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

It was created by MAQ configure 0.7.1, which was
generated by GNU Autoconf 2.67.  Invocation command line was

  $ ./configure --prefix=/data/maqgene

## --------- ##
## 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: /usr/local/sbin
PATH: /usr/local/bin
PATH: /usr/sbin
PATH: /usr/bin
PATH: /sbin
PATH: /bin
PATH: /usr/X11R6/bin


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

configure:2089: checking for a BSD-compatible install
configure:2157: result: /usr/bin/install -c
configure:2168: checking whether build environment is sane
configure:2218: result: yes
configure:2359: checking for a thread-safe mkdir -p
configure:2398: result: /bin/mkdir -p
configure:2411: checking for gawk
configure:2427: found /usr/bin/gawk
configure:2438: result: gawk
configure:2449: checking whether make sets $(MAKE)
configure:2471: result: yes
configure:2556: checking build system type
configure:2570: result: x86_64-unknown-linux-gnu
configure:2590: checking host system type
configure:2603: result: x86_64-unknown-linux-gnu
configure:2671: checking for gcc
configure:2687: found /usr/bin/gcc
configure:2698: result: gcc
configure:2927: checking for C compiler version
configure:2936: 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:2947: $? = 0
configure:2936: 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:2947: $? = 0
configure:2936: gcc -V >&5
gcc: '-V' option must have argument
configure:2947: $? = 1
configure:2936: gcc -qversion >&5
gcc: unrecognized option '-qversion'
gcc: no input files
configure:2947: $? = 1
configure:2967: checking whether the C compiler works
configure:2989: gcc    conftest.c  >&5
configure:2993: $? = 0
configure:3041: result: yes
configure:3044: checking for C compiler default output file name
configure:3046: result: a.out
configure:3052: checking for suffix of executables
configure:3059: gcc -o conftest    conftest.c  >&5
configure:3063: $? = 0
configure:3085: result: 
configure:3107: checking whether we are cross compiling
configure:3115: gcc -o conftest    conftest.c  >&5
configure:3119: $? = 0
configure:3126: ./conftest
configure:3130: $? = 0
configure:3145: result: no
configure:3150: checking for suffix of object files
configure:3172: gcc -c   conftest.c >&5
configure:3176: $? = 0
configure:3197: result: o
configure:3201: checking whether we are using the GNU C compiler
configure:3220: gcc -c   conftest.c >&5
configure:3220: $? = 0
configure:3229: result: yes
configure:3238: checking whether gcc accepts -g
configure:3258: gcc -c -g  conftest.c >&5
configure:3258: $? = 0
configure:3299: result: yes
configure:3316: checking for gcc option to accept ISO C89
configure:3380: gcc  -c -g -O2  conftest.c >&5
configure:3380: $? = 0
configure:3393: result: none needed
configure:3471: checking for g++
configure:3487: found /usr/bin/g++
configure:3498: result: g++
configure:3525: checking for C++ compiler version
configure:3534: 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:3545: $? = 0
configure:3534: 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:3545: $? = 0
configure:3534: g++ -V >&5
g++: '-V' option must have argument
configure:3545: $? = 1
configure:3534: g++ -qversion >&5
g++: unrecognized option '-qversion'
g++: no input files
configure:3545: $? = 1
configure:3549: checking whether we are using the GNU C++ compiler
configure:3568: g++ -c   conftest.cpp >&5
configure:3568: $? = 0
configure:3577: result: yes
configure:3586: checking whether g++ accepts -g
configure:3606: g++ -c -g  conftest.cpp >&5
configure:3606: $? = 0
configure:3647: result: yes
configure:3722: checking if gcc accepts -m64
configure:3736: gcc -c -m64  conftest.c >&5
configure:3736: $? = 0
configure:3737: result: yes
configure:3777: checking how to run the C preprocessor
configure:3808: gcc -E  conftest.c
configure:3808: $? = 0
configure:3822: gcc -E  conftest.c
conftest.c:11: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:3822: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "MAQ"
| #define PACKAGE_TARNAME "maq"
| #define PACKAGE_VERSION "0.7.1"
| #define PACKAGE_STRING "MAQ 0.7.1"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "maq"
| #define VERSION "0.7.1"
| /* end confdefs.h.  */
| #include <ac_nonexistent.h>
configure:3847: result: gcc -E
configure:3867: gcc -E  conftest.c
configure:3867: $? = 0
configure:3881: gcc -E  conftest.c
conftest.c:11: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:3881: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "MAQ"
| #define PACKAGE_TARNAME "maq"
| #define PACKAGE_VERSION "0.7.1"
| #define PACKAGE_STRING "MAQ 0.7.1"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "maq"
| #define VERSION "0.7.1"
| /* end confdefs.h.  */
| #include <ac_nonexistent.h>
configure:3910: checking for grep that handles long lines and -e
configure:3968: result: /bin/grep
configure:3973: checking for egrep
configure:4035: result: /bin/grep -E
configure:4040: checking for ANSI C header files
configure:4060: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4060: $? = 0
configure:4133: gcc -o conftest -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2   conftest.c  >&5
configure:4133: $? = 0
configure:4133: ./conftest
configure:4133: $? = 0
configure:4144: result: yes
configure:4157: checking for sys/types.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for sys/stat.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for stdlib.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for string.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for memory.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for strings.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for inttypes.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for stdint.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4157: checking for unistd.h
configure:4157: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4157: $? = 0
configure:4157: result: yes
configure:4169: checking zlib.h usability
configure:4169: gcc -c -Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2  conftest.c >&5
configure:4169: $? = 0
configure:4169: result: yes
configure:4169: checking zlib.h presence
configure:4169: gcc -E  conftest.c
configure:4169: $? = 0
configure:4169: result: yes
configure:4169: checking for zlib.h
configure:4169: result: yes
configure:4289: creating ./config.status

