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config.log
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This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by BatAlign configure 1.00(mmx), which was
generated by GNU Autoconf 2.63. Invocation command line was
$ ./configure
## --------- ##
## Platform. ##
## --------- ##
hostname = genome.ddns.comp.nus.edu.sg
uname -m = x86_64
uname -r = 2.6.32-431.20.3.el6.x86_64
uname -s = Linux
uname -v = #1 SMP Thu Jun 19 21:14:45 UTC 2014
/usr/bin/uname -p = unknown
/bin/uname -X = unknown
/bin/arch = x86_64
/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/lib64/qt-3.3/bin
PATH: /usr/local/bin
PATH: /bin
PATH: /usr/bin
PATH: /usr/local/sbin
PATH: /usr/sbin
PATH: /sbin
PATH: /home/Ken/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:1882: checking for a BSD-compatible install
configure:1950: result: /usr/bin/install -c
configure:1961: checking whether build environment is sane
configure:2021: result: yes
configure:2162: checking for a thread-safe mkdir -p
configure:2201: result: /bin/mkdir -p
configure:2214: checking for gawk
configure:2230: found /bin/gawk
configure:2241: result: gawk
configure:2252: checking whether make sets $(MAKE)
configure:2274: result: yes
configure:2419: checking for g++
configure:2435: found /usr/bin/g++
configure:2446: result: g++
configure:2473: checking for C++ compiler version
configure:2481: g++ --version >&5
g++ (GCC) 4.4.7 20120313 (Red Hat 4.4.7-11)
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:2485: $? = 0
configure:2492: g++ -v >&5
Using built-in specs.
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-languages=c,c++,objc,obj-c++,java,fortran,ada --enable-java-awt=gtk --disable-dssi --with-java-home=/usr/lib/jvm/java-1.5.0-gcj-1.5.0.0/jre --enable-libgcj-multifile --enable-java-maintainer-mode --with-ecj-jar=/usr/share/java/eclipse-ecj.jar --disable-libjava-multilib --with-ppl --with-cloog --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
Thread model: posix
gcc version 4.4.7 20120313 (Red Hat 4.4.7-11) (GCC)
configure:2496: $? = 0
configure:2503: g++ -V >&5
g++: '-V' option must have argument
configure:2507: $? = 1
configure:2530: checking for C++ compiler default output file name
configure:2552: g++ conftest.cpp >&5
configure:2556: $? = 0
configure:2594: result: a.out
configure:2613: checking whether the C++ compiler works
configure:2623: ./a.out
configure:2627: $? = 0
configure:2646: result: yes
configure:2653: checking whether we are cross compiling
configure:2655: result: no
configure:2658: checking for suffix of executables
configure:2665: g++ -o conftest conftest.cpp >&5
configure:2669: $? = 0
configure:2695: result:
configure:2701: checking for suffix of object files
configure:2727: g++ -c conftest.cpp >&5
configure:2731: $? = 0
configure:2756: result: o
configure:2760: checking whether we are using the GNU C++ compiler
configure:2789: g++ -c conftest.cpp >&5
configure:2796: $? = 0
configure:2813: result: yes
configure:2822: checking whether g++ accepts -g
configure:2852: g++ -c -g conftest.cpp >&5
configure:2859: $? = 0
configure:2960: result: yes
configure:2994: checking for style of include used by make
configure:3022: result: GNU
configure:3047: checking dependency style of g++
configure:3157: result: gcc3
configure:3220: checking for gcc
configure:3236: found /usr/bin/gcc
configure:3247: result: gcc
configure:3479: checking for C compiler version
configure:3487: gcc --version >&5
gcc (GCC) 4.4.7 20120313 (Red Hat 4.4.7-11)
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:3491: $? = 0
configure:3498: gcc -v >&5
Using built-in specs.
