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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 configure, which was
generated by GNU Autoconf 2.63. Invocation command line was
$ ./configure
## --------- ##
## Platform. ##
## --------- ##
hostname = compbio.ucdenver.edu
uname -m = x86_64
uname -r = 2.6.31.5-127.fc12.x86_64
uname -s = Linux
uname -v = #1 SMP Sat Nov 7 21:11:14 EST 2009
/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: /home/roederc/opt/jdk1.7.0_21/bin
PATH: /home/roederc/opt/apache-maven-3.0.5/bin
PATH: /usr/lib64/qt-3.3/bin
PATH: /usr/lib/oracle/11.2/client64/bin/
PATH: /usr/kerberos/sbin
PATH: /usr/kerberos/bin
PATH: /usr/local/circos-0.62-1/bin
PATH: /usr/lib64/ccache
PATH: /usr/local/bin
PATH: /bin
PATH: /usr/bin
PATH: /usr/local/sbin
PATH: /usr/sbin
PATH: /sbin
PATH: /home/roederc/MagicDraw_UML_Personal_Edition/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:2072: checking for a BSD-compatible install
configure:2140: result: /usr/bin/install -c
configure:2151: checking whether build environment is sane
configure:2211: result: yes
configure:2352: checking for a thread-safe mkdir -p
configure:2391: result: /bin/mkdir -p
configure:2404: checking for gawk
configure:2420: found /bin/gawk
configure:2431: result: gawk
configure:2442: checking whether make sets $(MAKE)
configure:2464: result: yes
configure:2595: checking for gcc
configure:2611: found /usr/lib64/ccache/gcc
configure:2622: result: gcc
configure:2854: checking for C compiler version
configure:2862: gcc --version >&5
gcc (GCC) 4.4.4 20100630 (Red Hat 4.4.4-10)
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:2866: $? = 0
configure:2873: 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 --enable-plugin --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 4.4.4 20100630 (Red Hat 4.4.4-10) (GCC)
configure:2877: $? = 0
configure:2884: gcc -V >&5
gcc: '-V' option must have argument
configure:2888: $? = 1
configure:2911: checking for C compiler default output file name
configure:2933: gcc conftest.c >&5
configure:2937: $? = 0
configure:2975: result: a.out
configure:2994: checking whether the C compiler works
configure:3004: ./a.out
configure:3008: $? = 0
configure:3027: result: yes
configure:3034: checking whether we are cross compiling
configure:3036: result: no
configure:3039: checking for suffix of executables
configure:3046: gcc -o conftest conftest.c >&5
configure:3050: $? = 0
configure:3076: result:
configure:3082: checking for suffix of object files
configure:3108: gcc -c conftest.c >&5
configure:3112: $? = 0
configure:3137: result: o
configure:3141: checking whether we are using the GNU C compiler
configure:3170: gcc -c conftest.c >&5
configure:3177: $? = 0
configure:3194: result: yes
configure:3203: checking whether gcc accepts -g
configure:3233: gcc -c -g conftest.c >&5
configure:3240: $? = 0
configure:3341: result: yes
configure:3358: checking for gcc option to accept ISO C89
configure:3432: gcc -c -g -O2 conftest.c >&5
configure:3439: $? = 0
configure:3462: result: none needed
configure:3491: checking for style of include used by make
configure:3519: result: GNU
configure:3544: checking dependency style of gcc
configure:3654: result: gcc3
configure:3727: checking for g++
configure:3743: found /usr/lib64/ccache/g++
configure:3754: result: g++
configure:3781: checking for C++ compiler version
configure:3789: g++ --version >&5
g++ (GCC) 4.4.4 20100630 (Red Hat 4.4.4-10)
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:3793: $? = 0
configure:3800: 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 --enable-plugin --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 4.4.4 20100630 (Red Hat 4.4.4-10) (GCC)
configure:3804: $? = 0
configure:3811: g++ -V >&5
g++: '-V' option must have argument
configure:3815: $? = 1
configure:3818: checking whether we are using the GNU C++ compiler
configure:3847: g++ -c conftest.cpp >&5
configure:3854: $? = 0
configure:3871: result: yes
