This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by meme configure 4.7.0, which was generated by GNU Autoconf 2.67. Invocation command line was $ ./configure --prefix=/home/rmott/meme --with-url=http://meme.nbcr.net/meme ## --------- ## ## 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/genetics/staden/linux-bin PATH: /usr/local/genetics/gos PATH: /home/rmott/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: /home/rmott/BIN PATH: /usr/local/sbin PATH: /usr/local/bin PATH: /usr/sbin PATH: /usr/bin PATH: /sbin PATH: /bin PATH: /usr/games PATH: /home/rmott/public_html/HAPPY/SRC/Linux PATH: ./ PATH: /usr/local/genetics/caftools/bin PATH: /home/rmott/public_html/HAPPY/SRC/Linux PATH: ./ PATH: /usr/local/genetics/caftools/bin ## ----------- ## ## Core tests. ## ## ----------- ## configure:2506: checking for a BSD-compatible install configure:2574: result: /usr/bin/install -c configure:2585: checking whether build environment is sane configure:2635: result: yes configure:2776: checking for a thread-safe mkdir -p configure:2815: result: /bin/mkdir -p configure:2828: checking for gawk configure:2844: found /usr/bin/gawk configure:2855: result: gawk configure:2866: checking whether make sets $(MAKE) configure:2888: result: yes configure:2963: checking how to create a pax tar archive configure:2976: tar --version tar (GNU tar) 1.23 Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later . This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by John Gilmore and Jay Fenlason. configure:2979: $? = 0 configure:3019: tardir=conftest.dir && eval tar --format=posix -chf - "$tardir" >conftest.tar configure:3022: $? = 0 configure:3026: tar -xf - &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:3438: $? = 0 configure:3427: 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:3438: $? = 0 configure:3427: gcc -V >&5 gcc: '-V' option must have argument configure:3438: $? = 1 configure:3427: gcc -qversion >&5 gcc: unrecognized option '-qversion' gcc: no input files configure:3438: $? = 1 configure:3458: checking whether the C compiler works configure:3480: gcc conftest.c >&5 configure:3484: $? = 0 configure:3532: result: yes configure:3535: checking for C compiler default output file name configure:3537: result: a.out configure:3543: checking for suffix of executables configure:3550: gcc -o conftest conftest.c >&5 configure:3554: $? = 0 configure:3576: result: configure:3598: checking whether we are cross compiling configure:3606: gcc -o conftest conftest.c >&5 configure:3610: $? = 0 configure:3617: ./conftest configure:3621: $? = 0 configure:3636: result: no configure:3641: checking for suffix of object files configure:3663: gcc -c conftest.c >&5 configure:3667: $? = 0 configure:3688: result: o configure:3692: checking whether we are using the GNU C compiler configure:3711: gcc -c conftest.c >&5 configure:3711: $? = 0 configure:3720: result: yes configure:3729: checking whether gcc accepts -g configure:3749: gcc -c -g conftest.c >&5 configure:3749: $? = 0 configure:3790: result: yes configure:3807: checking for gcc option to accept ISO C89 configure:3871: gcc -c -g -O2 conftest.c >&5 configure:3871: $? = 0 configure:3884: result: none needed configure:3906: checking dependency style of gcc configure:4016: result: gcc3 configure:4032: checking whether gcc and cc understand -c and -o together configure:4063: gcc -c conftest.c -o conftest2.o >&5 configure:4067: $? = 0 configure:4073: gcc -c conftest.c -o conftest2.o >&5 configure:4077: $? = 0 configure:4088: cc -c conftest.c >&5 configure:4092: $? = 0 configure:4100: cc -c conftest.c -o conftest2.o >&5 configure:4104: $? = 0 configure:4110: cc -c conftest.c -o conftest2.o >&5 configure:4114: $? = 0 configure:4132: result: yes configure:4186: checking build system type configure:4200: result: x86_64-unknown-linux-gnu configure:4220: checking host system type configure:4233: result: x86_64-unknown-linux-gnu configure:4253: checking for a sed that does not truncate output configure:4317: result: /bin/sed configure:4335: checking for grep that handles long lines and -e configure:4393: result: /bin/grep configure:4398: checking for egrep configure:4460: result: /bin/grep -E configure:4465: checking for fgrep configure:4527: result: /bin/grep -F configure:4562: checking for ld used by gcc configure:4629: result: /usr/bin/ld configure:4636: checking if the linker (/usr/bin/ld) is GNU ld configure:4651: result: yes configure:4663: checking for BSD- or MS-compatible name lister (nm) configure:4712: result: /usr/bin/nm -B configure:4830: checking the name lister (/usr/bin/nm -B) interface configure:4837: gcc -c -g -O2 conftest.c >&5 configure:4840: /usr/bin/nm -B "conftest.o" configure:4843: output 0000000000000000 B some_variable configure:4850: result: BSD nm configure:4853: checking whether ln -s works configure:4857: result: yes configure:4865: checking the maximum length of command line arguments configure:4985: result: 1572864 configure:5002: checking whether the shell understands some XSI constructs configure:5012: result: yes configure:5016: checking whether the shell understands "+=" configure:5022: result: yes configure:5057: checking for /usr/bin/ld option to reload