This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.

It was created by configure, which was
generated by GNU Autoconf 2.67.  Invocation command line was

  $ ./configure --exec_prefix=/data/cisortho

## --------- ##
## Platform. ##
## --------- ##

hostname = mus
uname -m = x86_64
uname -r = 2.6.35-22-server
uname -s = Linux
uname -v = #35-Ubuntu SMP Sat Oct 16 22:02:33 UTC 2010

/usr/bin/uname -p = unknown
/bin/uname -X     = unknown

/bin/arch              = unknown
/usr/bin/arch -k       = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo      = unknown
/bin/machine           = unknown
/usr/bin/oslevel       = unknown
/bin/universe          = unknown

PATH: /home/johnb/bin
PATH: /usr/local/genetics/staden/linux-bin
PATH: /usr/local/genetics/gos
PATH: .
PATH: /usr/local/genetics/bin/i386
PATH: /usr/local/genetics/bin
PATH: /usr/local/j2sdk1.4.2/bin
PATH: /usr/local/sbin
PATH: /usr/local/bin
PATH: /usr/sbin
PATH: /usr/bin
PATH: /sbin
PATH: /bin
PATH: /usr/games
PATH: /usr/local/genetics/caftools/bin


## ----------- ##
## Core tests. ##
## ----------- ##

configure:1889: checking for a BSD-compatible install
configure:1957: result: /usr/bin/install -c
configure:1968: checking whether build environment is sane
configure:2018: result: yes
configure:2046: WARNING: `missing' script is too old or missing
configure:2159: checking for a thread-safe mkdir -p
configure:2198: result: /bin/mkdir -p
configure:2211: checking for gawk
configure:2227: found /usr/bin/gawk
configure:2238: result: gawk
configure:2249: checking whether make sets $(MAKE)
configure:2271: result: yes
configure:2364: checking for style of include used by make
configure:2392: result: GNU
configure:2462: checking for gcc
configure:2478: found /usr/bin/gcc
configure:2489: result: gcc
configure:2718: checking for C compiler version
configure:2727: gcc --version >&5
gcc (Ubuntu/Linaro 4.4.4-14ubuntu5) 4.4.5
Copyright (C) 2010 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

configure:2738: $? = 0
configure:2727: gcc -v >&5
Using built-in specs.
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Ubuntu/Linaro 4.4.4-14ubuntu5' --with-bugurl=file:///usr/share/doc/gcc-4.4/README.Bugs --enable-languages=c,c++,fortran,objc,obj-c++ --prefix=/usr --program-suffix=-4.4 --enable-shared --enable-multiarch --enable-linker-build-id --with-system-zlib --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --with-gxx-include-dir=/usr/include/c++/4.4 --libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu --enable-libstdcxx-debug --enable-objc-gc --disable-werror --with-arch-32=i686 --with-tune=generic --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu
Thread model: posix
gcc version 4.4.5 (Ubuntu/Linaro 4.4.4-14ubuntu5) 
configure:2738: $? = 0
configure:2727: gcc -V >&5
gcc: '-V' option must have argument
configure:2738: $? = 1
configure:2727: gcc -qversion >&5
gcc: unrecognized option '-qversion'
gcc: no input files
configure:2738: $? = 1
configure:2758: checking whether the C compiler works
configure:2780: gcc    conftest.c  >&5
configure:2784: $? = 0
configure:2832: result: yes
configure:2835: checking for C compiler default output file name
configure:2837: result: a.out
configure:2843: checking for suffix of executables
configure:2850: gcc -o conftest    conftest.c  >&5
configure:2854: $? = 0
configure:2876: result: 
configure:2898: checking whether we are cross compiling
configure:2906: gcc -o conftest    conftest.c  >&5
configure:2910: $? = 0
configure:2917: ./conftest
configure:2921: $? = 0
configure:2936: result: no
configure:2941: checking for suffix of object files
configure:2963: gcc -c   conftest.c >&5
configure:2967: $? = 0
configure:2988: result: o
configure:2992: checking whether we are using the GNU C compiler
configure:3011: gcc -c   conftest.c >&5
configure:3011: $? = 0
configure:3020: result: yes
configure:3029: checking whether gcc accepts -g
configure:3049: gcc -c -g  conftest.c >&5
configure:3049: $? = 0
configure:3090: result: yes
configure:3107: checking for gcc option to accept ISO C89
configure:3171: gcc  -c -g -O2  conftest.c >&5
configure:3171: $? = 0
configure:3184: result: none needed
configure:3206: checking dependency style of gcc
configure:3316: result: gcc3
configure:3336: checking how to run the C preprocessor
configure:3367: gcc -E  conftest.c
configure:3367: $? = 0
configure:3381: gcc -E  conftest.c
conftest.c:11: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:3381: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "cisortho"
| #define VERSION "0.9.1"
| /* end confdefs.h.  */
| #include <ac_nonexistent.h>
configure:3406: result: gcc -E
configure:3426: gcc -E  conftest.c
configure:3426: $? = 0
configure:3440: gcc -E  conftest.c
conftest.c:11: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:3440: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "cisortho"
| #define VERSION "0.9.1"
| /* end confdefs.h.  */
| #include <ac_nonexistent.h>
configure:3526: checking for g++
configure:3542: found /usr/bin/g++
configure:3553: result: g++
configure:3580: checking for C++ compiler version
configure:3589: g++ --version >&5
g++ (Ubuntu/Linaro 4.4.4-14ubuntu5) 4.4.5
Copyright (C) 2010 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