configure:3880: checking whether g++ accepts -g
configure:3910: g++ -c -g conftest.cpp >&5
configure:3917: $? = 0
configure:4018: result: yes
configure:4043: checking dependency style of g++
configure:4153: result: gcc3
configure:4174: checking how to run the C preprocessor
configure:4214: gcc -E conftest.c
configure:4221: $? = 0
configure:4252: gcc -E conftest.c
conftest.c:10:28: error: ac_nonexistent.h: No such file or directory
configure:4259: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE "CRF++"
| #define VERSION "0.58"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:4292: result: gcc -E
configure:4321: gcc -E conftest.c
configure:4328: $? = 0
configure:4359: gcc -E conftest.c
conftest.c:10:28: error: ac_nonexistent.h: No such file or directory
configure:4366: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE "CRF++"
| #define VERSION "0.58"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:4406: checking for grep that handles long lines and -e
configure:4466: result: /bin/grep
configure:4471: checking for egrep
configure:4535: result: /bin/grep -E
configure:4541: checking whether gcc needs -traditional
configure:4583: result: no
configure:4590: checking whether make sets $(MAKE)
configure:4612: result: yes
configure:4621: checking for library containing strerror
configure:4662: gcc -o conftest -g -O2 conftest.c >&5
configure:4669: $? = 0
configure:4700: result: none required
configure:4714: checking build system type
configure:4732: result: x86_64-unknown-linux-gnu
configure:4754: checking host system type
configure:4769: result: x86_64-unknown-linux-gnu
configure:4827: checking for a sed that does not truncate output
configure:4893: result: /bin/sed
configure:4911: checking for fgrep
configure:4975: result: /bin/grep -F
configure:5010: checking for ld used by gcc
configure:5077: result: /usr/bin/ld
configure:5086: checking if the linker (/usr/bin/ld) is GNU ld
configure:5101: result: yes
configure:5113: checking for BSD- or MS-compatible name lister (nm)
configure:5162: result: /usr/bin/nm -B
configure:5280: checking the name lister (/usr/bin/nm -B) interface
configure:5287: g++ -c -g -O2 conftest.cpp >&5
configure:5290: /usr/bin/nm -B "conftest.o"
configure:5293: output
0000000000000000 B some_variable
configure:5300: result: BSD nm
configure:5303: checking whether ln -s works
configure:5307: result: yes
configure:5315: checking the maximum length of command line arguments
configure:5435: result: 1966080
configure:5452: checking whether the shell understands some XSI constructs
configure:5462: result: yes
configure:5466: checking whether the shell understands "+="
configure:5472: result: yes
configure:5507: checking for /usr/bin/ld option to reload object files
configure:5514: result: -r
configure:5583: checking for objdump
configure:5599: found /usr/bin/objdump
configure:5610: result: objdump
configure:5642: checking how to recognize dependent libraries
configure:5838: result: pass_all
configure:5898: checking for ar
configure:5914: found /usr/bin/ar
configure:5925: result: ar
configure:6003: checking for strip
configure:6019: found /usr/bin/strip
configure:6030: result: strip
configure:6102: checking for ranlib
configure:6118: found /usr/bin/ranlib
configure:6129: result: ranlib
configure:6219: checking command to parse /usr/bin/nm -B output from gcc object
configure:6337: g++ -c -g -O2 conftest.cpp >&5
configure:6340: $? = 0
configure:6344: /usr/bin/nm -B conftest.o \| sed -n -e 's/^.*[ ]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2 \2/p' \> conftest.nm
configure:6347: $? = 0
configure:6401: g++ -o conftest -g -O2 conftest.cpp conftstm.o >&5
configure:6404: $? = 0
configure:6442: result: ok
configure:6537: g++ -c -g -O2 conftest.cpp >&5
configure:6540: $? = 0
configure:7303: checking for ANSI C header files
configure:7333: g++ -c -g -O2 conftest.cpp >&5
configure:7340: $? = 0
./configure: line 7366: conftest.cpp: command not found
configure:7471: result: no