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-languages=c,c++,objc,obj-c++,java,fortran,ada --enable-java-awt=gtk --disable-dssi --with-java-home=/usr/lib/jvm/java-1.5.0-gcj-1.5.0.0/jre --enable-libgcj-multifile --enable-java-maintainer-mode --with-ecj-jar=/usr/share/java/eclipse-ecj.jar --disable-libjava-multilib --with-ppl --with-cloog --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
Thread model: posix
gcc version 4.4.7 20120313 (Red Hat 4.4.7-11) (GCC)
configure:3502: $? = 0
configure:3509: gcc -V >&5
gcc: '-V' option must have argument
configure:3513: $? = 1
configure:3516: checking whether we are using the GNU C compiler
configure:3545: gcc -c conftest.c >&5
configure:3552: $? = 0
configure:3569: result: yes
configure:3578: checking whether gcc accepts -g
configure:3608: gcc -c -g conftest.c >&5
configure:3615: $? = 0
configure:3716: result: yes
configure:3733: checking for gcc option to accept ISO C89
configure:3807: gcc -c -g -O2 conftest.c >&5
configure:3814: $? = 0
configure:3837: result: none needed
configure:3857: checking dependency style of gcc
configure:3967: result: gcc3
configure:3992: checking how to run the C preprocessor
configure:4032: gcc -E conftest.c
configure:4039: $? = 0
configure:4070: gcc -E conftest.c
conftest.c:10:28: error: ac_nonexistent.h: No such file or directory
configure:4077: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:4110: result: gcc -E
configure:4139: gcc -E conftest.c
configure:4146: $? = 0
configure:4177: gcc -E conftest.c
conftest.c:10:28: error: ac_nonexistent.h: No such file or directory
configure:4184: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:4224: checking for grep that handles long lines and -e
configure:4284: result: /bin/grep
configure:4289: checking for egrep
configure:4353: result: /bin/grep -E
configure:4358: checking for ANSI C header files
configure:4388: gcc -c -g -O2 conftest.c >&5
configure:4395: $? = 0
configure:4494: gcc -o conftest -g -O2 conftest.c >&5
configure:4498: $? = 0
configure:4504: ./conftest
configure:4508: $? = 0
configure:4526: result: yes
configure:4550: checking for sys/types.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for sys/stat.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for stdlib.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for string.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for memory.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for strings.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for inttypes.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for stdint.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4550: checking for unistd.h
configure:4571: gcc -c -g -O2 conftest.c >&5
configure:4578: $? = 0
configure:4595: result: yes
configure:4633: checking limits.h usability
configure:4650: gcc -c -g -O2 conftest.c >&5
configure:4657: $? = 0
configure:4671: result: yes
configure:4675: checking limits.h presence
configure:4690: gcc -E conftest.c
configure:4697: $? = 0
configure:4711: result: yes
configure:4744: checking for limits.h
configure:4753: result: yes
configure:4633: checking malloc.h usability
configure:4650: gcc -c -g -O2 conftest.c >&5
configure:4657: $? = 0
configure:4671: result: yes
configure:4675: checking malloc.h presence
configure:4690: gcc -E conftest.c
configure:4697: $? = 0
configure:4711: result: yes
configure:4744: checking for malloc.h
configure:4753: result: yes
configure:4633: checking stddef.h usability
configure:4650: gcc -c -g -O2 conftest.c >&5
configure:4657: $? = 0
configure:4671: result: yes
configure:4675: checking stddef.h presence
configure:4690: gcc -E conftest.c
configure:4697: $? = 0
configure:4711: result: yes
configure:4744: checking for stddef.h
configure:4753: result: yes
configure:4622: checking for stdint.h
configure:4629: result: yes
configure:4622: checking for stdlib.h
configure:4629: result: yes
configure:4622: checking for string.h
configure:4629: result: yes
configure:4633: checking sys/socket.h usability
configure:4650: gcc -c -g -O2 conftest.c >&5
configure:4657: $? = 0
configure:4671: result: yes
configure:4675: checking sys/socket.h presence
configure:4690: gcc -E conftest.c
configure:4697: $? = 0
configure:4711: result: yes
configure:4744: checking for sys/socket.h
configure:4753: result: yes
configure:4633: checking sys/time.h usability
configure:4650: gcc -c -g -O2 conftest.c >&5
configure:4657: $? = 0
configure:4671: result: yes
configure:4675: checking sys/time.h presence
configure:4690: gcc -E conftest.c
configure:4697: $? = 0
configure:4711: result: yes
configure:4744: checking for sys/time.h
configure:4753: result: yes
configure:4622: checking for unistd.h
configure:4629: result: yes
configure:4770: checking for an ANSI C-conforming const