configure:3600: $? = 0
configure:3589: g++ -v >&5
Using built-in specs.
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Ubuntu/Linaro 4.4.4-14ubuntu5' --with-bugurl=file:///usr/share/doc/gcc-4.4/README.Bugs --enable-languages=c,c++,fortran,objc,obj-c++ --prefix=/usr --program-suffix=-4.4 --enable-shared --enable-multiarch --enable-linker-build-id --with-system-zlib --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --with-gxx-include-dir=/usr/include/c++/4.4 --libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu --enable-libstdcxx-debug --enable-objc-gc --disable-werror --with-arch-32=i686 --with-tune=generic --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu
Thread model: posix
gcc version 4.4.5 (Ubuntu/Linaro 4.4.4-14ubuntu5) 
configure:3600: $? = 0
configure:3589: g++ -V >&5
g++: '-V' option must have argument
configure:3600: $? = 1
configure:3589: g++ -qversion >&5
g++: unrecognized option '-qversion'
g++: no input files
configure:3600: $? = 1
configure:3604: checking whether we are using the GNU C++ compiler
configure:3623: g++ -c   conftest.cpp >&5
configure:3623: $? = 0
configure:3632: result: yes
configure:3641: checking whether g++ accepts -g
configure:3661: g++ -c -g  conftest.cpp >&5
configure:3661: $? = 0
configure:3702: result: yes
configure:3727: checking dependency style of g++
configure:3837: result: gcc3
configure:3853: checking whether ln -s works
configure:3857: result: yes
configure:3864: checking whether make sets $(MAKE)
configure:3886: result: yes
configure:3901: checking for --enable-debug
configure:3910: result: no
configure:3913: checking for --enable-profile
configure:3922: result: no
configure:3925: checking for --enable-stldebug
configure:3934: result: no
configure:3955: checking for an ANSI C-conforming const
configure:4020: gcc -c -g -O2  conftest.c >&5
configure:4020: $? = 0
configure:4027: result: yes
configure:4201: creating ./config.status

## ---------------------- ##
## Running config.status. ##
## ---------------------- ##

This file was extended by config.status, which was
generated by GNU Autoconf 2.67.  Invocation command line was

  CONFIG_FILES    = 
  CONFIG_HEADERS  = 
  CONFIG_LINKS    = 
  CONFIG_COMMANDS = 
  $ ./config.status 

on mus

config.status:786: creating src/Makefile
config.status:786: creating Makefile
config.status:957: executing depfiles commands