configure:7495: checking for sys/types.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for sys/stat.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for stdlib.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for string.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for memory.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for strings.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for inttypes.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for stdint.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7495: checking for unistd.h
configure:7516: g++ -c -g -O2 conftest.cpp >&5
configure:7523: $? = 0
configure:7540: result: yes
configure:7558: checking for dlfcn.h
configure:7579: g++ -c -g -O2 conftest.cpp >&5
configure:7586: $? = 0
configure:7603: result: yes
configure:7730: checking for C++ compiler version
configure:7738: g++ --version >&5
g++ (GCC) 4.4.4 20100630 (Red Hat 4.4.4-10)
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:7742: $? = 0
configure:7749: 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 --enable-plugin --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 4.4.4 20100630 (Red Hat 4.4.4-10) (GCC)
configure:7753: $? = 0
configure:7760: g++ -V >&5
g++: '-V' option must have argument
configure:7764: $? = 1
configure:7767: checking whether we are using the GNU C++ compiler
configure:7820: result: yes
configure:7829: checking whether g++ accepts -g
configure:7967: result: yes
configure:7992: checking dependency style of g++
configure:8102: result: gcc3
configure:8125: checking how to run the C++ preprocessor
configure:8161: g++ -E conftest.cpp
configure:8168: $? = 0
configure:8199: g++ -E conftest.cpp
conftest.cpp:20:28: error: ac_nonexistent.h: No such file or directory
configure:8206: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE "CRF++"
| #define VERSION "0.58"
| #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_DLFCN_H 1
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:8239: result: g++ -E
configure:8268: g++ -E conftest.cpp
configure:8275: $? = 0
configure:8306: g++ -E conftest.cpp
conftest.cpp:20:28: error: ac_nonexistent.h: No such file or directory
configure:8313: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE "CRF++"
| #define VERSION "0.58"
| #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_DLFCN_H 1
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:8527: checking for objdir
configure:8542: result: .libs
configure:8838: checking if gcc supports -fno-rtti -fno-exceptions
configure:8856: gcc -c -g -O2 -fno-rtti -fno-exceptions conftest.c >&5
cc1: warning: command line option "-fno-rtti" is valid for C++/ObjC++ but not for C
cc1: warning: command line option "-fno-rtti" is valid for C++/ObjC++ but not for C
configure:8860: $? = 0
configure:8873: result: no
configure:8893: checking for gcc option to produce PIC
configure:9165: result: -fPIC -DPIC
configure:9177: checking if gcc PIC flag -fPIC -DPIC works
configure:9195: gcc -c -g -O2 -fPIC -DPIC -DPIC conftest.c >&5
configure:9199: $? = 0
configure:9212: result: yes
configure:9236: checking if gcc static flag -static works
configure:9264: result: no
configure:9279: checking if gcc supports -c -o file.o
configure:9300: gcc -c -g -O2 -o out/conftest2.o conftest.c >&5
configure:9304: $? = 0
configure:9326: result: yes
configure:9334: checking if gcc supports -c -o file.o
configure:9381: result: yes
configure:9414: checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries
configure:10488: result: yes
configure:10525: checking whether -lc should be explicitly linked in
configure:10530: gcc -c -g -O2 conftest.c >&5
configure:10533: $? = 0
configure:10548: gcc -shared conftest.o -v -Wl,-soname -Wl,conftest -o conftest 2\>\&1 \| /bin/grep -lc \>/dev/null 2\>\&1
configure:10551: $? = 0
configure:10563: result: no
configure:10727: checking dynamic linker characteristics
configure:11170: gcc -o conftest -g -O2 -Wl,-rpath -Wl,/foo conftest.c >&5
configure:11177: $? = 0
configure:11413: result: GNU/Linux ld.so