configure:4845: gcc -c -g -O2 conftest.c >&5
configure:4852: $? = 0
configure:4867: result: yes
configure:4877: checking for size_t
configure:4905: gcc -c -g -O2 conftest.c >&5
configure:4912: $? = 0
configure:4939: gcc -c -g -O2 conftest.c >&5
conftest.c: In function 'main':
conftest.c:65: error: expected expression before ')' token
configure:4946: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| #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
| #define HAVE_LIMITS_H 1
| #define HAVE_MALLOC_H 1
| #define HAVE_STDDEF_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_SOCKET_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| /* end confdefs.h. */
| #include <stdio.h>
| #ifdef HAVE_SYS_TYPES_H
| # include <sys/types.h>
| #endif
| #ifdef HAVE_SYS_STAT_H
| # include <sys/stat.h>
| #endif
| #ifdef STDC_HEADERS
| # include <stdlib.h>
| # include <stddef.h>
| #else
| # ifdef HAVE_STDLIB_H
| # include <stdlib.h>
| # endif
| #endif
| #ifdef HAVE_STRING_H
| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H
| # include <memory.h>
| # endif
| # include <string.h>
| #endif
| #ifdef HAVE_STRINGS_H
| # include <strings.h>
| #endif
| #ifdef HAVE_INTTYPES_H
| # include <inttypes.h>
| #endif
| #ifdef HAVE_STDINT_H
| # include <stdint.h>
| #endif
| #ifdef HAVE_UNISTD_H
| # include <unistd.h>
| #endif
| int
| main ()
| {
| if (sizeof ((size_t)))
| return 0;
| ;
| return 0;
| }
configure:4969: result: yes
configure:4981: checking whether time.h and sys/time.h may both be included
configure:5011: gcc -c -g -O2 conftest.c >&5
configure:5018: $? = 0
configure:5033: result: yes
configure:5043: checking for working volatile
configure:5072: gcc -c -g -O2 conftest.c >&5
configure:5079: $? = 0
configure:5094: result: yes
configure:5104: checking for ptrdiff_t
configure:5132: gcc -c -g -O2 conftest.c >&5
configure:5139: $? = 0
configure:5166: gcc -c -g -O2 conftest.c >&5
conftest.c: In function 'main':
conftest.c:66: error: expected expression before ')' token
configure:5173: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| #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
| #define HAVE_LIMITS_H 1
| #define HAVE_MALLOC_H 1
| #define HAVE_STDDEF_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_SOCKET_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| #define TIME_WITH_SYS_TIME 1
| /* end confdefs.h. */
| #include <stdio.h>
| #ifdef HAVE_SYS_TYPES_H
| # include <sys/types.h>
| #endif
| #ifdef HAVE_SYS_STAT_H
| # include <sys/stat.h>
| #endif
| #ifdef STDC_HEADERS
| # include <stdlib.h>
| # include <stddef.h>
| #else
| # ifdef HAVE_STDLIB_H
| # include <stdlib.h>
| # endif
| #endif
| #ifdef HAVE_STRING_H
| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H
| # include <memory.h>
| # endif
| # include <string.h>
| #endif
| #ifdef HAVE_STRINGS_H
| # include <strings.h>
| #endif
| #ifdef HAVE_INTTYPES_H
| # include <inttypes.h>
| #endif
| #ifdef HAVE_STDINT_H
| # include <stdint.h>
| #endif
| #ifdef HAVE_UNISTD_H
| # include <unistd.h>
| #endif
| int
| main ()
| {
| if (sizeof ((ptrdiff_t)))
| return 0;
| ;
| return 0;
| }
configure:5196: result: yes
configure:5214: checking for stdlib.h
configure:5221: result: yes
configure:5360: checking for GNU libc compatible malloc
configure:5394: gcc -o conftest -g -O2 conftest.c >&5
configure:5398: $? = 0
configure:5404: ./conftest
configure:5408: $? = 0
configure:5425: result: yes
configure:5458: checking for stdlib.h
configure:5465: result: yes
configure:5604: checking for GNU libc compatible realloc
configure:5638: gcc -o conftest -g -O2 conftest.c >&5
configure:5642: $? = 0
configure:5648: ./conftest
configure:5652: $? = 0
configure:5669: result: yes
configure:5708: checking for vprintf
configure:5764: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:58: warning: conflicting types for built-in function 'vprintf'
configure:5771: $? = 0
configure:5793: result: yes
configure:5802: checking for _doprnt
configure:5858: gcc -o conftest -g -O2 conftest.c >&5
/tmp/ccZI5O0p.o: In function `main':
/home/Ken/batindel/batindel/conftest.c:70: undefined reference to `_doprnt'
collect2: ld returned 1 exit status
configure:5865: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| #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
| #define HAVE_LIMITS_H 1
| #define HAVE_MALLOC_H 1
| #define HAVE_STDDEF_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_SOCKET_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| #define TIME_WITH_SYS_TIME 1
| #define HAVE_PTRDIFF_T 1
| #define HAVE_STDLIB_H 1
| #define HAVE_MALLOC 1
| #define HAVE_STDLIB_H 1
| #define HAVE_REALLOC 1
| #define HAVE_VPRINTF 1
| /* end confdefs.h. */
| /* Define _doprnt to an innocuous variant, in case <limits.h> declares _doprnt.
