This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by mpiBLAST configure 1.6.0, which was generated by GNU Autoconf 2.63. Invocation command line was $ ./configure --prefix=/opt/mpiblast-1.6.0 --with-mpi=/opt/mpich-install ## --------- ## ## Platform. ## ## --------- ## hostname = example.com uname -m = x86_64 uname -r = 2.6.32-642.11.1.el6.x86_64 uname -s = Linux uname -v = #1 SMP Fri Nov 18 19:25:05 UTC 2016 /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/share/gridengine/bin/lx26-amd64 PATH: /usr/share/gridengine/bin/lx26-amd64 PATH: /usr/lib64/qt-3.3/bin PATH: /usr/NX/bin PATH: /usr/local/sbin PATH: /usr/local/bin PATH: /sbin PATH: /bin PATH: /usr/sbin PATH: /usr/bin PATH: /opt/bin PATH: /opt/maker/bin PATH: /opt/tools/ PATH: /opt/tools/amos-3.1.0 PATH: /opt/mpich-install/bin PATH: /opt/pssc/bin PATH: /opt/torque/bin PATH: /opt/torque/sbin PATH: /opt/bin ## ----------- ## ## Core tests. ## ## ----------- ## configure:1907: checking for a BSD-compatible install configure:1975: result: /usr/bin/install -c configure:1986: checking whether build environment is sane configure:2046: result: yes configure:2187: checking for a thread-safe mkdir -p configure:2226: result: /bin/mkdir -p configure:2239: checking for gawk configure:2255: found /bin/gawk configure:2266: result: gawk configure:2277: checking whether make sets $(MAKE) configure:2299: result: yes configure:2388: checking build system type configure:2406: result: x86_64-unknown-linux-gnu configure:2428: checking host system type configure:2443: result: x86_64-unknown-linux-gnu configure:2465: checking target system type configure:2480: result: x86_64-unknown-linux-gnu configure:2574: checking whether to enable maintainer-specific portions of Makefiles configure:2583: result: no configure:2619: checking for mpicc configure:2638: found /opt/mpich-install/bin/mpicc configure:2650: result: /opt/mpich-install/bin/mpicc configure:2665: checking for mpicxx configure:2684: found /opt/mpich-install/bin/mpicxx configure:2696: result: /opt/mpich-install/bin/mpicxx configure:2832: checking for C compiler version configure:2840: /opt/mpich-install/bin/mpicc --version >&5 gcc (GCC) 4.4.7 20120313 (Red Hat 4.4.7-17) 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:2844: $? = 0 configure:2851: /opt/mpich-install/bin/mpicc -v >&5 mpicc for MPICH version 3.2 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 4.4.7-17) (GCC) configure:2855: $? = 0 configure:2862: /opt/mpich-install/bin/mpicc -V >&5 gcc: error trying to exec 'x86_64-redhat-linux-gcc--I/opt/mpich-install/include': execvp: No such file or directory configure:2866: $? = 0 configure:2889: checking for C compiler default output file name configure:2911: /opt/mpich-install/bin/mpicc conftest.c >&5 configure:2915: $? = 0 configure:2953: result: a.out configure:2972: checking whether the C compiler works configure:2982: ./a.out configure:2986: $? = 0 configure:3005: result: yes configure:3012: checking whether we are cross compiling configure:3014: result: no configure:3017: checking for suffix of executables configure:3024: /opt/mpich-install/bin/mpicc -o conftest conftest.c >&5 configure:3028: $? = 0 configure:3054: result: configure:3060: checking for suffix of object files configure:3086: /opt/mpich-install/bin/mpicc -c conftest.c >&5 configure:3090: $? = 0 configure:3115: result: o configure:3119: checking whether we are using the GNU C compiler