac_n "(cached) $ac_c" 1>&6
else
    # This must be in double quotes, not single quotes, because CPP may get
  # substituted into the Makefile and "${CC-cc}" will confuse make.
  CPP="${CC-cc} -E"
  # On the NeXT, cc -E runs the code through the compiler's parser,
  # not just through cpp.
  cat > conftest.$ac_ext <<EOF
#line 907 "configure"
#include "confdefs.h"
#include <assert.h>
Syntax Error
EOF
ac_try="$ac_cpp conftest.$ac_ext >/dev/null 2>conftest.out"
{ (eval echo configure:913: \"$ac_try\") 1>&5; (eval $ac_try) 2>&5; }
ac_err=`grep -v '^ *+' conftest.out | grep -v "^conftest.${ac_ext}\$"`
if test -z "$ac_err"; then
  :
else
  echo "$ac_err" >&5
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
  rm -rf conftest*
  CPP="${CC-cc} -E -traditional-cpp"
  cat > conftest.$ac_ext <<EOF
#line 924 "configure"
#include "confdefs.h"
#include <assert.h>
Syntax Error
EOF
ac_try="$ac_cpp conftest.$ac_ext >/dev/null 2>conftest.out"
{ (eval echo configure:930: \"$ac_try\") 1>&5; (eval $ac_try) 2>&5; }
ac_err=`grep -v '^ *+' conftest.out | grep -v "^conftest.${ac_ext}\$"`
if test -z "$ac_err"; then
  :
else
  echo "$ac_err" >&5
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
  rm -rf conftest*
  CPP="${CC-cc} -nologo -E"
  cat > conftest.$ac_ext <<EOF
#line 941 "configure"
#include "confdefs.h"
#include <assert.h>
Syntax Error
EOF
ac_try="$ac_cpp conftest.$ac_ext >/dev/null 2>conftest.out"
{ (eval echo configure:947: \"$ac_try\") 1>&5; (eval $ac_try) 2>&5; }
ac_err=`grep -v '^ *+' conftest.out | grep -v "^conftest.${ac_ext}\$"`
if test -z "$ac_err"; then
  :
else
  echo "$ac_err" >&5
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
  rm -rf conftest*
  CPP=/lib/cpp
fi
rm -f conftest*
fi
rm -f conftest*
fi
rm -f conftest*
  ac_cv_prog_CPP="$CPP"
fi
  CPP="$ac_cv_prog_CPP"
else
  ac_cv_prog_CPP="$CPP"
fi
echo "$ac_t""$CPP" 1>&6

# Check whether --enable-threads or --disable-threads was given.
if test "${enable_threads+set}" = set; then
  enableval="$enable_threads"
  case $enable_threads in 
   yes) echo "Enabling POSIX threads support"
	

acx_pthread_ok=no

# First, check if the POSIX threads header, pthread.h, is available.
# If it isn't, don't bother looking for the threads libraries.
ac_safe=`echo "pthread.h" | sed 'y%./+-%__p_%'`
echo $ac_n "checking for pthread.h""... $ac_c" 1>&6
echo "configure:984: checking for pthread.h" >&5
if eval "test \"`echo '$''{'ac_cv_header_$ac_safe'+set}'`\" = set"; then
  echo $ac_n "(cached) $ac_c" 1>&6
else
  cat > conftest.$ac_ext <<EOF
#line 989 "configure"
#include "confdefs.h"
#include <pthread.h>
EOF
ac_try="$ac_cpp conftest.$ac_ext >/dev/null 2>conftest.out"
{ (eval echo configure:994: \"$ac_try\") 1>&5; (eval $ac_try) 2>&5; }
ac_err=`grep -v '^ *+' conftest.out | grep -v "^conftest.${ac_ext}\$"`
if test -z "$ac_err"; then
  rm -rf conftest*
  eval "ac_cv_header_$ac_safe=yes"
else
  echo "$ac_err" >&5
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
  rm -rf conftest*
  eval "ac_cv_header_$ac_safe=no"
fi
rm -f conftest*
fi
if eval "test \"`echo '$ac_cv_header_'$ac_safe`\" = yes"; then
  echo "$ac_t""yes" 1>&6
  :
else
  echo "$ac_t""no" 1>&6
acx_pthread_ok=noheader
fi


# We must check for the threads library under a number of different
# names; the ordering is very important because some systems
# (e.g. DEC) have both -lpthread and -lpthreads, where one of the
# libraries is broken (non-POSIX).