| For example, HP-UX 11i <limits.h> declares gettimeofday. */
| #define _doprnt innocuous__doprnt
|
| /* System header to define __stub macros and hopefully few prototypes,
| which can conflict with char _doprnt (); below.
| Prefer <limits.h> to <assert.h> if __STDC__ is defined, since
| <limits.h> exists even on freestanding compilers. */
|
| #ifdef __STDC__
| # include <limits.h>
| #else
| # include <assert.h>
| #endif
|
| #undef _doprnt
|
| /* 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. */
| #ifdef __cplusplus
| extern "C"
| #endif
| char _doprnt ();
| /* The GNU C library defines this for functions which it implements
| to always fail with ENOSYS. Some functions are actually named
| something starting with __ and the normal name is an alias. */
| #if defined __stub__doprnt || defined __stub____doprnt
| choke me
| #endif
|
| int
| main ()
| {
| return _doprnt ();
| ;
| return 0;
| }
configure:5885: result: no
configure:5912: checking for floor
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:59: warning: conflicting types for built-in function 'floor'
/tmp/cconYoNu.o: In function `main':
/home/Ken/batindel/batindel/conftest.c:70: undefined reference to `floor'
collect2: ld returned 1 exit status
configure:5975: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| #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
| #define HAVE_LIMITS_H 1
| #define HAVE_MALLOC_H 1
| #define HAVE_STDDEF_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_SOCKET_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| #define TIME_WITH_SYS_TIME 1
| #define HAVE_PTRDIFF_T 1
| #define HAVE_STDLIB_H 1
| #define HAVE_MALLOC 1
| #define HAVE_STDLIB_H 1
| #define HAVE_REALLOC 1
| #define HAVE_VPRINTF 1
| /* end confdefs.h. */
| /* Define floor to an innocuous variant, in case <limits.h> declares floor.
| For example, HP-UX 11i <limits.h> declares gettimeofday. */
| #define floor innocuous_floor
|
| /* System header to define __stub macros and hopefully few prototypes,
| which can conflict with char floor (); below.
| Prefer <limits.h> to <assert.h> if __STDC__ is defined, since
| <limits.h> exists even on freestanding compilers. */
|
| #ifdef __STDC__
| # include <limits.h>
| #else
| # include <assert.h>
| #endif
|
| #undef floor
|
| /* 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. */
| #ifdef __cplusplus
| extern "C"
| #endif
| char floor ();
| /* The GNU C library defines this for functions which it implements
| to always fail with ENOSYS. Some functions are actually named
| something starting with __ and the normal name is an alias. */
| #if defined __stub_floor || defined __stub___floor
| choke me
| #endif
|
| int
| main ()
| {
| return floor ();
| ;
| return 0;
| }
configure:5997: result: no
configure:5912: checking for gettimeofday
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
configure:5975: $? = 0
configure:5997: result: yes
configure:5912: checking for memmove
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:60: warning: conflicting types for built-in function 'memmove'
configure:5975: $? = 0
configure:5997: result: yes
configure:5912: checking for memset
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:61: warning: conflicting types for built-in function 'memset'
configure:5975: $? = 0
configure:5997: result: yes
configure:5912: checking for pow
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:62: warning: conflicting types for built-in function 'pow'
/tmp/cchJWgTO.o: In function `main':
/home/Ken/batindel/batindel/conftest.c:73: undefined reference to `pow'
collect2: ld returned 1 exit status
configure:5975: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| #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
| #define HAVE_LIMITS_H 1
| #define HAVE_MALLOC_H 1
| #define HAVE_STDDEF_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_SOCKET_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| #define TIME_WITH_SYS_TIME 1
| #define HAVE_PTRDIFF_T 1
| #define HAVE_STDLIB_H 1
| #define HAVE_MALLOC 1
| #define HAVE_STDLIB_H 1
| #define HAVE_REALLOC 1
| #define HAVE_VPRINTF 1
| #define HAVE_GETTIMEOFDAY 1
| #define HAVE_MEMMOVE 1
| #define HAVE_MEMSET 1
| /* end confdefs.h. */
| /* Define pow to an innocuous variant, in case <limits.h> declares pow.
