This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by cdo configure 1.6.1rc3, which was generated by GNU Autoconf 2.68. Invocation command line was $ ./configure --with-threads=/usr/local --with-zlib=/usr/local/ --with-szlib=/usr/local/ --with-hdf5=/usr/local/ --with-netcdf=/usr/local/ --with-jasper=/usr/local/ --with-grib_api=/usr/local/ --with-proj=/usr/local/ --with-udunits2=/usr/local/ --with-magics=/usr/local/ --with-libxml2=/usr/ LIBS=-lstdc++ CFLAGS=-fopenmp --prefix=/usr/local/ ## --------- ## ## Platform. ## ## --------- ## hostname = diogenis.hydromech.tuc.gr uname -m = i686 uname -r = 2.6.32-279.22.1.el6.i686 uname -s = Linux uname -v = #1 SMP Sun Jan 13 09:20:24 EST 2013 /usr/bin/uname -p = unknown /bin/uname -X = unknown /bin/arch = i686 /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/lib/qt-3.3/bin PATH: /usr/local/bin PATH: /bin PATH: /usr/bin ## ----------- ## ## Core tests. ## ## ----------- ## configure:2569: checking build system type configure:2583: result: i686-pc-linux-gnu configure:2603: checking host system type configure:2616: result: i686-pc-linux-gnu configure:2654: checking for a BSD-compatible install configure:2722: result: /usr/bin/install -c configure:2733: checking whether build environment is sane configure:2783: result: yes configure:2924: checking for a thread-safe mkdir -p configure:2963: result: /bin/mkdir -p configure:2976: checking for gawk configure:2992: found /bin/gawk configure:3003: result: gawk configure:3014: checking whether make sets $(MAKE) configure:3036: result: yes configure:3119: checking whether to enable maintainer-specific portions of Makefiles configure:3128: result: no configure:3143: setting up libtool configure:3191: checking how to print strings configure:3218: result: printf configure:3251: checking for style of include used by make configure:3279: result: GNU configure:3350: checking for gcc configure:3366: found /usr/bin/gcc configure:3377: result: gcc configure:3606: checking for C compiler version configure:3615: gcc --version >&5 gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4) 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:3626: $? = 0 configure:3615: gcc -v >&5 Using built-in specs. Target: i686-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=i686 --build=i686-redhat-linux Thread model: posix gcc version 4.4.6 20120305 (Red Hat 4.4.6-4) (GCC) configure:3626: $? = 0 configure:3615: gcc -V >&5 gcc: '-V' option must have argument configure:3626: $? = 1 configure:3615: gcc -qversion >&5 gcc: unrecognized option '-qversion' gcc: no input files configure:3626: $? = 1 configure:3646: checking whether the C compiler works configure:3668: gcc -fopenmp conftest.c -lstdc++ >&5 configure:3672: $? = 0 configure:3720: result: yes configure:3723: checking for C compiler default output file name configure:3725: result: a.out configure:3731: checking for suffix of executables configure:3738: gcc -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:3742: $? = 0 configure:3764: result: configure:3786: checking whether we are cross compiling configure:3794: gcc -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:3798: $? = 0 configure:3805: ./conftest configure:3809: $? = 0 configure:3824: result: no configure:3829: checking for suffix of object files configure:3851: gcc -c -fopenmp conftest.c >&5 configure:3855: $? = 0 configure:3876: result: o configure:3880: checking whether we are using the GNU C compiler configure:3899: gcc -c -fopenmp conftest.c >&5 configure:3899: $? = 0 configure:3908: result: yes configure:3917: checking whether gcc accepts -g configure:3937: gcc -c -g conftest.c >&5 configure:3937: $? = 0 configure:3978: result: yes configure:3995: checking for gcc option to accept ISO C89 configure:4059: gcc -c -fopenmp conftest.c >&5 configure:4059: $? = 0 configure:4072: result: none needed configure:4094: checking dependency style of gcc configure:4205: result: gcc3 configure:4220: checking for a sed that does not truncate output configure:4284: result: /bin/sed configure:4302: checking for grep that handles long lines and -e configure:4360: result: /bin/grep configure:4365: checking for egrep configure:4427: result: /bin/grep -E configure:4432: checking for fgrep configure:4494: result: /bin/grep -F configure:4529: checking for ld used by gcc configure:4596: result: /usr/bin/ld configure:4603: checking if the linker (/usr/bin/ld) is GNU ld configure:4618: result: yes configure:4630: checking for BSD- or MS-compatible name lister (nm) configure:4679: result: /usr/bin/nm -B configure:4809: checking the name lister (/usr/bin/nm -B) interface configure:4816: gcc -c -fopenmp conftest.c >&5 configure:4819: /usr/bin/nm -B "conftest.o" configure:4822: output 00000000 B some_variable configure:4829: result: BSD nm configure:4832: checking whether ln -s works configure:4836: result: yes configure:4844: checking the maximum length of command line arguments configure:4969: result: 1966080 configure:4986: checking whether the shell understands some XSI constructs configure:4996: result: yes configure:5000: checking whether the shell understands "+=" configure:5006: result: yes configure:5041: checking for /usr/bin/ld option to reload object files configure:5048: result: -r configure:5117: checking for objdump configure:5133: found /usr/bin/objdump configure:5144: result: objdump configure:5176: checking how to recognize dependent libraries configure:5378: result: pass_all configure:5438: checking for ar configure:5454: found /usr/bin/ar configure:5465: result: ar configure:5543: checking for strip configure:5559: found /usr/bin/strip configure:5570: result: strip configure:5642: checking for ranlib configure:5658: found /usr/bin/ranlib configure:5669: result: ranlib configure:5771: checking command to parse /usr/bin/nm -B output from gcc object configure:5889: gcc -c -fopenmp conftest.c >&5 configure:5892: $? = 0 configure:5896: /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:5899: $? = 0 configure:5953: gcc -o conftest -fopenmp conftest.c conftstm.o >&5 configure:5956: $? = 0 configure:5994: result: ok configure:6835: checking how to run the C preprocessor configure:6866: gcc -E conftest.c configure:6866: $? = 0 configure:6880: gcc -E conftest.c conftest.c:11:28: error: ac_nonexistent.h: No such file or directory configure:6880: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | /* end confdefs.h. */ | #include configure:6905: result: gcc -E configure:6925: gcc -E conftest.c configure:6925: $? = 0 configure:6939: gcc -E conftest.c conftest.c:11:28: error: ac_nonexistent.h: No such file or directory configure:6939: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | /* end confdefs.h. */ | #include configure:6968: checking for ANSI C header files configure:6988: gcc -c -fopenmp conftest.c >&5 configure:6988: $? = 0 configure:7061: gcc -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:7061: $? = 0 configure:7061: ./conftest configure:7061: $? = 0 configure:7072: result: yes configure:7085: checking for sys/types.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for sys/stat.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for stdlib.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for string.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for memory.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for strings.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for inttypes.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for stdint.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7085: checking for unistd.h configure:7085: gcc -c -fopenmp conftest.c >&5 configure:7085: $? = 0 configure:7085: result: yes configure:7099: checking for dlfcn.h configure:7099: gcc -c -fopenmp conftest.c >&5 configure:7099: $? = 0 configure:7099: result: yes configure:7286: checking for objdir configure:7301: result: .libs configure:7572: checking if gcc supports -fno-rtti -fno-exceptions configure:7590: gcc -c -fopenmp -fno-rtti -fno-exceptions conftest.c >&5 cc1: warning: command line option "-fno-rtti" is valid for C++/ObjC++ but not for C configure:7594: $? = 0 configure:7607: result: no configure:7627: checking for gcc option to produce PIC configure:7912: result: -fPIC -DPIC configure:7924: checking if gcc PIC flag -fPIC -DPIC works configure:7942: gcc -c -fopenmp -fPIC -DPIC -DPIC conftest.c >&5 configure:7946: $? = 0 configure:7959: result: yes configure:7983: checking if gcc static flag -static works configure:8011: result: no configure:8026: checking if gcc supports -c -o file.o configure:8047: gcc -c -fopenmp -o out/conftest2.o conftest.c >&5 configure:8051: $? = 0 configure:8073: result: yes configure:8081: checking if gcc supports -c -o file.o configure:8128: result: yes configure:8161: checking whether the gcc linker (/usr/bin/ld) supports shared libraries configure:9236: result: yes configure:9273: checking whether -lc should be explicitly linked in configure:9281: gcc -c -fopenmp conftest.c >&5 configure:9284: $? = 0 configure:9299: gcc -shared conftest.o -v -Wl,-soname -Wl,conftest -o conftest 2\>\&1 \| /bin/grep -lc \>/dev/null 2\>\&1 configure:9302: $? = 0 configure:9316: result: no configure:9481: checking dynamic linker characteristics configure:9936: gcc -o conftest -fopenmp -Wl,-rpath -Wl,/foo conftest.c -lstdc++ >&5 configure:9936: $? = 0 configure:10158: result: GNU/Linux ld.so configure:10265: checking how to hardcode library paths into programs configure:10290: result: immediate configure:10830: checking whether stripping libraries is possible configure:10835: result: yes configure:10870: checking if libtool supports shared libraries configure:10872: result: yes configure:10875: checking whether to build shared libraries configure:10896: result: yes configure:10899: checking whether to build static libraries configure:10903: result: yes configure:10983: checking for gcc configure:11010: result: gcc configure:11032: checking for gcc option to accept ISO C99 configure:11181: gcc -c -fopenmp conftest.c >&5 conftest.c:73: error: expected ';', ',' or ')' before 'text' conftest.c: In function 'main': conftest.c:127: error: expected '=', ',', ';', 'asm' or '__attribute__' before 'newvar' conftest.c:127: error: 'newvar' undeclared (first use in this function) conftest.c:127: error: (Each undeclared identifier is reported only once conftest.c:127: error: for each function it appears in.) conftest.c:137: error: 'for' loop initial declarations are only allowed in C99 mode conftest.c:137: note: use option -std=c99 or -std=gnu99 to compile your code configure:11181: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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/" | /* end confdefs.h. */ | #include | #include | #include | #include | #include | | // Check varargs macros. These examples are taken from C99 6.10.3.5. | #define debug(...) fprintf (stderr, __VA_ARGS__) | #define showlist(...) puts (#__VA_ARGS__) | #define report(test,...) ((test) ? puts (#test) : printf (__VA_ARGS__)) | static void | test_varargs_macros (void) | { | int x = 1234; | int y = 5678; | debug ("Flag"); | debug ("X = %d\n", x); | showlist (The first, second, and third items.); | report (x>y, "x is %d but y is %d", x, y); | } | | // Check long long types. | #define BIG64 18446744073709551615ull | #define BIG32 4294967295ul | #define BIG_OK (BIG64 / BIG32 == 4294967297ull && BIG64 % BIG32 == 0) | #if !BIG_OK | your preprocessor is broken; | #endif | #if BIG_OK | #else | your preprocessor