object files configure:5064: result: -r configure:5133: checking for objdump configure:5149: found /usr/bin/objdump configure:5160: result: objdump configure:5192: checking how to recognize dependent libraries configure:5388: result: pass_all configure:5448: checking for ar configure:5464: found /usr/bin/ar configure:5475: result: ar configure:5553: checking for strip configure:5569: found /usr/bin/strip configure:5580: result: strip configure:5652: checking for ranlib configure:5668: found /usr/bin/ranlib configure:5679: result: ranlib configure:5769: checking command to parse /usr/bin/nm -B output from gcc object configure:5887: gcc -c -g -O2 conftest.c >&5 configure:5890: $? = 0 configure:5894: /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:5897: $? = 0 configure:5951: gcc -o conftest -g -O2 conftest.c conftstm.o >&5 configure:5954: $? = 0 configure:5992: result: ok configure:6088: gcc -c -g -O2 conftest.c >&5 configure:6091: $? = 0 configure:6801: checking how to run the C preprocessor configure:6832: gcc -E conftest.c configure:6832: $? = 0 configure:6846: gcc -E conftest.c conftest.c:11: fatal error: ac_nonexistent.h: No such file or directory compilation terminated. configure:6846: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | /* end confdefs.h. */ | #include configure:6871: result: gcc -E configure:6891: gcc -E conftest.c configure:6891: $? = 0 configure:6905: gcc -E conftest.c conftest.c:11: fatal error: ac_nonexistent.h: No such file or directory compilation terminated. configure:6905: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | /* end confdefs.h. */ | #include configure:6934: checking for ANSI C header files configure:6954: gcc -c -g -O2 conftest.c >&5 configure:6954: $? = 0 configure:7027: gcc -o conftest -g -O2 conftest.c >&5 configure:7027: $? = 0 configure:7027: ./conftest configure:7027: $? = 0 configure:7038: result: yes configure:7051: checking for sys/types.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for sys/stat.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for stdlib.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for string.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for memory.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for strings.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for inttypes.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for stdint.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7051: checking for unistd.h configure:7051: gcc -c -g -O2 conftest.c >&5 configure:7051: $? = 0 configure:7051: result: yes configure:7065: checking for dlfcn.h configure:7065: gcc -c -g -O2 conftest.c >&5 configure:7065: $? = 0 configure:7065: result: yes configure:7249: checking for objdir configure:7264: result: .libs configure:7556: checking if gcc supports -fno-rtti -fno-exceptions configure:7574: 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 configure:7578: $? = 0 configure:7591: result: no configure:7611: checking for gcc option to produce PIC configure:7883: result: -fPIC -DPIC configure:7895: checking if gcc PIC flag -fPIC -DPIC works configure:7913: gcc -c -g -O2 -fPIC -DPIC -DPIC conftest.c >&5 configure:7917: $? = 0 configure:7930: result: yes configure:7954: checking if gcc static flag -static works configure:7982: result: yes configure:7997: checking if gcc supports -c -o file.o configure:8018: gcc -c -g -O2 -o out/conftest2.o conftest.c >&5 configure:8022: $? = 0 configure:8044: result: yes configure:8052: checking if gcc supports -c -o file.o configure:8099: result: yes configure:8132: checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries configure:9123: result: yes configure:9160: checking whether -lc should be explicitly linked in configure:9165: gcc -c -g -O2 conftest.c >&5 configure:9168: $? = 0 configure:9183: gcc -shared conftest.o -v -Wl,-soname -Wl,conftest -o conftest 2\>\&1 \| /bin/grep -lc \>/dev/null 2\>\&1 configure:9186: $? = 0 configure:9198: result: no configure:9362: checking dynamic linker characteristics configure:9795: gcc -o conftest -g -O2 -Wl,-rpath -Wl,/foo conftest.c >&5 configure:9795: $? = 0 configure:10025: result: GNU/Linux ld.so configure:10127: checking how to hardcode library paths into programs configure:10152: result: immediate configure:10672: checking whether stripping libraries is possible configure:10677: result: yes configure:10712: checking if libtool supports shared libraries configure:10714: result: yes configure:10717: checking whether to build shared libraries configure:10738: result: yes configure:10741: checking whether to build static libraries configure:10745: result: yes configure:10781: checking whether make sets $(MAKE) configure:10803: result: yes configure:10814: checking for ld configure:10844: result: /usr/bin/ld -m elf_x86_64 configure:10854: checking for sed configure:10884: result: /bin/sed configure:10894: checking for mpicc configure:10912: found /usr/bin/mpicc configure:10924: result: /usr/bin/mpicc configure:10934: checking for mail configure:10952: found /usr/bin/mail configure:10964: result: /usr/bin/mail configure:10974: checking for sendmail configure:10993: found /usr/sbin/sendmail configure:11006: result: /usr/sbin/sendmail configure:11016: checking for perl configure:11034: found /usr/local/bin/perl configure:11046: result: /usr/local/bin/perl configure:11056: checking for python configure:11074: found /usr/bin/python configure:11086: result: /usr/bin/python configure:11096: checking for convert configure:11114: found /usr/bin/convert configure:11126: result: /usr/bin/convert configure:11136: checking for gs configure:11154: found /usr/bin/gs configure:11166: result: /usr/bin/gs configure:11176: checking for dot configure:11194: found /usr/bin/dot configure:11206: result: /usr/bin/dot configure:11216: checking for xml2-config configure:11249: result: no configure:11256: checking for xslt-config configure:11289: result: no configure:11296: checking for ant configure:11314: found /usr/bin/ant configure:11326: result: /usr/bin/ant configure:11337: checking for elinks configure:11365: result: no configure:11374: WARNING: Developers only: elinks is required to build meme docs. configure:11385: checking for isnan, sqrt, log, exp, fabs, pow, floor, ceil in -lm configure:11410: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:31: warning: built-in function 'isnan' declared as non-function conftest.c:31: warning: built-in function 'sqrt' declared as non-function conftest.c:31: warning: built-in function 'log' declared as non-function conftest.c:31: warning: built-in function 'exp' declared as non-function conftest.c:31: warning: built-in function 'fabs' declared as non-function conftest.c:31: warning: built-in function 'pow' declared as non-function conftest.c:31: warning: built-in function 'floor' declared as non-function conftest.c:31: warning: conflicting types for built-in function 'ceil' configure:11410: $? = 0 configure:11419: result: yes configure:11433: checking for xmlParseFile in -lxml2 configure:11458: gcc -o conftest -g -O2 conftest.c -lxml2 -lm >&5 /usr/bin/ld: cannot find -lxml2 collect2: ld returned 1 exit status configure:11458: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | /* end confdefs.h. */ | | /* 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 xmlParseFile (); | int | main () | { | return xmlParseFile (); | ; | return 0; | } configure:11467: result: no configure:11477: WARNING: XML2 library not found configure:11481: checking for xsltParseStylesheetFile in -lxslt configure:11506: gcc -o conftest -g -O2 conftest.c -lxslt -lm >&5 /usr/bin/ld: cannot find -lxslt collect2: ld returned 1 exit status configure:11506: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | /* end confdefs.h. */ | | /* 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 xsltParseStylesheetFile (); | int | main () | { | return xsltParseStylesheetFile (); | ; | return 0; | } configure:11515: result: no configure:11525: WARNING: XSLT library not found configure:11529: checking for exsltRegisterAll in -lexslt configure:11554: gcc -o conftest -g -O2 conftest.c -lexslt -lm >&5 /usr/bin/ld: cannot find -lexslt collect2: ld returned 1 exit status configure:11554: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | /* end confdefs.h. */ | | /* 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 exsltRegisterAll (); | int | main () | { | return exsltRegisterAll (); | ; | return 0; | } configure:11563: result: no configure:11573: WARNING: EXSLT library not found configure:11579: checking for ANSI C header files configure:11683: result: yes configure:11691: checking for sys/wait.h that is POSIX.1 compatible configure:11717: gcc -c -g -O2 conftest.c >&5 configure:11717: $? = 0 configure:11724: result: yes configure:11735: checking arpa/inet.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking arpa/inet.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for arpa/inet.h configure:11735: result: yes configure:11735: checking ctype.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking ctype.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for ctype.h configure:11735: result: yes configure:11735: checking fcntl.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking fcntl.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for fcntl.h configure:11735: result: yes configure:11735: checking limits.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking limits.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for limits.h configure:11735: result: yes configure:11735: checking netdb.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking netdb.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for netdb.h configure:11735: result: yes configure:11735: checking netinet/in.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking netinet/in.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for netinet/in.h configure:11735: result: yes configure:11735: checking for stdlib.h configure:11735: result: yes configure:11735: checking for string.h configure:11735: result: yes configure:11735: checking for strings.h configure:11735: result: yes configure:11735: checking sys/socket.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking sys/socket.