# First of all, check if the user has set any of the PTHREAD_LIBS,
# etcetera environment variables, and if threads linking works using
# them:
if test x"$PTHREAD_LIBS$PTHREAD_CFLAGS" != x; then
        save_CFLAGS="$CFLAGS"
        CFLAGS="$CFLAGS $PTHREAD_CFLAGS"
        save_LIBS="$LIBS"
        LIBS="$PTHREAD_LIBS $LIBS"
        echo $ac_n "checking for pthread_join in LIBS=$PTHREAD_LIBS with CFLAGS=$PTHREAD_CFLAGS""... $ac_c" 1>&6
echo "configure:1031: checking for pthread_join in LIBS=$PTHREAD_LIBS with CFLAGS=$PTHREAD_CFLAGS" >&5
        cat > conftest.$ac_ext <<EOF
#line 1033 "configure"
#include "confdefs.h"
/* Override any gcc2 internal prototype to avoid an error.  */
/* We use char because int might match the return type of a gcc2
    builtin and then its argument prototype would still apply.  */
char pthread_join();

int main() {
pthread_join()
; return 0; }
EOF
if { (eval echo configure:1044: \"$ac_link\") 1>&5; (eval $ac_link) 2>&5; } && test -s conftest${ac_exeext}; then
  rm -rf conftest*
  acx_pthread_ok=yes
else
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
fi
rm -f conftest*
        echo "$ac_t""$acx_pthread_ok" 1>&6
        if test x"$acx_pthread_ok" = xno; then
       PTHREAD_LIBS=""
       PTHREAD_CFLAGS=""
        fi
        LIBS="$save_LIBS"
        CFLAGS="$save_CFLAGS"
fi

# Create a list of thread flags to try.  Items starting with a "-" are
# C compiler flags, and other items are library names, except for "none"
# which indicates that we try without any flags at all.

acx_pthread_flags="pthreads none -Kthread -kthread lthread -pthread -pthreads -mthreads pthread --thread-safe -mt"

# The ordering *is* (sometimes) important.  Some notes on the
# individual items follow:

# pthreads: AIX (must check this before -lpthread)
# none: in case threads are in libc; should be tried before -Kthread and
#       other compiler flags to prevent continual compiler warnings
# -Kthread: Sequent (threads in libc, but -Kthread needed for pthread.h)
# -kthread: FreeBSD kernel threads (preferred to -pthread since SMP-able)
# lthread: LinuxThreads port on FreeBSD (also preferred to -pthread)
# -pthread: Linux/gcc (kernel threads), BSD/gcc (userland threads)
# -pthreads: Solaris/gcc
# -mthreads: Mingw32/gcc, Lynx/gcc
# -mt: Sun Workshop C (may only link SunOS threads [-lthread], but it
#      doesn't hurt to check since this sometimes defines pthreads too;
#      also defines -D_REENTRANT)
# pthread: Linux, etcetera
# --thread-safe: KAI C++

case "${host_cpu}-${host_os}" in
        *solaris*)

        # On Solaris (at least, for some versions), libc contains stubbed
        # (non-functional) versions of the pthreads routines, so link-based
        # tests will erroneously succeed.  (We need to link with -pthread or
        # -lpthread.)  (The stubs are missing pthread_cleanup_push, or rather
        # a function called by this macro, so we could check for that, but
        # who knows whether they'll stub that too in a future libc.)  So,
        # we'll just look for -pthreads and -lpthread first:

        acx_pthread_flags="-pthread -pthreads pthread -mt $acx_pthread_flags"
        ;;
esac

if test x"$acx_pthread_ok" = xno; then
for flag in $acx_pthread_flags; do

        case $flag in
       none)
       echo $ac_n "checking whether pthreads work without any flags""... $ac_c" 1>&6
echo "configure:1106: checking whether pthreads work without any flags" >&5
       ;;

       -*)
       echo $ac_n "checking whether pthreads work with $flag""... $ac_c" 1>&6
echo "configure:1111: checking whether pthreads work with $flag" >&5
       PTHREAD_CFLAGS="$flag"
       ;;

       *)
       echo $ac_n "checking for the pthreads library -l$flag""... $ac_c" 1>&6
echo "configure:1117: checking for the pthreads library -l$flag" >&5
       PTHREAD_LIBS="-l$flag"
       ;;
        esac

        save_LIBS="$LIBS"
        save_CFLAGS="$CFLAGS"
        LIBS="$PTHREAD_LIBS $LIBS"
        CFLAGS="$CFLAGS $PTHREAD_CFLAGS"