configure:11515: checking how to hardcode library paths into programs
configure:11540: result: immediate
configure:12373: checking whether stripping libraries is possible
configure:12378: result: yes
configure:12413: checking if libtool supports shared libraries
configure:12415: result: yes
configure:12418: checking whether to build shared libraries
configure:12439: result: yes
configure:12442: checking whether to build static libraries
configure:12446: result: yes
configure:12596: checking for ld used by g++
configure:12663: result: /usr/bin/ld -m elf_x86_64
configure:12672: checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld
configure:12687: result: yes
configure:12742: checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries
configure:13717: result: yes
configure:13745: g++ -c -g -O2 conftest.cpp >&5
configure:13748: $? = 0
configure:13930: checking for g++ option to produce PIC
configure:14247: result: -fPIC -DPIC
configure:14256: checking if g++ PIC flag -fPIC -DPIC works
configure:14274: g++ -c -g -O2 -fPIC -DPIC -DPIC conftest.cpp >&5
configure:14278: $? = 0
configure:14291: result: yes
configure:14312: checking if g++ static flag -static works
configure:14340: result: no
configure:14352: checking if g++ supports -c -o file.o
configure:14373: g++ -c -g -O2 -o out/conftest2.o conftest.cpp >&5
configure:14377: $? = 0
configure:14399: result: yes
configure:14404: checking if g++ supports -c -o file.o
configure:14451: result: yes
configure:14481: checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries
configure:14507: result: yes
configure:14644: checking dynamic linker characteristics
configure:15035: g++ -o conftest -g -O2 -Wl,-rpath -Wl,/foo conftest.cpp >&5
configure:15042: $? = 0
configure:15278: result: GNU/Linux ld.so
configure:15329: checking how to hardcode library paths into programs
configure:15354: result: immediate
configure:15416: checking for ANSI C header files
configure:15584: result: no
configure:15611: checking for string.h
configure:15618: result: yes
configure:15611: checking for stdlib.h
configure:15618: result: yes
configure:15611: checking for unistd.h
configure:15618: result: yes
configure:15622: checking fcntl.h usability
configure:15639: g++ -c -g -O2 conftest.cpp >&5
configure:15646: $? = 0
configure:15660: result: yes
configure:15664: checking fcntl.h presence
configure:15679: g++ -E conftest.cpp
configure:15686: $? = 0
configure:15700: result: yes
configure:15728: checking for fcntl.h
configure:15737: result: yes
configure:15611: checking for sys/stat.h
configure:15618: result: yes
configure:15622: checking sys/mman.h usability
configure:15639: g++ -c -g -O2 conftest.cpp >&5
configure:15646: $? = 0
configure:15660: result: yes
configure:15664: checking sys/mman.h presence
configure:15679: g++ -E conftest.cpp
configure:15686: $? = 0
configure:15700: result: yes
configure:15728: checking for sys/mman.h
configure:15737: result: yes
configure:15622: checking sys/times.h usability
configure:15639: g++ -c -g -O2 conftest.cpp >&5
configure:15646: $? = 0
configure:15660: result: yes
configure:15664: checking sys/times.h presence
configure:15679: g++ -E conftest.cpp
configure:15686: $? = 0
configure:15700: result: yes
configure:15728: checking for sys/times.h
configure:15737: result: yes
configure:15622: checking ctype.h usability
configure:15639: g++ -c -g -O2 conftest.cpp >&5
configure:15646: $? = 0
configure:15660: result: yes
configure:15664: checking ctype.h presence
configure:15679: g++ -E conftest.cpp
configure:15686: $? = 0
configure:15700: result: yes
configure:15728: checking for ctype.h
configure:15737: result: yes
configure:15611: checking for sys/types.h
configure:15618: result: yes
configure:15622: checking math.h usability
configure:15639: g++ -c -g -O2 conftest.cpp >&5
configure:15646: $? = 0
configure:15660: result: yes
configure:15664: checking math.h presence
configure:15679: g++ -E conftest.cpp
configure:15686: $? = 0
configure:15700: result: yes