configure:3148: /opt/mpich-install/bin/mpicc -c conftest.c >&5 configure:3155: $? = 0 configure:3172: result: yes configure:3181: checking whether /opt/mpich-install/bin/mpicc accepts -g configure:3211: /opt/mpich-install/bin/mpicc -c -g conftest.c >&5 configure:3218: $? = 0 configure:3319: result: yes configure:3336: checking for /opt/mpich-install/bin/mpicc option to accept ISO C89 configure:3410: /opt/mpich-install/bin/mpicc -c -g -O2 conftest.c >&5 configure:3417: $? = 0 configure:3440: result: none needed configure:3469: checking for style of include used by make configure:3497: result: GNU configure:3522: checking dependency style of /opt/mpich-install/bin/mpicc configure:3632: result: gcc3 configure:3649: checking dependency style of /opt/mpich-install/bin/mpicc configure:3759: result: gcc3 configure:3886: checking for C++ compiler version configure:3894: /opt/mpich-install/bin/mpicxx --version >&5 g++ (GCC) 4.4.7 20120313 (Red Hat 4.4.7-17) 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:3898: $? = 0 configure:3905: /opt/mpich-install/bin/mpicxx -v >&5 mpicxx for MPICH version 3.2 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 4.4.7-17) (GCC) configure:3909: $? = 0 configure:3916: /opt/mpich-install/bin/mpicxx -V >&5 g++: error trying to exec 'x86_64-redhat-linux-gcc--I/opt/mpich-install/include': execvp: No such file or directory configure:3920: $? = 0 configure:3923: checking whether we are using the GNU C++ compiler configure:3952: /opt/mpich-install/bin/mpicxx -c conftest.cpp >&5 configure:3959: $? = 0 configure:3976: result: yes configure:3985: checking whether /opt/mpich-install/bin/mpicxx accepts -g configure:4015: /opt/mpich-install/bin/mpicxx -c -g conftest.cpp >&5 configure:4022: $? = 0 configure:4123: result: yes configure:4148: checking dependency style of /opt/mpich-install/bin/mpicxx configure:4258: result: gcc3 configure:4275: checking dependency style of /opt/mpich-install/bin/mpicxx configure:4385: result: gcc3 configure:4443: checking for ranlib configure:4459: found /usr/bin/ranlib configure:4470: result: ranlib configure:4506: checking for a BSD-compatible install configure:4574: result: /usr/bin/install -c configure:4585: checking whether ln -s works configure:4589: result: yes configure:4598: checking checking for MPI I/O support configure:4625: /opt/mpich-install/bin/mpicc -c -g -O2 conftest.c >&5 configure:4632: $? = 0 configure:4646: result: yes configure:4686: checking whether dlloader is enabled configure:4695: result: yes configure:4709: checking whether multi-threading is enabled configure:4713: result: yes configure:4725: checking how to run the C preprocessor configure:4765: /opt/mpich-install/bin/mpicc -E conftest.c configure:4772: $? = 0 configure:4803: /opt/mpich-install/bin/mpicc -E conftest.c conftest.c:13:28: error: ac_nonexistent.h: No such file or directory configure:4810: $? = 1 configure: failed program was: | /* confdefs.h. */ | #define PACKAGE_NAME "mpiBLAST" | #define PACKAGE_TARNAME "mpiblast" | #define PACKAGE_VERSION "1.6.0" | #define PACKAGE_STRING "mpiBLAST 1.6.