| For example, HP-UX 11i <limits.h> declares gettimeofday. */
| #define pow innocuous_pow
|
| /* System header to define __stub macros and hopefully few prototypes,
| which can conflict with char pow (); below.
| Prefer <limits.h> to <assert.h> if __STDC__ is defined, since
| <limits.h> exists even on freestanding compilers. */
|
| #ifdef __STDC__
| # include <limits.h>
| #else
| # include <assert.h>
| #endif
|
| #undef pow
|
| /* 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. */
| #ifdef __cplusplus
| extern "C"
| #endif
| char pow ();
| /* The GNU C library defines this for functions which it implements
| to always fail with ENOSYS. Some functions are actually named
| something starting with __ and the normal name is an alias. */
| #if defined __stub_pow || defined __stub___pow
| choke me
| #endif
|
| int
| main ()
| {
| return pow ();
| ;
| return 0;
| }
configure:5997: result: no
configure:5912: checking for socket
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
configure:5975: $? = 0
configure:5997: result: yes
configure:5912: checking for sqrt
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:63: warning: conflicting types for built-in function 'sqrt'
/tmp/cc08W1w5.o: In function `main':
/home/Ken/batindel/batindel/conftest.c:74: undefined reference to `sqrt'
collect2: ld returned 1 exit status
configure:5975: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "BatAlign"
| #define PACKAGE_TARNAME "batalign"
| #define PACKAGE_VERSION "1.00(mmx)"
| #define PACKAGE_STRING "BatAlign 1.00(mmx)"
| #define PACKAGE_BUGREPORT "bwtbatman@gmail.com"
| #define PACKAGE "BatAlign"
| #define VERSION "1.00_mmx"
| #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
| #define HAVE_LIMITS_H 1
| #define HAVE_MALLOC_H 1
| #define HAVE_STDDEF_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_SYS_SOCKET_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_UNISTD_H 1
| #define TIME_WITH_SYS_TIME 1
| #define HAVE_PTRDIFF_T 1
| #define HAVE_STDLIB_H 1
| #define HAVE_MALLOC 1
| #define HAVE_STDLIB_H 1
| #define HAVE_REALLOC 1
| #define HAVE_VPRINTF 1
| #define HAVE_GETTIMEOFDAY 1
| #define HAVE_MEMMOVE 1
| #define HAVE_MEMSET 1
| #define HAVE_SOCKET 1
| /* end confdefs.h. */
| /* Define sqrt to an innocuous variant, in case <limits.h> declares sqrt.
| For example, HP-UX 11i <limits.h> declares gettimeofday. */
| #define sqrt innocuous_sqrt
|
| /* System header to define __stub macros and hopefully few prototypes,
| which can conflict with char sqrt (); below.
| Prefer <limits.h> to <assert.h> if __STDC__ is defined, since
| <limits.h> exists even on freestanding compilers. */
|
| #ifdef __STDC__
| # include <limits.h>
| #else
| # include <assert.h>
| #endif
|
| #undef sqrt
|
| /* 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. */
| #ifdef __cplusplus
| extern "C"
| #endif
| char sqrt ();
| /* The GNU C library defines this for functions which it implements
| to always fail with ENOSYS. Some functions are actually named
| something starting with __ and the normal name is an alias. */
| #if defined __stub_sqrt || defined __stub___sqrt
| choke me
| #endif
|
| int
| main ()
| {
| return sqrt ();
| ;
| return 0;
| }
configure:5997: result: no
configure:5912: checking for strchr
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:63: warning: conflicting types for built-in function 'strchr'
configure:5975: $? = 0
configure:5997: result: yes
configure:5912: checking for strdup
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
conftest.c:64: warning: conflicting types for built-in function 'strdup'
configure:5975: $? = 0
configure:5997: result: yes
configure:5912: checking for strtoul
configure:5968: gcc -o conftest -g -O2 conftest.c >&5
configure:5975: $? = 0
configure:5997: result: yes
configure:6009: checking Checking for SIMD support and for a gcc bug...