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for sys/socket.h configure:11735: result: yes configure:11735: checking sys/time.h usability configure:11735: gcc -c -g -O2 conftest.c >&5 configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking sys/time.h presence configure:11735: gcc -E conftest.c configure:11735: $? = 0 configure:11735: result: yes configure:11735: checking for sys/time.h configure:11735: result: yes configure:11735: checking for unistd.h configure:11735: result: yes configure:11747: checking for an ANSI C-conforming const configure:11812: gcc -c -g -O2 conftest.c >&5 configure:11812: $? = 0 configure:11819: result: yes configure:11827: checking for stdbool.h that conforms to C99 configure:11912: gcc -c -g -O2 conftest.c >&5 configure:11912: $? = 0 configure:11919: result: yes configure:11921: checking for _Bool configure:11921: gcc -c -g -O2 conftest.c >&5 configure:11921: $? = 0 configure:11921: gcc -c -g -O2 conftest.c >&5 conftest.c: In function 'main': conftest.c:75: error: expected expression before ')' token configure:11921: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | #define STDC_HEADERS 1 | #define HAVE_SYS_WAIT_H 1 | #define HAVE_ARPA_INET_H 1 | #define HAVE_CTYPE_H 1 | #define HAVE_FCNTL_H 1 | #define HAVE_LIMITS_H 1 | #define HAVE_NETDB_H 1 | #define HAVE_NETINET_IN_H 1 | #define HAVE_STDLIB_H 1 | #define HAVE_STRING_H 1 | #define HAVE_STRINGS_H 1 | #define HAVE_SYS_SOCKET_H 1 | #define HAVE_SYS_TIME_H 1 | #define HAVE_UNISTD_H 1 | /* end confdefs.h. */ | #include | #ifdef HAVE_SYS_TYPES_H | # include | #endif | #ifdef HAVE_SYS_STAT_H | # include | #endif | #ifdef STDC_HEADERS | # include | # include | #else | # ifdef HAVE_STDLIB_H | # include | # endif | #endif | #ifdef HAVE_STRING_H | # if !defined STDC_HEADERS && defined HAVE_MEMORY_H | # include | # endif | # include | #endif | #ifdef HAVE_STRINGS_H | # include | #endif | #ifdef HAVE_INTTYPES_H | # include | #endif | #ifdef HAVE_STDINT_H | # include | #endif | #ifdef HAVE_UNISTD_H | # include | #endif | int | main () | { | if (sizeof ((_Bool))) | return 0; | ; | return 0; | } configure:11921: result: yes configure:11937: checking for pid_t configure:11937: gcc -c -g -O2 conftest.c >&5 configure:11937: $? = 0 configure:11937: gcc -c -g -O2 conftest.c >&5 conftest.c: In function 'main': conftest.c:77: error: expected expression before ')' token configure:11937: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | #define STDC_HEADERS 1 | #define HAVE_SYS_WAIT_H 1 | #define HAVE_ARPA_INET_H 1 | #define HAVE_CTYPE_H 1 | #define HAVE_FCNTL_H 1 | #define HAVE_LIMITS_H 1 | #define HAVE_NETDB_H 1 | #define HAVE_NETINET_IN_H 1 | #define HAVE_STDLIB_H 1 | #define HAVE_STRING_H 1 | #define HAVE_STRINGS_H 1 | #define HAVE_SYS_SOCKET_H 1 | #define HAVE_SYS_TIME_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE__BOOL 1 | #define HAVE_STDBOOL_H 1 | /* end confdefs.h. */ | #include | #ifdef HAVE_SYS_TYPES_H | # include | #endif | #ifdef HAVE_SYS_STAT_H | # include | #endif | #ifdef STDC_HEADERS | # include | # include | #else | # ifdef HAVE_STDLIB_H | # include | # endif | #endif | #ifdef HAVE_STRING_H | # if !defined STDC_HEADERS && defined HAVE_MEMORY_H | # include | # endif | # include | #endif | #ifdef HAVE_STRINGS_H | # include | #endif | #ifdef HAVE_INTTYPES_H | # include | #endif | #ifdef HAVE_STDINT_H | # include | #endif | #ifdef HAVE_UNISTD_H | # include | #endif | int | main () | { | if (sizeof ((pid_t))) | return 0; | ; | return 0; | } configure:11937: result: yes configure:11948: checking for size_t configure:11948: gcc -c -g -O2 conftest.c >&5 configure:11948: $? = 0 configure:11948: gcc -c -g -O2 conftest.c >&5 conftest.c: In function 'main': conftest.c:77: error: expected expression before ')' token configure:11948: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | #define STDC_HEADERS 1 | #define HAVE_SYS_WAIT_H 1 | #define HAVE_ARPA_INET_H 1 | #define HAVE_CTYPE_H 1 | #define HAVE_FCNTL_H 1 | #define HAVE_LIMITS_H 1 | #define HAVE_NETDB_H 1 | #define HAVE_NETINET_IN_H 1 | #define HAVE_STDLIB_H 1 | #define HAVE_STRING_H 1 | #define HAVE_STRINGS_H 1 | #define HAVE_SYS_SOCKET_H 1 | #define HAVE_SYS_TIME_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE__BOOL 1 | #define HAVE_STDBOOL_H 1 | /* end confdefs.h. */ | #include | #ifdef HAVE_SYS_TYPES_H | # include | #endif | #ifdef HAVE_SYS_STAT_H | # include | #endif | #ifdef STDC_HEADERS | # include | # include | #else | # ifdef HAVE_STDLIB_H | # include | # endif | #endif | #ifdef HAVE_STRING_H | # if !defined STDC_HEADERS && defined HAVE_MEMORY_H | # include | # endif | # include | #endif | #ifdef HAVE_STRINGS_H | # include | #endif | #ifdef HAVE_INTTYPES_H | # include | #endif | #ifdef HAVE_STDINT_H | # include | #endif | #ifdef HAVE_UNISTD_H | # include | #endif | int | main () | { | if (sizeof ((size_t))) | return 0; | ; | return 0; | } configure:11948: result: yes configure:11963: checking vfork.h usability configure:11963: gcc -c -g -O2 conftest.c >&5 conftest.c:74: fatal error: vfork.h: No such file or directory compilation terminated. configure:11963: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | #define STDC_HEADERS 1 | #define HAVE_SYS_WAIT_H 1 | #define HAVE_ARPA_INET_H 1 | #define HAVE_CTYPE_H 1 | #define HAVE_FCNTL_H 1 | #define HAVE_LIMITS_H 1 | #define HAVE_NETDB_H 1 | #define HAVE_NETINET_IN_H 1 | #define HAVE_STDLIB_H 1 | #define