## ---------------- ##
## Cache variables. ##
## ---------------- ##

ac_cv_c_compiler_gnu=yes
ac_cv_c_const=yes
ac_cv_cxx_compiler_gnu=yes
ac_cv_env_CCC_set=
ac_cv_env_CCC_value=
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_CXXFLAGS_set=
ac_cv_env_CXXFLAGS_value=
ac_cv_env_CXX_set=
ac_cv_env_CXX_value=
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_objext=o
ac_cv_path_install='/usr/bin/install -c'
ac_cv_path_mkdir=/bin/mkdir
ac_cv_prog_AWK=gawk
ac_cv_prog_CPP='gcc -E'
ac_cv_prog_ac_ct_CC=gcc
ac_cv_prog_ac_ct_CXX=g++
ac_cv_prog_cc_c89=
ac_cv_prog_cc_g=yes
ac_cv_prog_cxx_g=yes
ac_cv_prog_make_make_set=yes
am_cv_CC_dependencies_compiler_type=gcc3
am_cv_CXX_dependencies_compiler_type=gcc3

## ----------------- ##
## Output variables. ##
## ----------------- ##

ACLOCAL='aclocal-1.11'
AMDEPBACKSLASH='\'
AMDEP_FALSE='#'
AMDEP_TRUE=''
AMTAR='tar'
AUTOCONF='autoconf'
AUTOHEADER='autoheader'
AUTOMAKE='automake-1.11'
AWK='gawk'
CC='gcc'
CCDEPMODE='depmode=gcc3'
CFLAGS='-g -O2'
CPP='gcc -E'
CPPFLAGS=''
CXX='g++'
CXXDEPMODE='depmode=gcc3'
CXXFLAGS=' -Wall -O3 -DNDEBUG'
CYGPATH_W='echo'
DEFS='-DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"cisortho\" -DVERSION=\"0.9.1\"'
DEPDIR='.deps'
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EXEEXT=''
INCLUDES=''
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'
LDFLAGS=''
LIBOBJS=''
LIBS=''
LN_S='ln -s'
LTLIBOBJS=''
MAKEINFO='makeinfo'
MKDIR_P='/bin/mkdir -p'
OBJEXT='o'
PACKAGE='cisortho'
PACKAGE_BUGREPORT=''
PACKAGE_NAME=''
PACKAGE_STRING=''
PACKAGE_TARNAME=''
PACKAGE_URL=''
PACKAGE_VERSION=''
PATH_SEPARATOR=':'
SET_MAKE=''
SHELL='/bin/bash'
STRIP=''
VERSION='0.9.1'
ac_ct_CC='gcc'
ac_ct_CXX='g++'
am__EXEEXT_FALSE=''
am__EXEEXT_TRUE='#'
am__fastdepCC_FALSE='#'
am__fastdepCC_TRUE=''
am__fastdepCXX_FALSE='#'
am__fastdepCXX_TRUE=''
am__include='include'
am__isrc=''
am__leading_dot='.'
am__quote=''
am__tar='${AMTAR} chof - "$$tardir"'
am__untar='${AMTAR} xf -'
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE}'
dvidir='${docdir}'
exec_prefix='/data/cisortho'
host_alias=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
install_sh='${SHELL} /data/cisortho/install-sh'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
mkdir_p='/bin/mkdir -p'
oldincludedir='/usr/include'
pdfdir='${docdir}'
prefix='/usr/local'
program_transform_name='s,x,x,'
psdir='${docdir}'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''

## ----------- ##
## confdefs.h. ##
## ----------- ##

/* confdefs.h */
#define PACKAGE_NAME ""
#define PACKAGE_TARNAME ""
#define PACKAGE_VERSION ""
#define PACKAGE_STRING ""
#define PACKAGE_BUGREPORT ""
#define PACKAGE_URL ""
#define PACKAGE "cisortho"
#define VERSION "0.9.1"

configure: exit 0