configure:15728: checking for math.h
configure:15737: result: yes
configure:15622: checking pthread.h usability
configure:15639: g++ -c -g -O2 conftest.cpp >&5
configure:15646: $? = 0
configure:15660: result: yes
configure:15664: checking pthread.h presence
configure:15679: g++ -E conftest.cpp
configure:15686: $? = 0
configure:15700: result: yes
configure:15728: checking for pthread.h
configure:15737: result: yes
configure:15753: checking for size_t
configure:15781: g++ -c -g -O2 conftest.cpp >&5
configure:15788: $? = 0
configure:15815: g++ -c -g -O2 conftest.cpp >&5
conftest.cpp: In function 'int main()':
conftest.cpp:68: error: expected primary-expression before ')' token
configure:15822: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE "CRF++"
| #define VERSION "0.58"
| #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_DLFCN_H 1
| #define LT_OBJDIR ".libs/"
| #define HAVE_STRING_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_FCNTL_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_MMAN_H 1
| #define HAVE_SYS_TIMES_H 1
| #define HAVE_CTYPE_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_MATH_H 1
| #define HAVE_PTHREAD_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:15845: result: yes
configure:15859: checking for pow in -lm
configure:15894: g++ -o conftest -g -O2 conftest.cpp -lm >&5
configure:15901: $? = 0
configure:15922: result: yes
configure:15934: checking for exp in -lm
configure:15969: g++ -o conftest -g -O2 conftest.cpp -lm -lm >&5
configure:15976: $? = 0
configure:15997: result: yes
configure:16009: checking for log in -lm
configure:16044: g++ -o conftest -g -O2 conftest.cpp -lm -lm -lm >&5
configure:16051: $? = 0
configure:16072: result: yes
configure:16084: checking for pthread_create in -lpthread
configure:16119: g++ -o conftest -g -O2 conftest.cpp -lpthread -lm -lm -lm >&5
configure:16126: $? = 0
configure:16147: result: yes
configure:16159: checking for pthread_join in -lpthread
configure:16194: g++ -o conftest -g -O2 conftest.cpp -lpthread -lpthread -lm -lm -lm >&5
configure:16201: $? = 0
configure:16222: result: yes
configure:16239: checking for stdlib.h
configure:16246: result: yes
configure:16239: checking for unistd.h
configure:16246: result: yes
configure:16384: checking for getpagesize
configure:16440: g++ -o conftest -g -O2 conftest.cpp -lpthread -lpthread -lm -lm -lm >&5
configure:16447: $? = 0
configure:16469: result: yes
configure:16481: checking for working mmap
configure:16628: g++ -o conftest -g -O2 conftest.cpp -lpthread -lpthread -lm -lm -lm >&5
configure:16632: $? = 0
configure:16638: ./conftest
configure:16642: $? = 0
configure:16659: result: yes
configure:16671: checking whether make is GNU Make
configure:16674: result: yes
configure:17116: checking if g++ supports stl <string> (required)
configure:17143: g++ -c -O3 -Wall conftest.cpp >&5
configure:17150: $? = 0
configure:17170: result: yes
configure:17174: checking if g++ supports stl <vector> (required)
configure:17201: g++ -c -O3 -Wall conftest.cpp >&5
configure:17208: $? = 0
configure:17228: result: yes
configure:17232: checking if g++ supports stl <map> (required)
configure:17259: g++ -c -O3 -Wall conftest.cpp >&5
configure:17266: $? = 0
configure:17286: result: yes
configure:17290: checking if g++ supports stl <set> (required)
configure:17317: g++ -c -O3 -Wall conftest.cpp >&5
configure:17324: $? = 0
configure:17344: result: yes
configure:17348: checking if g++ supports stl <iostream> (required)
configure:17375: g++ -c -O3 -Wall conftest.cpp >&5
configure:17382: $? = 0
configure:17402: result: yes
configure:17406: checking if g++ supports stl <fstream> (required)
configure:17433: g++ -c -O3 -Wall conftest.cpp >&5
configure:17440: $? = 0
configure:17460: result: yes
configure:17464: checking if g++ supports stl <sstream> (required)
configure:17491: g++ -c -O3 -Wall conftest.cpp >&5
configure:17498: $? = 0
configure:17518: result: yes
configure:17522: checking if g++ supports stl <stdexcept> (required)