        # 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 > conftest.$ac_ext <<EOF
#line 1137 "configure"
#include "confdefs.h"
#include <pthread.h>
int main() {
pthread_t th; pthread_join(th, 0);
   pthread_attr_init(0); pthread_cleanup_push(0, 0);
   pthread_create(0,0,0,0); pthread_cleanup_pop(0); 
; return 0; }
EOF
if { (eval echo configure:1146: \"$ac_link\") 1>&5; (eval $ac_link) 2>&5; } && test -s conftest${ac_exeext}; then
  rm -rf conftest*
  acx_pthread_ok=yes
else
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
fi
rm -f conftest*

        LIBS="$save_LIBS"
        CFLAGS="$save_CFLAGS"

        echo "$ac_t""$acx_pthread_ok" 1>&6
        if test "x$acx_pthread_ok" = xyes; then
       break;
        fi

        PTHREAD_LIBS=""
        PTHREAD_CFLAGS=""
done
fi

# Various other checks:
if test "x$acx_pthread_ok" = xyes; then
        save_LIBS="$LIBS"
        LIBS="$PTHREAD_LIBS $LIBS"
        save_CFLAGS="$CFLAGS"
        CFLAGS="$CFLAGS $PTHREAD_CFLAGS"

        # Detect AIX lossage: threads are created detached by default
        # and the JOINABLE attribute has a nonstandard name (UNDETACHED).
        echo $ac_n "checking for joinable pthread attribute""... $ac_c" 1>&6
echo "configure:1178: checking for joinable pthread attribute" >&5
        cat > conftest.$ac_ext <<EOF
#line 1180 "configure"
#include "confdefs.h"
#include <pthread.h>
int main() {
int attr=PTHREAD_CREATE_JOINABLE;
; return 0; }
EOF
if { (eval echo configure:1187: \"$ac_link\") 1>&5; (eval $ac_link) 2>&5; } && test -s conftest${ac_exeext}; then
  rm -rf conftest*
  ok=PTHREAD_CREATE_JOINABLE
else
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
  rm -rf conftest*
  ok=unknown
fi
rm -f conftest*
        if test x"$ok" = xunknown; then
       cat > conftest.$ac_ext <<EOF
#line 1199 "configure"
#include "confdefs.h"
#include <pthread.h>
int main() {
int attr=PTHREAD_CREATE_UNDETACHED;
; return 0; }
EOF
if { (eval echo configure:1206: \"$ac_link\") 1>&5; (eval $ac_link) 2>&5; } && test -s conftest${ac_exeext}; then
  rm -rf conftest*
  ok=PTHREAD_CREATE_UNDETACHED
else
  echo "configure: failed program was:" >&5
  cat conftest.$ac_ext >&5
  rm -rf conftest*
  ok=unknown
fi
rm -f conftest*
        fi
        if test x"$ok" != xPTHREAD_CREATE_JOINABLE; then
       cat >> confdefs.h <<\EOF
#define PTHREAD_CREATE_JOINABLE $ok
EOF

        fi
        echo "$ac_t""${ok}" 1>&6
        if test x"$ok" = xunknown; then
       echo "configure: warning: we do not know how to create joinable pthreads" 1>&2
        fi

        echo $ac_n "checking if more special flags are required for pthreads""... $ac_c" 1>&6
echo "configure:1229: checking if more special flags are required for pthreads" >&5
        flag=no
        case "${host_cpu}-${host_os}" in
       *-aix* | *-freebsd*)     flag="-D_THREAD_SAFE";;
       *solaris* | alpha*-osf*) flag="-D_REENTRANT";;
        esac
        echo "$ac_t""${flag}" 1>&6
        if test "x$flag" != xno; then
       PTHREAD_CFLAGS="$flag $PTHREAD_CFLAGS"
        fi

        LIBS="$save_LIBS"
        CFLAGS="$save_CFLAGS"

        # More AIX lossage: must compile with cc_r
        # Extract the first word of "cc_r", so it can be a program name with args.
set dummy cc_r; ac_word=$2
echo $ac_n "checking for $ac_word""... $ac_c" 1>&6
echo "configure:1247: checking for $ac_word" >&5
if eval "test \"`echo '$''{'ac_cv_prog_PTHREAD_CC'+set}'`\" = set"; then
  echo $ac_n "(cached) $ac_c" 1>&6
else
  if test -n "$PTHREAD_CC"; then
  ac_cv_prog_PTHREAD_CC="$PTHREAD_CC" # Let the user override the test.
else
  IFS="${IFS= 	}"; ac_save_ifs="$IFS"; IFS=":"
  ac_dummy="$PATH"