HAVE_STRING_H 1 | #define HAVE_STRINGS_H 1 | #define HAVE_SYS_SOCKET_H 1 | #define HAVE_SYS_TIME_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE__BOOL 1 | #define HAVE_STDBOOL_H 1 | /* end confdefs.h. */ | #include | #ifdef HAVE_SYS_TYPES_H | # include | #endif | #ifdef HAVE_SYS_STAT_H | # include | #endif | #ifdef STDC_HEADERS | # include | # include | #else | # ifdef HAVE_STDLIB_H | # include | # endif | #endif | #ifdef HAVE_STRING_H | # if !defined STDC_HEADERS && defined HAVE_MEMORY_H | # include | # endif | # include | #endif | #ifdef HAVE_STRINGS_H | # include | #endif | #ifdef HAVE_INTTYPES_H | # include | #endif | #ifdef HAVE_STDINT_H | # include | #endif | #ifdef HAVE_UNISTD_H | # include | #endif | #include configure:11963: result: no configure:11963: checking vfork.h presence configure:11963: gcc -E conftest.c conftest.c:41: fatal error: vfork.h: No such file or directory compilation terminated. configure:11963: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | #define STDC_HEADERS 1 | #define HAVE_SYS_WAIT_H 1 | #define HAVE_ARPA_INET_H 1 | #define HAVE_CTYPE_H 1 | #define HAVE_FCNTL_H 1 | #define HAVE_LIMITS_H 1 | #define HAVE_NETDB_H 1 | #define HAVE_NETINET_IN_H 1 | #define HAVE_STDLIB_H 1 | #define HAVE_STRING_H 1 | #define HAVE_STRINGS_H 1 | #define HAVE_SYS_SOCKET_H 1 | #define HAVE_SYS_TIME_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE__BOOL 1 | #define HAVE_STDBOOL_H 1 | /* end confdefs.h. */ | #include configure:11963: result: no configure:11963: checking for vfork.h configure:11963: result: no configure:11976: checking for fork configure:11976: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:64: warning: conflicting types for built-in function 'fork' configure:11976: $? = 0 configure:11976: result: yes configure:11976: checking for vfork configure:11976: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:11976: $? = 0 configure:11976: result: yes configure:11986: checking for working fork configure:12008: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12008: $? = 0 configure:12008: ./conftest configure:12008: $? = 0 configure:12018: result: yes configure:12039: checking for working vfork configure:12149: result: yes configure:12176: checking for stdlib.h configure:12176: result: yes configure:12186: checking for GNU libc compatible malloc configure:12210: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12210: $? = 0 configure:12210: ./conftest configure:12210: $? = 0 configure:12220: result: yes configure:12243: checking for stdlib.h configure:12243: result: yes configure:12253: checking for GNU libc compatible realloc configure:12277: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12277: $? = 0 configure:12277: ./conftest configure:12277: $? = 0 configure:12287: result: yes configure:12308: checking return type of signal handlers configure:12326: gcc -c -g -O2 conftest.c >&5 conftest.c: In function 'main': conftest.c:55: error: void value not ignored as it ought to be configure:12326: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | #define STDC_HEADERS 1 | #define HAVE_SYS_WAIT_H 1 | #define HAVE_ARPA_INET_H 1 | #define HAVE_CTYPE_H 1 | #define HAVE_FCNTL_H 1 | #define HAVE_LIMITS_H 1 | #define HAVE_NETDB_H 1 | #define HAVE_NETINET_IN_H 1 | #define HAVE_STDLIB_H 1 | #define HAVE_STRING_H 1 | #define HAVE_STRINGS_H 1 | #define HAVE_SYS_SOCKET_H 1 | #define HAVE_SYS_TIME_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE__BOOL 1 | #define HAVE_STDBOOL_H 1 | #define HAVE_FORK 1 | #define HAVE_VFORK 1 | #define HAVE_WORKING_VFORK 1 | #define HAVE_WORKING_FORK 1 | #define HAVE_STDLIB_H 1 | #define HAVE_MALLOC 1 | #define HAVE_STDLIB_H 1 | #define HAVE_REALLOC 1 | /* end confdefs.h. */ | #include | #include | | int | main () | { | return *(signal (0, 0)) (0) == 1; | ; | return 0; | } configure:12333: result: void configure:12341: checking whether lstat correctly handles trailing slash configure:12367: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12367: $? = 0 configure:12367: ./conftest configure:12367: $? = 0 configure:12384: result: yes configure:12403: checking whether stat accepts an empty string configure:12423: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12423: $? = 0 configure:12423: ./conftest configure:12423: $? = 0 configure:12433: result: no configure:12452: checking for floor configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:74: warning: conflicting types for built-in function 'floor' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for getcwd configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for gethostbyname configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for isascii configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:77: warning: conflicting types for built-in function 'isascii' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for memset configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:78: warning: conflicting types for built-in function 'memset' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for pow configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:79: warning: conflicting types for built-in function 'pow' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for rint configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:80: warning: conflicting types for built-in function 'rint' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for socket configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for sqrt configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:82: warning: conflicting types for built-in function 'sqrt' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for strchr configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:83: warning: conflicting types for built-in function 'strchr' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for strcspn configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:84: warning: conflicting types for built-in function 'strcspn' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for strdup configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:85: warning: conflicting types for built-in function 'strdup' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for strspn configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:86: warning: conflicting types for built-in function 'strspn' configure:12452: $? = 0 configure:12452: result: yes configure:12452: checking for strstr configure:12452: gcc -o conftest -g -O2 conftest.c -lm >&5 conftest.c:87: warning: conflicting types for built-in function 'strstr' configure:12452: $? = 0 configure:12452: result: yes configure:12463: checking for strlcpy configure:12463: gcc -o conftest -g -O2 conftest.c -lm >&5 /tmp/cc1orIER.o: In function `main': /data/MEME/meme_4.7.0/conftest.c:99: undefined reference to `strlcpy' collect2: ld returned 1 exit status configure:12463: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "meme" | #define PACKAGE_TARNAME "meme" | #define PACKAGE_VERSION "4.7.0" | #define PACKAGE_STRING "meme 4.7.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "meme" | #define VERSION "4.7.0" | #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_DLFCN_H 1 | #define LT_OBJDIR ".libs/" | #define HOSTNAME "mus" | #define HAVE_LIBM 1 | #define STDC_HEADERS 1 | #define HAVE_SYS_WAIT_H 1 | #define HAVE_ARPA_INET_H 1 | #define HAVE_CTYPE_H 1 | #define HAVE_FCNTL_H 1 | #define HAVE_LIMITS_H 1 | #define HAVE_NETDB_H 1 | #define HAVE_NETINET_IN_H 1 | #define HAVE_STDLIB_H 1 | #define HAVE_STRING_H 1 | #define HAVE_STRINGS_H 1 | #define HAVE_SYS_SOCKET_H 1 | #define HAVE_SYS_TIME_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE__BOOL 1 | #define HAVE_STDBOOL_H 1 | #define HAVE_FORK 1 | #define HAVE_VFORK 1 | #define HAVE_WORKING_VFORK 1 | #define HAVE_WORKING_FORK 1 | #define HAVE_STDLIB_H 1 | #define HAVE_MALLOC 1 | #define HAVE_STDLIB_H 1 | #define HAVE_REALLOC 1 | #define RETSIGTYPE void | #define LSTAT_FOLLOWS_SLASHED_SYMLINK 1 | #define HAVE_FLOOR 1 | #define HAVE_GETCWD 1 | #define HAVE_GETHOSTBYNAME 1 | #define HAVE_ISASCII 1 | #define HAVE_MEMSET 1 | #define HAVE_POW 1 | #define HAVE_RINT 1 | #define HAVE_SOCKET 1 | #define HAVE_SQRT 1 | #define HAVE_STRCHR 1 | #define HAVE_STRCSPN 1 | #define HAVE_STRDUP 1 | #define HAVE_STRSPN 1 | #define HAVE_STRSTR 1 | /* end confdefs.h. */ | /* Define strlcpy to an innocuous variant, in case declares strlcpy. | For example, HP-UX 11i declares gettimeofday. */ | #define strlcpy innocuous_strlcpy | | /* System header to define __stub macros and hopefully few prototypes, | which can conflict with char strlcpy (); below. | Prefer to if __STDC__ is defined, since | exists even on freestanding compilers. */ | | #ifdef __STDC__ | # include | #else | # include | #endif | | #undef strlcpy | | /* 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 strlcpy (); | /* 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_strlcpy || defined __stub___strlcpy | choke me | #endif | | int | main () | { | return strlcpy (); | ; | return 0; | } configure:12463: result: no configure:12513: WARNING: libxml2 library not found configure:12528: WARNING: libxslt library not found configure:12796: checking for MPI_Comm_rank in -lmpi configure:12821: gcc -o conftest -Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ conftest.c -lmpi -lm >&5 configure:12821: $? = 0 configure:12830: result: yes configure:12887: checking whether to enable OpenMP multithreading support configure:12901: result: no configure:13078: checking for perl configure:13108: result: /usr/local/bin/perl configure:13132: checking for python configure:13162: result: /usr/bin/python configure:13186: checking for convert configure:13216: result: /usr/bin/convert configure:13241: checking for gs configure:13271: result: /usr/bin/gs configure:13295: checking for dot configure:13325: result: /usr/bin/dot configure:13555: creating ./config.status ## ---------------------- ## ## Running config.status. ## ## ---------------------- ## This file was extended by meme config.status 4.7.0, 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:1226: creating Makefile config.status:1226: creating doc/Makefile config.status:1226: creating doc/examples/Makefile config.status:1226: creating doc/examples/compute_prior_dist_example_output_files/Makefile config.status:1226: creating doc/examples/fimo_example_output_files/Makefile config.status:1226: creating doc/examples/glam2_example_output_files/Makefile