configure:17549: g++ -c -O3 -Wall conftest.cpp >&5
configure:17556: $? = 0
configure:17576: result: yes
configure:17581: checking if g++ supports template <class T> (required)
configure:17610: g++ -c -O3 -Wall conftest.cpp >&5
configure:17617: $? = 0
configure:17637: result: yes
configure:17641: checking if g++ supports const_cast<> (required)
configure:17669: g++ -c -O3 -Wall conftest.cpp >&5
conftest.cpp: In function 'int main()':
conftest.cpp:49: warning: unused variable 'c1'
configure:17676: $? = 0
configure:17696: result: yes
configure:17700: checking if g++ supports static_cast<> (required)
configure:17728: g++ -c -O3 -Wall conftest.cpp >&5
conftest.cpp: In function 'int main()':
conftest.cpp:49: warning: unused variable 'c1'
configure:17735: $? = 0
configure:17755: result: yes
configure:17759: checking if g++ supports dynamic_cast<> (required)
configure:17788: g++ -c -O3 -Wall conftest.cpp >&5
conftest.cpp: In function 'int main()':
conftest.cpp:50: warning: unused variable 'c1'
configure:17795: $? = 0
configure:17815: result: yes
configure:17819: checking if g++ supports exception handler (required)
configure:17852: g++ -c -O3 -Wall conftest.cpp >&5
conftest.cpp: In function 'int main()':
conftest.cpp:49: warning: unused variable 'i'
configure:17859: $? = 0
configure:17879: result: yes
configure:17883: checking if g++ supports namespaces (required)
configure:17911: g++ -c -O3 -Wall conftest.cpp >&5
conftest.cpp: In function 'int main()':
conftest.cpp:49: warning: unused variable 'a'
configure:17918: $? = 0
configure:17937: result: yes
configure:17941: checking if g++ supports __thread (optional)
configure:17968: g++ -c -O3 -Wall conftest.cpp >&5
configure:17975: $? = 0
configure:17993: result: yes
configure:18008: checking if g++ supports _SC_NPROCESSORS_CONF (optional)
configure:18036: g++ -c -O3 -Wall conftest.cpp >&5
configure:18043: $? = 0
configure:18061: result: yes
configure:18074: checking if g++ environment provides all required features
configure:18085: result: yes
configure:18231: creating ./config.status
## ---------------------- ##
## Running config.status. ##
## ---------------------- ##
This file was extended by config.status, which was
generated by GNU Autoconf 2.63. Invocation command line was
CONFIG_FILES =
CONFIG_HEADERS =
CONFIG_LINKS =
CONFIG_COMMANDS =
$ ./config.status
on compbio.ucdenver.edu
config.status:1068: creating Makefile
config.status:1068: creating Makefile.msvc
config.status:1068: creating swig/version.h
config.status:1068: creating config.h
config.status:1290: config.h is unchanged
config.status:1342: executing depfiles commands
config.status:1342: executing libtool commands
## ---------------- ##
## 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_CXXCPP_set=
ac_cv_env_CXXCPP_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_getpagesize=yes
ac_cv_func_mmap_fixed_mapped=yes
ac_cv_header_ctype_h=yes
ac_cv_header_dlfcn_h=yes
ac_cv_header_fcntl_h=yes
ac_cv_header_inttypes_h=yes
ac_cv_header_math_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_pthread_h=yes
ac_cv_header_stdc=no
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_mman_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_times_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_unistd_h=yes
ac_cv_host=x86_64-unknown-linux-gnu
ac_cv_lib_m_exp=yes
ac_cv_lib_m_log=yes
ac_cv_lib_m_pow=yes
ac_cv_lib_pthread_pthread_create=yes
ac_cv_lib_pthread_pthread_join=yes
ac_cv_objext=o
ac_cv_path_EGREP='/bin/grep -E'
ac_cv_path_FGREP='/bin/grep -F'
ac_cv_path_GREP=/bin/grep
ac_cv_path_SED=/bin/sed
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_CXXCPP='g++ -E'
ac_cv_prog_ac_ct_AR=ar
ac_cv_prog_ac_ct_CC=gcc
ac_cv_prog_ac_ct_CXX=g++
ac_cv_prog_ac_ct_OBJDUMP=objdump
ac_cv_prog_ac_ct_RANLIB=ranlib
ac_cv_prog_ac_ct_STRIP=strip
ac_cv_prog_cc_c89=
ac_cv_prog_cc_g=yes
ac_cv_prog_cxx_g=yes
ac_cv_prog_gcc_traditional=no
ac_cv_prog_make_make_set=yes
ac_cv_search_strerror='none required'
ac_cv_type_size_t=yes