is broken; | #endif | static long long int bignum = -9223372036854775807LL; | static unsigned long long int ubignum = BIG64; | | struct incomplete_array | { | int datasize; | double data[]; | }; | | struct named_init { | int number; | const wchar_t *name; | double average; | }; | | typedef const char *ccp; | | static inline int | test_restrict (ccp restrict text) | { | // See if C++-style comments work. | // Iterate through items via the restricted pointer. | // Also check for declarations in for loops. | for (unsigned int i = 0; *(text+i) != '\0'; ++i) | continue; | return 0; | } | | // Check varargs and va_copy. | static void | test_varargs (const char *format, ...) | { | va_list args; | va_start (args, format); | va_list args_copy; | va_copy (args_copy, args); | | const char *str; | int number; | float fnumber; | | while (*format) | { | switch (*format++) | { | case 's': // string | str = va_arg (args_copy, const char *); | break; | case 'd': // int | number = va_arg (args_copy, int); | break; | case 'f': // float | fnumber = va_arg (args_copy, double); | break; | default: | break; | } | } | va_end (args_copy); | va_end (args); | } | | int | main () | { | | // Check bool. | _Bool success = false; | | // Check restrict. | if (test_restrict ("String literal") == 0) | success = true; | char *restrict newvar = "Another string"; | | // Check varargs. | test_varargs ("s, d' f .", "string", 65, 34.234); | test_varargs_macros (); | | // Check flexible array members. | struct incomplete_array *ia = | malloc (sizeof (struct incomplete_array) + (sizeof (double) * 10)); | ia->datasize = 10; | for (int i = 0; i < ia->datasize; ++i) | ia->data[i] = i * 1.234; | | // Check named initializers. | struct named_init ni = { | .number = 34, | .name = L"Test wide string", | .average = 543.34343, | }; | | ni.number = 58; | | int dynamic_array[ni.number]; | dynamic_array[ni.number - 1] = 543; | | // work around unused variable warnings | return (!success || bignum == 0LL || ubignum == 0uLL || newvar[0] == 'x' | || dynamic_array[ni.number - 1] != 543); | | ; | return 0; | } configure:11181: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:11181: $? = 0 configure:11201: result: -std=gnu99 configure:11210: checking whether gcc -std=gnu99 and cc understand -c and -o together configure:11241: gcc -std=gnu99 -c conftest.c -o conftest2.o >&5 configure:11245: $? = 0 configure:11251: gcc -std=gnu99 -c conftest.c -o conftest2.o >&5 configure:11255: $? = 0 configure:11266: cc -c conftest.c >&5 configure:11270: $? = 0 configure:11278: cc -c conftest.c -o conftest2.o >&5 configure:11282: $? = 0 configure:11288: cc -c conftest.c -o conftest2.o >&5 configure:11292: $? = 0 configure:11310: result: yes configure:11378: checking for ar configure:11405: result: ar configure:11562: checking for ld configure:11589: result: /usr/bin/ld configure:11654: checking for nm configure:11681: result: /usr/bin/nm -B configure:11746: checking for ar configure:11773: result: ar configure:11838: checking for as configure:11854: found /usr/bin/as configure:11865: result: as configure:11930: checking for dlltool configure:11960: result: no configure:12022: checking for objdump configure:12049: result: objdump configure:12114: checking for strip configure:12141: result: strip configure:12206: checking for ranlib configure:12233: result: ranlib configure:12314: checking for g++ configure:12330: found /usr/bin/g++ configure:12341: result: g++ configure:12368: checking for C++ compiler version configure:12377: g++ --version >&5 g++ (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4) 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:12388: $? = 0 configure:12377: g++ -v >&5 Using built-in specs. Target: i686-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=i686 --build=i686-redhat-linux Thread model: posix gcc version 4.4.6 20120305 (Red Hat 4.4.6-4) (GCC) configure:12388: $? = 0 configure:12377: g++ -V >&5 g++: '-V' option must have argument configure:12388: $? = 1 configure:12377: g++ -qversion >&5 g++: unrecognized option '-qversion' g++: no input files configure:12388: $? = 1 configure:12392: checking whether we are using the GNU C++ compiler configure:12411: g++ -c conftest.cpp >&5 configure:12411: $? = 0 configure:12420: result: yes configure:12429: checking whether g++ accepts -g configure:12449: g++ -c -g conftest.cpp >&5 configure:12449: $? = 0 configure:12490: result: yes configure:12515: checking dependency style of g++ configure:12626: result: gcc3 configure:12649: checking how to run the C++ preprocessor configure:12676: g++ -E conftest.cpp configure:12676: $? = 0 configure:12690: g++ -E conftest.cpp conftest.cpp:23:28: error: ac_nonexistent.h: No such file or directory configure:12690: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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/" | /* end confdefs.h. */ | #include configure:12715: result: g++ -E configure:12735: g++ -E conftest.cpp configure:12735: $? = 0 configure:12749: g++ -E conftest.cpp conftest.cpp:23:28: error: ac_nonexistent.h: No such file or directory configure:12749: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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/" | /* end confdefs.h. */ | #include configure:12917: checking for ld used by g++ configure:12984: result: /usr/bin/ld configure:12991: checking if the linker (/usr/bin/ld) is GNU ld configure:13006: result: yes configure:13061: checking whether the g++ linker (/usr/bin/ld) supports shared libraries configure:13993: result: yes configure:14021: g++ -c -g -O2 conftest.cpp >&5 configure:14024: $? = 0 configure:14206: checking for g++ option to produce PIC configure:14528: result: -fPIC -DPIC configure:14537: checking if g++ PIC