config.status:1226: creating doc/examples/glam2scan_example_output_files/Makefile config.status:1226: creating doc/examples/mast_example_output_files/Makefile config.status:1226: creating doc/examples/mcast_example_output_files/Makefile config.status:1226: creating doc/examples/meme_example_output_files/Makefile config.status:1226: creating doc/examples/sample_opal_scripts/Makefile config.status:1226: creating doc/examples/tomtom_example_output_files/Makefile config.status:1226: creating doc/images/Makefile config.status:1226: creating etc/Makefile config.status:1226: creating src/filters/Makefile config.status:1226: creating src/filters/purge/Makefile config.status:1226: creating src/filters/dust/Makefile config.status:1226: creating scripts/Makefile config.status:1226: creating src/Makefile config.status:1226: creating src/libxml2/Makefile config.status:1226: creating src/libxml2/include/Makefile config.status:1226: creating src/libxml2/include/libxml/Makefile config.status:1226: creating src/libxslt/Makefile config.status:1226: creating src/libexslt/Makefile config.status:1226: creating src/parallel/Makefile config.status:1226: creating tests/Makefile config.status:1226: creating tests/centrimo/Makefile config.status:1226: creating tests/clustalw2fasta/Makefile config.status:1226: creating tests/common/Makefile config.status:1226: creating tests/draw-mhmm/Makefile config.status:1226: creating tests/dreme/Makefile config.status:1226: creating tests/fasta-center/Makefile config.status:1226: creating tests/fimo/Makefile config.status:1226: creating tests/gomo/Makefile config.status:1226: creating tests/mast/Makefile config.status:1226: creating tests/mcast/Makefile config.status:1226: creating tests/meme/Makefile config.status:1226: creating tests/mhmm/Makefile config.status:1226: creating tests/mhmms/Makefile config.status:1226: creating tests/motiph/Makefile config.status:1226: creating tests/psp-gen/Makefile config.status:1226: creating tests/qvalue/Makefile config.status:1226: creating tests/scaffold/Makefile config.status:1226: creating tests/spamo/Makefile config.status:1226: creating tests/tomtom/Makefile config.status:1226: creating tests/web/Makefile config.status:1226: creating website/Makefile config.status:1226: creating website/cgi-bin/Makefile config.status:1226: creating website/html/Makefile config.status:1226: creating website/scripts/Makefile config.status:1226: creating website/images/Makefile config.status:1226: creating config.h config.status:1454: executing depfiles commands config.status:1454: executing libtool commands ## ---------------- ## ## Cache variables. ## ## ---------------- ## ac_cv_build=x86_64-unknown-linux-gnu ac_cv_c_compiler_gnu=yes ac_cv_c_const=yes 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_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_floor=yes ac_cv_func_fork=yes ac_cv_func_fork_works=yes ac_cv_func_getcwd=yes ac_cv_func_gethostbyname=yes ac_cv_func_isascii=yes ac_cv_func_lstat_dereferences_slashed_symlink=yes ac_cv_func_malloc_0_nonnull=yes ac_cv_func_memset=yes ac_cv_func_pow=yes ac_cv_func_realloc_0_nonnull=yes ac_cv_func_rint=yes ac_cv_func_socket=yes ac_cv_func_sqrt=yes ac_cv_func_stat_empty_string_bug=no ac_cv_func_strchr=yes ac_cv_func_strcspn=yes ac_cv_func_strdup=yes ac_cv_func_strlcpy=no ac_cv_func_strspn=yes ac_cv_func_strstr=yes ac_cv_func_vfork=yes ac_cv_func_vfork_works=yes ac_cv_header_arpa_inet_h=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_limits_h=yes ac_cv_header_memory_h=yes ac_cv_header_netdb_h=yes ac_cv_header_netinet_in_h=yes ac_cv_header_stdbool_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_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_sys_wait_h=yes ac_cv_header_unistd_h=yes ac_cv_header_vfork_h=no ac_cv_host=x86_64-unknown-linux-gnu ac_cv_lib_exslt_exsltRegisterAll=no ac_cv_lib_m_isnan__sqrt__log__exp__fabs__pow__floor__ceil=yes ac_cv_lib_mpi_MPI_Comm_rank=yes ac_cv_lib_xml2_xmlParseFile=no ac_cv_lib_xslt_xsltParseStylesheetFile=no ac_cv_objext=o ac_cv_path_ANT=/usr/bin/ant ac_cv_path_CONVERT=/usr/bin/convert ac_cv_path_DOT=/usr/bin/dot ac_cv_path_EGREP='/bin/grep -E' ac_cv_path_FGREP='/bin/grep -F' ac_cv_path_GHOSTSCRIPT=/usr/bin/gs ac_cv_path_GREP=/bin/grep ac_cv_path_LD='/usr/bin/ld -m elf_x86_64' ac_cv_path_MAIL=/usr/bin/mail ac_cv_path_MPICC=/usr/bin/mpicc ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PYTHON=/usr/bin/python ac_cv_path_SED=/bin/sed ac_cv_path_SENDMAIL=/usr/sbin/sendmail 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_HAVE_ELINKS=no ac_cv_prog_ac_ct_AR=ar ac_cv_prog_ac_ct_CC=gcc 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_cc_gcc_c_o=yes ac_cv_prog_make_make_set=yes ac_cv_type__Bool=yes ac_cv_type_pid_t=yes ac_cv_type_signal=void ac_cv_type_size_t=yes am_cv_CC_dependencies_compiler_type=gcc3 am_cv_prog_tar_pax=gnutar 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_NM='/usr/bin/nm -B' lt_cv_prog_compiler_c_o=yes lt_cv_prog_compiler_pic_works=yes lt_cv_prog_compiler_rtti_exceptions=no lt_cv_prog_compiler_static_works=yes lt_cv_prog_gnu_ld=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]* .* \(.