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE "mpiblast" | #define VERSION "1.6.0" | #define PACKAGE "mpiblast" | #define VERSION "1.6.0" | #define HAVE_DLL 1 | /* end confdefs.h. */ | #include configure:4843: result: /opt/mpich-install/bin/mpicc -E configure:4872: /opt/mpich-install/bin/mpicc -E conftest.c configure:4879: $? = 0 configure:4910: /opt/mpich-install/bin/mpicc -E conftest.c conftest.c:13:28: error: ac_nonexistent.h: No such file or directory configure:4917: $? = 1 configure: failed program was: | /* confdefs.h. */ | #define PACKAGE_NAME "mpiBLAST" | #define PACKAGE_TARNAME "mpiblast" | #define PACKAGE_VERSION "1.6.0" | #define PACKAGE_STRING "mpiBLAST 1.6.0" | #define PACKAGE_BUGREPORT "" | #define PACKAGE "mpiblast" | #define VERSION "1.6.0" | #define PACKAGE "mpiblast" | #define VERSION "1.6.0" | #define HAVE_DLL 1 | /* end confdefs.h. */ | #include configure:4957: checking for grep that handles long lines and -e configure:5017: result: /bin/grep configure:5022: checking for egrep configure:5086: result: /bin/grep -E configure:5091: checking for ANSI C header files configure:5121: /opt/mpich-install/bin/mpicc -c -g -O2 conftest.c >&5 configure:5128: $? = 0 configure:5227: /opt/mpich-install/bin/mpicc -o conftest -g -O2 conftest.c >&5 configure:5231: $? = 0 configure:5237: ./conftest configure:5241: $? = 0 configure:5259: result: yes configure:5277: checking for special C compiler options needed for large files configure:5372: result: no configure:5378: checking for _FILE_OFFSET_BITS value needed for large files configure:5413: /opt/mpich-install/bin/mpicc -c -g -O2 conftest.c >&5 configure:5420: $? = 0 configure:5489: result: no configure:5627: checking for getopt_long configure:5683: /opt/mpich-install/bin/mpicc -o conftest -g -O2 conftest.c >&5 configure:5690: $? = 0 configure:5710: result: yes configure:5721: checking for getopt configure:5777: /opt/mpich-install/bin/mpicc -o conftest -g -O2 conftest.c >&5 configure:5784: $? = 0 configure:5804: result: yes configure:5818: checking for NCBI library configure:5830: result: /opt/src/mpiblast-1.6.0/ncbi configure:5853: checking for MPI_Alloc_mem configure:5876: checking for MPE timing option configure:5898: result: false configure:5933: checking for an ANSI C-conforming const configure:6008: /opt/mpich-install/bin/mpicc -c -g -O2 conftest.c >&5 configure:6015: $? = 0 configure:6030: result: yes configure:6040: checking for inline configure:6066: /opt/mpich-install/bin/mpicc -c -g -O2 conftest.c >&5 configure:6073: $? = 0 configure:6091: result: inline configure:6110: checking whether time.h and sys/time.h may both be included configure:6140: /opt/mpich-install/bin/mpicc -c -g -O2 conftest.c >&5 configure:6147: $? = 0 configure:6162: result: yes configure:6174: checking whether /opt/mpich-install/bin/mpicc needs -traditional configure:6216: result: no configure:6397: creating ./config.status ## ---------------------- ## ## Running config.status. ## ## ---------------------- ## This file was extended by mpiBLAST config.status 1.6.0, which was generated by GNU Autoconf 2.63. Invocation command line was CONFIG_FILES = CONFIG_HEADERS = CONFIG_LINKS = CONFIG_COMMANDS = $ ./config.status on example.com config.status:803: creating Makefile config.status:803: creating src/Makefile config.status:803: creating src/config.h config.status:1077: executing depfiles commands ## ---------------- ## ## Cache variables. ## ## ---------------- ## ac_cv_build=x86_64-unknown-linux-gnu ac_cv_c_compiler_gnu=yes ac_cv_c_const=yes ac_cv_c_inline=inline ac_cv_cxx_compiler_gnu=yes ac_cv_env_ARCH_set= ac_cv_env_ARCH_value= 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_CONFIG_LIBC_set= ac_cv_env_CONFIG_LIBC_value= ac_cv_env_CONFIG_SHARED_FS_set= ac_cv_env_CONFIG_SHARED_FS_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_getopt=yes