flag -fPIC -DPIC works configure:14555: g++ -c -g -O2 -fPIC -DPIC -DPIC conftest.cpp >&5 configure:14559: $? = 0 configure:14572: result: yes configure:14593: checking if g++ static flag -static works configure:14621: result: no configure:14633: checking if g++ supports -c -o file.o configure:14654: g++ -c -g -O2 -o out/conftest2.o conftest.cpp >&5 configure:14658: $? = 0 configure:14680: result: yes configure:14685: checking if g++ supports -c -o file.o configure:14732: result: yes configure:14762: checking whether the g++ linker (/usr/bin/ld) supports shared libraries configure:14790: result: yes configure:14933: checking dynamic linker characteristics configure:15544: result: GNU/Linux ld.so configure:15597: checking how to hardcode library paths into programs configure:15622: result: immediate configure:15673: checking for special C compiler options needed for large files configure:15718: result: no configure:15724: checking for _FILE_OFFSET_BITS value needed for large files configure:15749: gcc -std=gnu99 -c -fopenmp conftest.c >&5 conftest.c:29: warning: left shift count >= width of type conftest.c:29: warning: left shift count >= width of type conftest.c:31: error: size of array 'off_t_is_large' is negative configure:15749: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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/" | /* end confdefs.h. */ | #include | /* Check that off_t can represent 2**63 - 1 correctly. | We can't simply define LARGE_OFF_T to be 9223372036854775807, | since some C++ compilers masquerading as C compilers | incorrectly reject 9223372036854775807. */ | #define LARGE_OFF_T (((off_t) 1 << 62) - 1 + ((off_t) 1 << 62)) | int off_t_is_large[(LARGE_OFF_T % 2147483629 == 721 | && LARGE_OFF_T % 2147483647 == 1) | ? 1 : -1]; | int | main () | { | | ; | return 0; | } configure:15773: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:15773: $? = 0 configure:15781: result: 64 configure:15872: checking for stdlib.h configure:15872: result: yes configure:15872: checking for unistd.h configure:15872: result: yes configure:15872: checking for sys/param.h configure:15872: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:15872: $? = 0 configure:15872: result: yes configure:15892: checking for getpagesize configure:15892: gcc -std=gnu99 -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:15892: $? = 0 configure:15892: result: yes configure:15901: checking for working mmap configure:16048: gcc -std=gnu99 -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:16048: $? = 0 configure:16048: ./conftest configure:16048: $? = 0 configure:16058: result: yes configure:16069: checking for malloc in -lmalloc configure:16094: gcc -std=gnu99 -o conftest -fopenmp conftest.c -lmalloc -lstdc++ >&5 conftest.c:36: warning: conflicting types for built-in function 'malloc' /usr/bin/ld: cannot find -lmalloc collect2: ld returned 1 exit status configure:16094: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 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 malloc (); | int | main () | { | return malloc (); | ; | return 0; | } configure:16103: result: no configure:16116: checking for struct stat.st_blksize configure:16116: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:16116: $? = 0 configure:16116: result: yes configure:16130: checking sys/resource.h usability configure:16130: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:16130: $? = 0 configure:16130: result: yes configure:16130: checking sys/resource.h presence configure:16130: gcc -E conftest.c configure:16130: $? = 0 configure:16130: result: yes configure:16130: checking for sys/resource.h configure:16130: result: yes configure:16142: checking sys/times.h usability configure:16142: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:16142: $? = 0 configure:16142: result: yes configure:16142: checking sys/times.h presence configure:16142: gcc -E conftest.c configure:16142: $? = 0 configure:16142: result: yes configure:16142: checking for sys/times.h configure:16142: result: yes configure:16154: checking malloc.h usability configure:16154: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:16154: $? = 0 configure:16154: result: yes configure:16154: checking malloc.h presence configure:16154: gcc -E conftest.c configure:16154: $? = 0 configure:16154: result: yes configure:16154: checking for malloc.h configure:16154: result: yes configure:16166: checking glob.h usability configure:16166: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:16166: $? = 0 configure:16166: result: yes configure:16166: checking glob.h presence configure:16166: gcc -E conftest.c configure:16166: $? = 0 configure:16166: result: yes configure:16166: checking for glob.h configure:16166: result: yes configure:16180: checking for mallinfo configure:16180: gcc -std=gnu99 -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:16180: $? = 0 configure:16180: result: yes configure:16191: checking whether isnan is declared configure:16191: gcc -std=gnu99 -c -fopenmp conftest.c >&5 configure:16191: $? = 0 configure:16191: result: yes configure:16206: checking for getrlimit configure:16206: gcc -std=gnu99 -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:16206: $? = 0 configure:16206: result: yes configure:16217: checking for gethostname configure:16217: gcc -std=gnu99 -o conftest -fopenmp conftest.c -lstdc++ >&5 configure:16217: $? = 0 configure:16217: result: yes configure:16284: checking for floor in -lm configure:16309: gcc -std=gnu99 -o conftest -fopenmp conftest.c -lm -lstdc++ >&5 conftest.c:49: warning: conflicting types for built-in function 'floor' configure:16309: $? = 0 configure:16318: result: yes configure:16331: checking for DATA support configure:16348: result: yes configure:16741: checking pthread.h usability configure:16741: gcc -std=gnu99 -c -fopenmp -I/usr/local/include conftest.c >&5 configure:16741: $? = 0 configure:16741: result: yes configure:16741: checking pthread.h presence configure:16741: gcc -E -I/usr/local/include conftest.c configure:16741: $? = 0 configure:16741: result: yes configure:16741: checking for pthread.h configure:16741: result: yes configure:16751: checking for pthread_create in -lpthread configure:16776: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local/include -L/usr/local/lib conftest.c -lpthread -lm -lstdc++ >&5 configure:16776: $? = 0 configure:16785: result: yes configure:16894: checking zlib.h usability configure:16894: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local/include conftest.c >&5 configure:16894: $? = 0 configure:16894: result: yes configure:16894: checking zlib.h presence configure:16894: gcc -E -I/usr/local//include -I/usr/local/include conftest.c configure:16894: $? = 0 configure:16894: result: yes configure:16894: checking for zlib.h configure:16894: result: yes configure:16904: checking for library containing deflate configure:16935: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local/lib conftest.c -lpthread -lm -lstdc++ >&5 /tmp/ccAn0MFE.o: In function `main': conftest.c:(.text+0x7): undefined reference to `deflate' collect2: ld returned 1 exit status configure:16935: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 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 deflate (); | int | main () | { | return deflate (); | ; | return 0; | } configure:16935: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local/lib conftest.c -lz -lpthread -lm -lstdc++ >&5 configure:16935: $? = 0 configure:16952: result: -lz configure:17138: checking szlib.h usability configure:17138: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local/include conftest.c >&5 configure:17138: $? = 0 configure:17138: result: yes configure:17138: checking szlib.h presence configure:17138: gcc -E -I/usr/local//include -I/usr/local//include -I/usr/local/include conftest.c configure:17138: $? = 0 configure:17138: result: yes configure:17138: checking for szlib.h configure:17138: result: yes configure:17148: checking for library containing SZ_BufftoBuffCompress configure:17179: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lz -lpthread -lm -lstdc++ >&5 /tmp/ccTYhx7R.o: In function `main': conftest.c:(.text+0x7): undefined reference to `SZ_BufftoBuffCompress' collect2: ld returned 1 exit status configure:17179: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 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 SZ_BufftoBuffCompress (); | int | main () | { | return SZ_BufftoBuffCompress (); | ; | return 0; | } configure:17179: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lsz -lz -lpthread -lm -lstdc++ >&5 configure:17179: $? = 0 configure:17196: result: -lsz configure:17386: checking hdf5.h usability configure:17386: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include conftest.c >&5 configure:17386: $? = 0 configure:17386: result: yes configure:17386: checking hdf5.h presence configure:17386: gcc -E -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include conftest.c configure:17386: $? = 0 configure:17386: result: yes configure:17386: checking for hdf5.h configure:17386: result: yes configure:17396: checking for library containing H5Fopen configure:17427: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccg6D5x9.o: In function `main': conftest.c:(.text+0x7): undefined reference to `H5Fopen' collect2: ld returned 1 exit status configure:17427: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 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 H5Fopen (); | int | main () | { | return H5Fopen (); | ; | return 0; | } configure:17427: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:17427: $? = 0 configure:17444: result: -lhdf5 configure:17456: checking for library containing H5DSis_scale configure:17487: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccNKOcQf.o: In function `main': conftest.c:(.text+0x7): undefined reference to `H5DSis_scale' collect2: ld returned 1 exit status configure:17487: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 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 H5DSis_scale (); | int | main () | { | return H5DSis_scale (); | ; | return 0; | } configure:17487: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:17487: $? = 0 configure:17504: result: -lhdf5_hl configure:17705: checking netcdf.h usability configure:17705: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include conftest.c >&5 configure:17705: $? = 0 configure:17705: result: yes configure:17705: checking netcdf.h presence configure:17705: gcc -E -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include conftest.c configure:17705: $? = 0 configure:17705: result: yes configure:17705: checking for netcdf.h configure:17705: result: yes configure:17715: checking for library containing nc_open configure:17746: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/cc8l0Zwv.o: In function `main': conftest.c:(.text+0x7): undefined reference to `nc_open' collect2: ld returned 1 exit status configure:17746: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 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 nc_open (); | int | main () | { | return nc_open (); | ; | return 0; | } configure:17746: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib conftest.c -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:17746: $? = 0 configure:17763: result: -lnetcdf configure:17778: checking nc-config script configure:17782: checking for nc-config configure:17798: found /usr/local//bin/nc-config configure:17809: result: /usr/local//bin/nc-config configure:17818: checking netcdf's OpenDAP support configure:17827: result: no configure:17830: checking netcdf's nc2 support configure:17836: result: yes configure:17842: checking netcdf's nc4 support configure:17848: result: yes configure:17967: checking for library containing jas_stream_memopen configure:17998: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccB06y3K.o: In function `main': conftest.c:(.text+0x7): undefined reference to `jas_stream_memopen' collect2: ld returned 1 exit status configure:17998: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 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 jas_stream_memopen (); | int | main () | { | return jas_stream_memopen (); | ; | return 0; | } configure:17998: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:17998: $? = 0 configure:18015: result: -ljasper configure:18135: checking grib_api.h usability configure:18135: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include conftest.c >&5 configure:18135: $? = 0 configure:18135: result: yes configure:18135: checking grib_api.h presence configure:18135: gcc -E -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include conftest.c configure:18135: $? = 0 configure:18135: result: yes configure:18135: checking for grib_api.h configure:18135: result: yes configure:18145: checking for library containing grib_get_message configure:18176: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccCYtaS4.o: In function `main': conftest.c:(.text+0x7): undefined reference to `grib_get_message' collect2: ld returned 1 exit status configure:18176: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 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 grib_get_message (); | int | main () | { | return grib_get_message (); | ; | return 0; | } configure:18176: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:18176: $? = 0 configure:18193: result: -lgrib_api configure:18224: checking for GRIB support configure:18241: result: yes configure:18247: checking for CGRIBEX support configure:18264: result: yes configure:18270: checking for SERVICE support configure:18287: result: yes configure:18293: checking for EXTRA support configure:18310: result: yes configure:18316: checking for IEG support configure:18333: result: yes configure:18339: checking for FFTW3 support configure:18353: checking fftw3.h usability configure:18353: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include conftest.c >&5 conftest.c:97:19: error: fftw3.h: No such file or directory configure:18353: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 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:18353: result: no configure:18353: checking fftw3.h presence configure:18353: gcc -E -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include conftest.c conftest.c:64:19: error: fftw3.h: No such file or directory configure:18353: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 1 | /* end confdefs.h. */ | #include configure:18353: result: no configure:18353: checking for fftw3.h configure:18353: result: no configure:18363: checking for library containing fftw_cleanup configure:18394: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccsf2f5o.o: In function `main': conftest.c:(.text+0x7): undefined reference to `fftw_cleanup' collect2: ld returned 1 exit status configure:18394: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 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 fftw_cleanup (); | int | main () | { | return fftw_cleanup (); | ; | return 0; | } configure:18394: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -lfftw3 -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /usr/bin/ld: cannot find -lfftw3 collect2: ld returned 1 exit status configure:18394: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 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 fftw_cleanup (); | int | main () | { | return fftw_cleanup (); | ; | return 0; | } configure:18411: result: no configure:18420: result: Could not link to fftw3 library configure:18521: checking proj_api.h usability configure:18521: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include conftest.c >&5 configure:18521: $? = 0 configure:18521: result: yes configure:18521: checking proj_api.h presence configure:18521: gcc -E -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include conftest.c configure:18521: $? = 0 configure:18521: result: yes configure:18521: checking for proj_api.h configure:18521: result: yes configure:18531: checking for library containing pj_init configure:18562: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/cc6h40Ot.o: In function `main': conftest.c:(.text+0x7): undefined reference to `pj_init' collect2: ld returned 1 exit status configure:18562: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 1 | #define HAVE_PROJ_API_H 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 pj_init (); | int | main () | { | return pj_init (); | ; | return 0; | } configure:18562: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib conftest.c -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:18562: $? = 0 configure:18579: result: -lproj configure:18703: checking udunits2.h usability configure:18703: gcc -std=gnu99 -c -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c >&5 configure:18703: $? = 0 configure:18703: result: yes configure:18703: checking udunits2.h presence configure:18703: gcc -E -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c configure:18703: $? = 0 configure:18703: result: yes configure:18703: checking for udunits2.h configure:18703: result: yes configure:18713: checking for library containing ut_parse configure:18744: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib -L/usr/local//lib conftest.c -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccbO80jR.o: In function `main': conftest.c:(.text+0x7): undefined reference to `ut_parse' collect2: ld returned 1 exit status configure:18744: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 1 | #define HAVE_PROJ_API_H 1 | #define HAVE_LIBPROJ 1 | #define HAVE_UDUNITS2_H 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 ut_parse (); | int | main () | { | return ut_parse (); | ; | return 0; | } configure:18744: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib -L/usr/local//lib conftest.c -ludunits2 -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:18744: $? = 0 configure:18761: result: -ludunits2 configure:18886: checking magics_api.h usability configure:18886: gcc -std=gnu99 -c -fopenmp -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c >&5 configure:18886: $? = 0 configure:18886: result: yes configure:18886: checking magics_api.h presence configure:18886: gcc -E -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c configure:18886: $? = 0 configure:18886: result: yes configure:18886: checking for magics_api.h configure:18886: result: yes configure:18896: checking for library containing mag_open configure:18927: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib -L/usr/local//lib conftest.c -ludunits2 -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccAV3uhc.o: In function `main': conftest.c:(.text+0x7): undefined reference to `mag_open' collect2: ld returned 1 exit status configure:18927: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 1 | #define HAVE_PROJ_API_H 1 | #define HAVE_LIBPROJ 1 | #define HAVE_UDUNITS2_H 1 | #define HAVE_LIBUDUNITS2 1 | #define HAVE_MAGICS_API_H 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 mag_open (); | int | main () | { | return mag_open (); | ; | return 0; | } configure:18927: gcc -std=gnu99 -o conftest -fopenmp -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib -L/usr/local//lib conftest.c -lMagPlus -ludunits2 -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:18927: $? = 0 configure:18944: result: -lMagPlus configure:19079: checking libxml/parser.h usability configure:19079: gcc -std=gnu99 -c -fopenmp -I/usr//include/libxml2 -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c >&5 configure:19079: $? = 0 configure:19079: result: yes configure:19079: checking libxml/parser.h presence configure:19079: gcc -E -I/usr//include/libxml2 -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c configure:19079: $? = 0 configure:19079: result: yes configure:19079: checking for libxml/parser.h configure:19079: result: yes configure:19091: checking libxml/tree.h usability configure:19091: gcc -std=gnu99 -c -fopenmp -I/usr//include/libxml2 -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c >&5 configure:19091: $? = 0 configure:19091: result: yes configure:19091: checking libxml/tree.h presence configure:19091: gcc -E -I/usr//include/libxml2 -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include conftest.c configure:19091: $? = 0 configure:19091: result: yes configure:19091: checking for libxml/tree.h configure:19091: result: yes configure:19101: checking for library containing xmlInitMemory configure:19132: gcc -std=gnu99 -o conftest -fopenmp -I/usr//include/libxml2 -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include -L/usr//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib -L/usr/local//lib conftest.c -lMagPlus -ludunits2 -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 /tmp/ccKFIo0E.o: In function `main': conftest.c:(.text+0x7): undefined reference to `xmlInitMemory' collect2: ld returned 1 exit status configure:19132: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.1rc3" | #define PACKAGE_STRING "cdo 1.6.1rc3" | #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.1rc3" | #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 _FILE_OFFSET_BITS 64 | #define HAVE_STDLIB_H 1 | #define HAVE_UNISTD_H 1 | #define HAVE_SYS_PARAM_H 1 | #define HAVE_GETPAGESIZE 1 | #define HAVE_MMAP 1 | #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 | #define HAVE_SYS_RESOURCE_H 1 | #define HAVE_SYS_TIMES_H 1 | #define HAVE_MALLOC_H 1 | #define HAVE_GLOB_H 1 | #define HAVE_MALLINFO 1 | #define HAVE_DECL_ISNAN 1 | #define HAVE_GETRLIMIT 1 | #define HAVE_GETHOSTNAME 1 | #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" | #define USER_NAME "kostas" | #define HOST_NAME "diogenis.hydromech.tuc.gr" | #define SYSTEM_TYPE "i686-pc-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_PTHREAD_H 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | #define HAVE_SZLIB_H 1 | #define HAVE_LIBSZ 1 | #define HAVE_HDF5_H 1 | #define HAVE_LIBHDF5 1 | #define HAVE_NETCDF_H 1 | #define HAVE_LIBNETCDF 1 | #define HAVE_NETCDF2 1 | #define HAVE_NETCDF4 1 | #define HAVE_LIBJASPER 1 | #define HAVE_GRIB_API_H 1 | #define HAVE_LIBGRIB_API 1 | #define HAVE_LIBGRIB 1 | #define HAVE_LIBCGRIBEX 1 | #define HAVE_LIBSERVICE 1 | #define HAVE_LIBEXTRA 1 | #define HAVE_LIBIEG 1 | #define HAVE_PROJ_API_H 1 | #define HAVE_LIBPROJ 1 | #define HAVE_UDUNITS2_H 1 | #define HAVE_LIBUDUNITS2 1 | #define HAVE_MAGICS_API_H 1 | #define HAVE_LIBMAGICS 1 | #define HAVE_LIBXML_PARSER_H 1 | #define HAVE_LIBXML_TREE_H 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 xmlInitMemory (); | int | main () | { | return xmlInitMemory (); | ; | return 0; | } configure:19132: gcc -std=gnu99 -o conftest -fopenmp -I/usr//include/libxml2 -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include -L/usr//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib -L/usr/local//lib conftest.c -lxml2 -lMagPlus -ludunits2 -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++ >&5 configure:19132: $? = 0 configure:19149: result: -lxml2 