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

This file was extended by MAQ config.status 0.7.1, 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:847: creating Makefile
config.status:847: creating config.h

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

ac_cv_build=x86_64-unknown-linux-gnu
ac_cv_c_compiler_gnu=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_header_inttypes_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_stdc=yes
ac_cv_header_stdint_h=yes
ac_cv_header_stdlib_h=yes
ac_cv_header_string_h=yes
ac_cv_header_strings_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_unistd_h=yes
ac_cv_header_zlib_h=yes
ac_cv_host=x86_64-unknown-linux-gnu
ac_cv_objext=o
ac_cv_path_EGREP='/bin/grep -E'
ac_cv_path_GREP=/bin/grep
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

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

ACLOCAL='${SHELL} /data/maqgene/maq/missing --run aclocal-1.11'
AMTAR='${SHELL} /data/maqgene/maq/missing --run tar'
AUTOCONF='${SHELL} /data/maqgene/maq/missing --run autoconf'
AUTOHEADER='${SHELL} /data/maqgene/maq/missing --run autoheader'
AUTOMAKE='${SHELL} /data/maqgene/maq/missing --run automake-1.11'
AWK='gawk'
CC='gcc'
CFLAGS='-Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2'
CPP='gcc -E'
CPPFLAGS=''
CXX='g++'
CXXFLAGS='-Wall -m64 -D_FASTMAP -DMAQ_LONGREADS -g -O2'
CYGPATH_W='echo'
DEFS='-DHAVE_CONFIG_H'
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/bin/grep -E'
EXEEXT=''
GREP='/bin/grep'
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'
LDFLAGS=''
LIBOBJS=''
LIBS=''
LTLIBOBJS=''
MAKEINFO='${SHELL} /data/maqgene/maq/missing --run makeinfo'
MKDIR_P='/bin/mkdir -p'
OBJEXT='o'
PACKAGE='maq'
PACKAGE_BUGREPORT=''
PACKAGE_NAME='MAQ'
PACKAGE_STRING='MAQ 0.7.1'
PACKAGE_TARNAME='maq'
PACKAGE_URL=''
PACKAGE_VERSION='0.7.1'
PATH_SEPARATOR=':'
SET_MAKE=''
SHELL='/bin/bash'
STRIP=''
VERSION='0.7.1'
ac_ct_CC='gcc'
ac_ct_CXX='g++'
am__EXEEXT_FALSE=''
am__EXEEXT_TRUE='#'
am__isrc=''
am__leading_dot='.'
am__tar='${AMTAR} chof - "$$tardir"'
am__untar='${AMTAR} xf -'
bindir='${exec_prefix}/bin'
build='x86_64-unknown-linux-gnu'
build_alias=''
build_cpu='x86_64'
build_os='linux-gnu'
build_vendor='unknown'
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='${prefix}'
host='x86_64-unknown-linux-gnu'
host_alias=''
host_cpu='x86_64'
host_os='linux-gnu'
host_vendor='unknown'
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
install_sh='${SHELL} /data/maqgene/maq/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='/data/maqgene'
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 "MAQ"
#define PACKAGE_TARNAME "maq"
#define PACKAGE_VERSION "0.7.1"
#define PACKAGE_STRING "MAQ 0.7.1"
#define PACKAGE_BUGREPORT ""
#define PACKAGE_URL ""
#define PACKAGE "maq"
#define VERSION "0.7.1"
#define STDC_HEADERS 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRING_H 1
#define HAVE_MEMORY_H 1
#define HAVE_STRINGS_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_STDINT_H 1
#define HAVE_UNISTD_H 1

configure: exit 0