ac_cv_func_getopt_long=yes ac_cv_header_stdc=yes ac_cv_header_time=yes ac_cv_host=x86_64-unknown-linux-gnu ac_cv_objext=o ac_cv_path_CC=/opt/mpich-install/bin/mpicc ac_cv_path_CXX=/opt/mpich-install/bin/mpicxx 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='/opt/mpich-install/bin/mpicc -E' ac_cv_prog_ac_ct_RANLIB=ranlib 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_sys_file_offset_bits=no ac_cv_sys_largefile_CC=no ac_cv_target=x86_64-unknown-linux-gnu am_cv_CC_dependencies_compiler_type=gcc3 am_cv_CXX_dependencies_compiler_type=gcc3 ## ----------------- ## ## Output variables. ## ## ----------------- ## ACLOCAL='${SHELL} /opt/src/mpiblast-1.6.0/m4/missing --run aclocal-1.11' AMDEPBACKSLASH='\' AMDEP_FALSE='#' AMDEP_TRUE='' AMTAR='${SHELL} /opt/src/mpiblast-1.6.0/m4/missing --run tar' ARCH='normal' AUTOCONF='${SHELL} /opt/src/mpiblast-1.6.0/m4/missing --run autoconf' AUTOHEADER='${SHELL} /opt/src/mpiblast-1.6.0/m4/missing --run autoheader' AUTOMAKE='${SHELL} /opt/src/mpiblast-1.6.0/m4/missing --run automake-1.11' AWK='gawk' CC='/opt/mpich-install/bin/mpicc' CCDEPMODE='depmode=gcc3' CFLAGS='-g -O2' COMPILE_FLAGS='' CONFIG_LIBC='libc.so.6' CONFIG_MPEDIR='' CONFIG_NCBIDIR='/opt/src/mpiblast-1.6.0/ncbi' CONFIG_SHARED_FS='NFS' CPP='/opt/mpich-install/bin/mpicc -E' CPPFLAGS='' CXX='/opt/mpich-install/bin/mpicxx' CXXDEPMODE='depmode=gcc3' CXXFLAGS='-g -O2' CYGPATH_W='echo' DEFS='-DHAVE_CONFIG_H' DEPDIR='.deps' ECHO_C='' ECHO_N='-n' ECHO_T='' EGREP='/bin/grep -E' EXEEXT='' GETOPT_LONG_SYSTEM='' GREP='/bin/grep' INSTALL_DATA='${INSTALL} -m 644' INSTALL_PROGRAM='${INSTALL}' INSTALL_SCRIPT='${INSTALL}' INSTALL_STRIP_PROGRAM='$(install_sh) -c -s' LDFLAGS='' LIBOBJS='' LIBS='' LIBTOOL_VERSION_INFO='' LINK_FLAGS=' -ldl -lpthread' LN_S='ln -s' LTLIBOBJS='' MAINT='#' MAINTAINER_MODE_FALSE='' MAINTAINER_MODE_TRUE='#' MAKEINFO='${SHELL} /opt/src/mpiblast-1.6.0/m4/missing --run makeinfo' MKDIR_P='/bin/mkdir -p' MPEXXX_FALSE='' MPEXXX_TRUE='#' OBJEXT='o' PACKAGE='mpiblast' PACKAGE_BUGREPORT='' PACKAGE_NAME='mpiBLAST' PACKAGE_STRING='mpiBLAST 1.6.0' PACKAGE_TARNAME='mpiblast' PACKAGE_VERSION='1.6.0' PATH_SEPARATOR=':' RANLIB='ranlib' SET_MAKE='' SHELL='/bin/sh' STRIP='' VERSION='1.6.0' ac_ct_CC='' ac_ct_CXX='' 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_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} /opt/src/mpiblast-1.6.0/m4/install-sh' libdir='${exec_prefix}/lib' libexecdir='${exec_prefix}/libexec' localedir='${datarootdir}/locale' localstatedir='${prefix}/var' mandir='${datarootdir}/man' mkdir_p='/bin/mkdir -p' oldincludedir='/usr/include' pdfdir='${docdir}' prefix='/opt/mpiblast-1.6.0' program_transform_name='s,x,x,' psdir='${docdir}' sbindir='${exec_prefix}/sbin' sharedstatedir='${prefix}/com' sysconfdir='${prefix}/etc' target='x86_64-unknown-linux-gnu' target_alias='' target_cpu='x86_64' target_os='linux-gnu' target_vendor='unknown' ## ----------- ## ## confdefs.h. ## ## ----------- ## #define PACKAGE_NAME "mpiBLAST" #define PACKAGE_TARNAME "mpiblast" #define PACKAGE_VERSION "1.6.0" #define PACKAGE_STRING "mpiBLAST 1.6.0" #define PACKAGE_BUGREPORT "" #define PACKAGE "mpiblast" #define VERSION "1.6.0" #define PACKAGE "mpiblast" #define VERSION "1.6.0" #define HAVE_DLL 1 #define STDC_HEADERS 1 #define SHARED_FS "NFS" #define LIBC "libc.so.6" #define TIME_WITH_SYS_TIME 1 configure: exit 0