am_cv_CC_dependencies_compiler_type=gcc3
am_cv_CXX_dependencies_compiler_type=gcc3
lt_cv_deplibs_check_method=pass_all
lt_cv_file_magic_cmd='$MAGIC_CMD'
lt_cv_file_magic_test_file=
lt_cv_ld_reload_flag=-r
lt_cv_nm_interface='BSD nm'
lt_cv_objdir=.libs
lt_cv_path_LD=/usr/bin/ld
lt_cv_path_LDCXX='/usr/bin/ld -m elf_x86_64'
lt_cv_path_NM='/usr/bin/nm -B'
lt_cv_prog_compiler_c_o=yes
lt_cv_prog_compiler_c_o_CXX=yes
lt_cv_prog_compiler_pic_works=yes
lt_cv_prog_compiler_pic_works_CXX=yes
lt_cv_prog_compiler_rtti_exceptions=no
lt_cv_prog_compiler_static_works=no
lt_cv_prog_compiler_static_works_CXX=no
lt_cv_prog_gnu_ld=yes
lt_cv_prog_gnu_ldcxx=yes
lt_cv_sys_global_symbol_pipe='sed -n -e '\''s/^.*[ ]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2 \2/p'\'''
lt_cv_sys_global_symbol_to_c_name_address='sed -n -e '\''s/^: \([^ ]*\) $/ {\"\1\", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW]* \([^ ]*\) \([^ ]*\)$/ {"\2", (void *) \&\2},/p'\'''
lt_cv_sys_global_symbol_to_c_name_address_lib_prefix='sed -n -e '\''s/^: \([^ ]*\) $/ {\"\1\", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW]* \([^ ]*\) \(lib[^ ]*\)$/ {"\2", (void *) \&\2},/p'\'' -e '\''s/^[ABCDGIRSTW]* \([^ ]*\) \([^ ]*\)$/ {"lib\2", (void *) \&\2},/p'\'''
lt_cv_sys_global_symbol_to_cdecl='sed -n -e '\''s/^T .* \(.*\)$/extern int \1();/p'\'' -e '\''s/^[ABCDGIRSTW]* .* \(.*\)$/extern char \1;/p'\'''
lt_cv_sys_max_cmd_len=1966080
## ----------------- ##
## Output variables. ##
## ----------------- ##
ACLOCAL='${SHELL} /home/roederc/work/git/crfpp/missing --run aclocal-1.11'
AMDEPBACKSLASH='\'
AMDEP_FALSE='#'
AMDEP_TRUE=''
AMTAR='${SHELL} /home/roederc/work/git/crfpp/missing --run tar'
AR='ar'
AUTOCONF='${SHELL} /home/roederc/work/git/crfpp/missing --run autoconf'
AUTOHEADER='${SHELL} /home/roederc/work/git/crfpp/missing --run autoheader'
AUTOMAKE='${SHELL} /home/roederc/work/git/crfpp/missing --run automake-1.11'
AWK='gawk'
CC='gcc'
CCDEPMODE='depmode=gcc3'
CFLAGS='-O3 -Wall'
CPP='gcc -E'
CPPFLAGS=''
CXX='g++'
CXXCPP='g++ -E'
CXXDEPMODE='depmode=gcc3'
CXXFLAGS='-O3 -Wall'
CYGPATH_W='echo'
DEFS='-DHAVE_CONFIG_H'
DEPDIR='.deps'
DSYMUTIL=''
DUMPBIN=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/bin/grep -E'
EXEEXT=''
FGREP='/bin/grep -F'
GREP='/bin/grep'
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'
LD='/usr/bin/ld -m elf_x86_64'
LDFLAGS=''
LIBOBJS=''
LIBS='-lpthread -lpthread -lm -lm -lm '
LIBTOOL='$(SHELL) $(top_builddir)/libtool'
LIPO=''
LN_S='ln -s'
LTLIBOBJS=''
MAKEINFO='${SHELL} /home/roederc/work/git/crfpp/missing --run makeinfo'
MKDIR_P='/bin/mkdir -p'
NM='/usr/bin/nm -B'
NMEDIT=''
OBJDUMP='objdump'
OBJEXT='o'
OTOOL64=''
OTOOL=''
PACKAGE='CRF++'
PACKAGE_BUGREPORT=''
PACKAGE_NAME=''
PACKAGE_STRING=''
PACKAGE_TARNAME=''
PACKAGE_VERSION=''
PATH_SEPARATOR=':'
RANLIB='ranlib'
SED='/bin/sed'
SET_MAKE=''
SHELL='/bin/sh'
STRIP='strip'
VERSION='0.58'
ac_ct_CC='gcc'
ac_ct_CXX='g++'
ac_ct_DUMPBIN=''
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='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}'
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} /home/roederc/work/git/crfpp/install-sh'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
lt_ECHO='echo'
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. ##
## ----------- ##
#define PACKAGE_NAME ""
#define PACKAGE_TARNAME ""
#define PACKAGE_VERSION ""
#define PACKAGE_STRING ""
#define PACKAGE_BUGREPORT ""
#define PACKAGE "CRF++"
#define VERSION "0.58"
#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_DLFCN_H 1
#define LT_OBJDIR ".libs/"
#define HAVE_STRING_H 1
#define HAVE_STDLIB_H 1
#define HAVE_UNISTD_H 1
#define HAVE_FCNTL_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_SYS_MMAN_H 1
#define HAVE_SYS_TIMES_H 1
#define HAVE_CTYPE_H 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_MATH_H 1
#define HAVE_PTHREAD_H 1
#define HAVE_LIBM 1
#define HAVE_LIBM 1
#define HAVE_LIBM 1
#define HAVE_LIBPTHREAD 1
#define HAVE_LIBPTHREAD 1
#define HAVE_STDLIB_H 1