*\)$/extern char \1;/p'\''' lt_cv_sys_max_cmd_len=1572864 ## ----------------- ## ## Output variables. ## ## ----------------- ## ACLOCAL='${SHELL} /data/MEME/meme_4.7.0/config/missing --run aclocal-1.11' AMDEPBACKSLASH='\' AMDEP_FALSE='#' AMDEP_TRUE='' AMTAR='${SHELL} /data/MEME/meme_4.7.0/config/missing --run tar' ANT='/usr/bin/ant' AR='ar' AUTOCONF='${SHELL} /data/MEME/meme_4.7.0/config/missing --run autoconf' AUTOHEADER='${SHELL} /data/MEME/meme_4.7.0/config/missing --run autoheader' AUTOMAKE='${SHELL} /data/MEME/meme_4.7.0/config/missing --run automake-1.11' AWK='gawk' BLOCKS_URL='http://blocks.fhcrc.org/blocks-bin/process_blocks.pl' BUILD_LIBXML2_FALSE='#' BUILD_LIBXML2_TRUE='' BUILD_LIBXSLT_FALSE='#' BUILD_LIBXSLT_TRUE='' CC='gcc' CCDEPMODE='depmode=gcc3' CFLAGS='-Wall -Wno-unused -DUNIX -D__USE_FIXED_PROTOTYPES__ -O3' CONTACT='@mus' CONVERT='/usr/bin/convert' CPP='gcc -E' CPPFLAGS='' CYGPATH_W='echo' DEBUG_FLAGS='' DEFS='-DHAVE_CONFIG_H' DEPDIR='.deps' DOT='/usr/bin/dot' DSYMUTIL='' DUMPBIN='' ECHO_C='' ECHO_N='-n' ECHO_T='' EGREP='/bin/grep -E' EXEEXT='' FGREP='/bin/grep -F' GHOSTSCRIPT='/usr/bin/gs' GOSERVER_URL='http://amigo.geneontology.org/cgi-bin/amigo/' GREP='/bin/grep' HAVE_ELINKS='no' HOSTNAME='mus' INSTALL_DATA='${INSTALL} -m 644' INSTALL_PROGRAM='${INSTALL}' INSTALL_SCRIPT='${INSTALL}' INSTALL_STRIP_PROGRAM='$(install_sh) -c -s' LAMBIN='' LD='/usr/bin/ld -m elf_x86_64' LDFLAGS='' LIBEXSLT_CFLAGS='-I${top_srcdir}/src/libexslt' LIBEXSLT_LIBS='${top_builddir}/src/libexslt/libexslt.la' LIBOBJS='' LIBS='-lmpi -lm ' LIBTOOL='$(SHELL) $(top_builddir)/libtool' LIBXML2_CFLAGS='-I${top_srcdir}/src/libxml2/include' LIBXML2_LIBS='${top_builddir}/src/libxml2/libxml2.la' LIBXSLT_CFLAGS='-I${top_srcdir}/src/' LIBXSLT_LIBS='${top_builddir}/src/libxslt/libxslt.la' LIPO='' LN_S='ln -s' LTLIBOBJS='' MACHID='linux' MAIL='/usr/bin/mail' MAKEINFO='${SHELL} /data/MEME/meme_4.7.0/config/missing --run makeinfo' MAST_PORT='' MAXTIME='7200' MEME_DB='${prefix}/db' MEME_DIRECTORY='${prefix}' MEME_LOGS='${prefix}/LOGS' MEME_PORT='' MEME_TEMP='' METAMEME_EXTERNAL_FALSE='#' METAMEME_EXTERNAL_TRUE='' MKDIR_P='/bin/mkdir -p' MPICC='/usr/bin/mpicc' MPIFLAGS='-DPARALLEL ' MPIINC='-DMPI -I/usr/include' MPILIBDIR='/usr/lib' MPITYPE='mpich' MPI_CMD='/usr/bin/mpirun -np' NM='/usr/bin/nm -B' NMEDIT='' OBJDUMP='objdump' OBJEXT='o' OPAL_URL='no' OPAL_XML='no' OPT_FLAGS='-O3' OTOOL64='' OTOOL='' PACKAGE='meme' PACKAGE_BUGREPORT='' PACKAGE_NAME='meme' PACKAGE_STRING='meme 4.7.0' PACKAGE_TARNAME='meme' PACKAGE_URL='' PACKAGE_VERSION='4.7.0' PARALLEL_FALSE='#' PARALLEL_IS_LAM_FALSE='' PARALLEL_IS_LAM_TRUE='#' PARALLEL_TRUE='' PATH_SEPARATOR=':' PERL='/usr/local/bin/perl' PYTHON='/usr/bin/python' RANLIB='ranlib' SED='/bin/sed' SENDMAIL='/usr/sbin/sendmail' SET_MAKE='' SHELL='/bin/bash' STRIP='strip' URL='http://meme.nbcr.net/meme' VERSION='4.7.0' WANT_STRLCPY_FALSE='#' WANT_STRLCPY_TRUE='' WEBDIR='${prefix}/web' WEBSERVICE='' WEBSERVICE_FALSE='' WEBSERVICE_TRUE='#' WEBSITE_FALSE='' WEBSITE_TRUE='#' XML2_CONFIG='' XSLT_CONFIG='' ac_ct_CC='gcc' ac_ct_DUMPBIN='' am__EXEEXT_FALSE='' am__EXEEXT_TRUE='#' am__fastdepCC_FALSE='#' am__fastdepCC_TRUE='' am__include='include' am__isrc='' am__leading_dot='.' am__quote='' am__tar='tar --format=posix -chf - "$$tardir"' am__untar='tar -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='${SHELL} /data/MEME/meme_4.7.0/config/install-sh' libdir='${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='${docdir}' prefix='/home/rmott/meme' program_transform_name='s,x,x,' psdir='${docdir}' sbindir='${exec_prefix}/sbin' sharedstatedir='${prefix}/com' sysconfdir='${prefix}/etc' target_alias='' ## ----------- ## ## confdefs.h. ## ## ----------- ## /* confdefs.h */ #define PACKAGE_NAME "meme" #define PACKAGE_TARNAME "meme" #define PACKAGE_VERSION "4.7.0" #define PACKAGE_STRING "meme 4.7.0" #define PACKAGE_BUGREPORT "" #define PACKAGE_URL "" #define PACKAGE "meme" #define VERSION "4.7.0" #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_DLFCN_H 1 #define LT_OBJDIR ".libs/" #define HOSTNAME "mus" #define HAVE_LIBM 1 #define STDC_HEADERS 1 #define HAVE_SYS_WAIT_H 1 #define HAVE_ARPA_INET_H 1 #define HAVE_CTYPE_H 1 #define HAVE_FCNTL_H 1 #define HAVE_LIMITS_H 1 #define HAVE_NETDB_H 1 #define HAVE_NETINET_IN_H 1 #define HAVE_STDLIB_H 1 #define HAVE_STRING_H 1 #define HAVE_STRINGS_H 1 #define HAVE_SYS_SOCKET_H 1 #define HAVE_SYS_TIME_H 1 #define HAVE_UNISTD_H 1 #define HAVE__BOOL 1 #define HAVE_STDBOOL_H 1 #define HAVE_FORK 1 #define HAVE_VFORK 1 #define HAVE_WORKING_VFORK 1 #define HAVE_WORKING_FORK 1 #define HAVE_STDLIB_H 1 #define HAVE_MALLOC 1 #define HAVE_STDLIB_H 1 #define HAVE_REALLOC 1 #define RETSIGTYPE void #define LSTAT_FOLLOWS_SLASHED_SYMLINK 1 #define HAVE_FLOOR 1 #define HAVE_GETCWD 1 #define HAVE_GETHOSTBYNAME 1 #define HAVE_ISASCII 1 #define HAVE_MEMSET 1 #define HAVE_POW 1 #define HAVE_RINT 1 #define HAVE_SOCKET 1 #define HAVE_SQRT 1 #define HAVE_STRCHR 1 #define HAVE_STRCSPN 1 #define HAVE_STRDUP 1 #define HAVE_STRSPN 1 #define HAVE_STRSTR 1 #define Linux /**/ #define HAVE_LIBMPI 1 #define PERL "/usr/local/bin/perl" #define PYTHON "/usr/bin/python" #define CONVERT_PATH "/usr/bin/convert" #define GHOSTSCRIPT_PATH "/usr/bin/gs" #define DOT_PATH "" configure: exit 0