configure:6034: gcc -c -g -O2 -msse2 conftest.c >&5
conftest.c:43:23: warning: extra tokens at end of #include directive
configure:6041: $? = 0
configure:6046: result: OK...
configure:6197: creating ./config.status
## ---------------------- ##
## Running config.status. ##
## ---------------------- ##
This file was extended by BatAlign config.status 1.00(mmx), which was
generated by GNU Autoconf 2.63. Invocation command line was
CONFIG_FILES =
CONFIG_HEADERS =
CONFIG_LINKS =
CONFIG_COMMANDS =
$ ./config.status
on genome.ddns.comp.nus.edu.sg
config.status:803: creating Makefile
config.status:803: creating src/Makefile
config.status:803: creating scripts/Makefile
config.status:803: creating config.h
config.status:1025: config.h is unchanged
config.status:1077: executing depfiles commands
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_c_compiler_gnu=yes
ac_cv_c_const=yes
ac_cv_c_volatile=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_func__doprnt=no
ac_cv_func_floor=no
ac_cv_func_gettimeofday=yes
ac_cv_func_malloc_0_nonnull=yes
ac_cv_func_memmove=yes
ac_cv_func_memset=yes
ac_cv_func_pow=no
ac_cv_func_realloc_0_nonnull=yes
ac_cv_func_setvbuf_reversed=no
ac_cv_func_socket=yes
ac_cv_func_sqrt=no
ac_cv_func_strchr=yes
ac_cv_func_strdup=yes
ac_cv_func_strtoul=yes
ac_cv_func_vprintf=yes
ac_cv_header_inttypes_h=yes
ac_cv_header_limits_h=yes
ac_cv_header_malloc_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_stdc=yes
ac_cv_header_stddef_h=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_socket_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_time_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_time=yes
ac_cv_header_unistd_h=yes
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
ac_cv_type_ptrdiff_t=yes
ac_cv_type_size_t=yes
am_cv_CC_dependencies_compiler_type=gcc3
am_cv_CXX_dependencies_compiler_type=gcc3
## ----------------- ##
## Output variables. ##
## ----------------- ##
ACLOCAL='${SHELL} /home/Ken/batindel/batindel/missing --run aclocal-1.11'
AMDEPBACKSLASH='\'
AMDEP_FALSE='#'
AMDEP_TRUE=''
AMTAR='${SHELL} /home/Ken/batindel/batindel/missing --run tar'
AUTOCONF='${SHELL} /home/Ken/batindel/batindel/missing --run autoconf'
AUTOHEADER='${SHELL} /home/Ken/batindel/batindel/missing --run autoheader'
AUTOMAKE='${SHELL} /home/Ken/batindel/batindel/missing --run automake-1.11'
AWK='gawk'
CC='gcc'
CCDEPMODE='depmode=gcc3'
CFLAGS='-g -O2'
CPP='gcc -E'
CPPFLAGS=''
CXX='g++'
CXXDEPMODE='depmode=gcc3'
CXXFLAGS='-g -O2'
CYGPATH_W='echo'
DEFS='-DHAVE_CONFIG_H'
DEPDIR='.deps'
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/bin/grep -E'
EXEEXT=''
GREP='/bin/grep'
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'
LDFLAGS=''
LIBOBJS=''
LIBS=''
LTLIBOBJS=''
MAKEINFO='${SHELL} /home/Ken/batindel/batindel/missing --run makeinfo'
MKDIR_P='/bin/mkdir -p'
OBJEXT='o'
PACKAGE='BatAlign'
PACKAGE_BUGREPORT='bwtbatman@gmail.com'
PACKAGE_NAME='BatAlign'
PACKAGE_STRING='BatAlign 1.00(mmx)'
PACKAGE_TARNAME='batalign'
PACKAGE_VERSION='1.00(mmx)'
PATH_SEPARATOR=':'
SET_MAKE=''
SHELL='/bin/sh'
STRIP=''
VERSION='1.00_mmx'
ac_ct_CC='gcc'
ac_ct_CXX='g++'