configure:19192: checking for build a separate CDI library and link CDO to it configure:19209: result: no configure:19233: checking for building an additional static CDO binary configure:19246: result: no configure:19425: creating ./config.status ## ---------------------- ## ## Running config.status. ## ## ---------------------- ## This file was extended by cdo config.status 1.6.1rc3, which was generated by GNU Autoconf 2.68. Invocation command line was CONFIG_FILES = CONFIG_HEADERS = CONFIG_LINKS = CONFIG_COMMANDS = $ ./config.status on diogenis.hydromech.tuc.gr config.status:1251: creating Makefile config.status:1251: creating src/Makefile config.status:1251: creating contrib/Makefile config.status:1251: creating test/Makefile config.status:1251: creating cdo.spec config.status:1251: creating cdo.settings config.status:1251: creating src/config.h config.status:1480: executing depfiles commands config.status:1480: executing libtool commands configure:21998: === configuring in libcdi (/home/HYDROMECH/kostas/Desktop/cdo1/cdo-1.6.1rc3/libcdi) configure:22061: running /bin/sh ./configure --disable-option-checking '--prefix=/usr/local' '--with-threads=/usr/local' '--with-zlib=/usr/local/' '--with-szlib=/usr/local/' '--with-hdf5=/usr/local/' '--with-netcdf=/usr/local/' '--with-jasper=/usr/local/' '--with-grib_api=/usr/local/' '--with-proj=/usr/local/' '--with-udunits2=/usr/local/' '--with-magics=/usr/local/' '--with-libxml2=/usr/' 'LIBS=-lstdc++' 'CFLAGS=-fopenmp' --cache-file=/dev/null --srcdir=. configure:22080: CDO is configured with the following options: configure:22099: Configuration completed. You can now say 'make' to compile the CDO package and 'make install' to install it afterwards. ## ---------------- ## ## Cache variables. ## ## ---------------- ## ac_cv_build=i686-pc-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=set ac_cv_env_CFLAGS_value=-fopenmp 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=set ac_cv_env_LIBS_value=-lstdc++ 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_gethostname=yes ac_cv_func_getpagesize=yes ac_cv_func_getrlimit=yes ac_cv_func_mallinfo=yes ac_cv_func_mmap_fixed_mapped=yes ac_cv_have_decl_isnan=yes ac_cv_header_dlfcn_h=yes ac_cv_header_fftw3_h=no ac_cv_header_glob_h=yes ac_cv_header_grib_api_h=yes ac_cv_header_hdf5_h=yes ac_cv_header_inttypes_h=yes ac_cv_header_libxml_parser_h=yes ac_cv_header_libxml_tree_h=yes ac_cv_header_magics_api_h=yes ac_cv_header_malloc_h=yes ac_cv_header_memory_h=yes ac_cv_header_netcdf_h=yes ac_cv_header_proj_api_h=yes ac_cv_header_pthread_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_param_h=yes ac_cv_header_sys_resource_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_szlib_h=yes ac_cv_header_udunits2_h=yes ac_cv_header_unistd_h=yes ac_cv_header_zlib_h=yes ac_cv_host=i686-pc-linux-gnu ac_cv_lib_m_floor=yes ac_cv_lib_malloc_malloc=no ac_cv_lib_pthread_pthread_create=yes ac_cv_member_struct_stat_st_blksize=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_NC_CONFIG=/usr/local//bin/nc-config ac_cv_prog_ac_ct_AR=ar ac_cv_prog_ac_ct_AS=as ac_cv_prog_ac_ct_CC=gcc ac_cv_prog_ac_ct_CXX=g++ ac_cv_prog_ac_ct_LD=/usr/bin/ld ac_cv_prog_ac_ct_NM='/usr/bin/nm -B' 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_c99=-std=gnu99 ac_cv_prog_cc_g=yes ac_cv_prog_cc_gcc_c_o=yes ac_cv_prog_cxx_g=yes ac_cv_prog_make_make_set=yes ac_cv_search_H5DSis_scale=-lhdf5_hl ac_cv_search_H5Fopen=-lhdf5 ac_cv_search_SZ_BufftoBuffCompress=-lsz ac_cv_search_deflate=-lz ac_cv_search_fftw_cleanup=no ac_cv_search_grib_get_message=-lgrib_api ac_cv_search_jas_stream_memopen=-ljasper ac_cv_search_mag_open=-lMagPlus ac_cv_search_nc_open=-lnetcdf ac_cv_search_pj_init=-lproj ac_cv_search_ut_parse=-ludunits2 ac_cv_search_xmlInitMemory=-lxml2 ac_cv_sys_file_offset_bits=64 ac_cv_sys_largefile_CC=no am_cv_CC_dependencies_compiler_type=gcc3 am_cv_CXX_dependencies_compiler_type=gcc3 lt_cv_archive_cmds_need_lc=no 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 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_shlibpath_overrides_runpath=no 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/HYDROMECH/kostas/Desktop/cdo1/cdo-1.6.1rc3/config/missing --run aclocal-1.11' AMDEPBACKSLASH='\' AMDEP_FALSE='#' AMDEP_TRUE='' AMTAR='$${TAR-tar}' AR='ar' AS='as' AUTOCONF='${SHELL} /home/HYDROMECH/kostas/Desktop/cdo1/cdo-1.6.1rc3/config/missing --run autoconf' AUTOHEADER='${SHELL} /home/HYDROMECH/kostas/Desktop/cdo1/cdo-1.6.1rc3/config/missing --run autoheader' AUTOMAKE='${SHELL} /home/HYDROMECH/kostas/Desktop/cdo1/cdo-1.6.1rc3/config/missing --run automake-1.11' AWK='gawk' CC='gcc -std=gnu99' CCDEPMODE='depmode=gcc3' CFLAGS='-fopenmp' CLDFLAGS='' CLIBS='' CPP='gcc -E' CPPFLAGS='-I/usr//include/libxml2 -I/usr/local//include/magics -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local//include -I/usr/local/include -I/usr/local//include -I/usr/local//include' CXX='g++' CXXCPP='g++ -E' CXXDEPMODE='depmode=gcc3' CXXFLAGS='-g -O2' CYGPATH_W='echo' DEFS='-DHAVE_CONFIG_H' DEPDIR='.deps' DLLTOOL=':' DSYMUTIL='' DUMPBIN='' ECHO_C='' ECHO_N='-n' ECHO_T='' EGREP='/bin/grep -E' ENABLE_ALL_STATIC_FALSE='' ENABLE_ALL_STATIC_TRUE='#' ENABLE_CDI_LIB='false' ENABLE_CDI_LIB_FALSE='' ENABLE_CDI_LIB_TRUE='#' ENABLE_CGRIBEX='yes' ENABLE_DATA='yes' ENABLE_EXTRA='yes' ENABLE_GRIB='yes' ENABLE_IEG='yes' ENABLE_MAGICS_FALSE='#' ENABLE_MAGICS_TRUE='' ENABLE_SERVICE='yes' EXEEXT='' FCFLAGS='' FGREP='/bin/grep -F' GREP='/bin/grep' GRIB_API_INCLUDE=' -I/usr/local//include' GRIB_API_LIBS=' -L/usr/local//lib -lgrib_api' HDF5_INCLUDE=' -I/usr/local//include' HDF5_LIBS=' -L/usr/local//lib -lhdf5' HDF5_ROOT='/usr/local/' HOST_NAME='diogenis.hydromech.tuc.gr' INCLUDES='' INSTALL_DATA='${INSTALL} -m 644' INSTALL_PROGRAM='${INSTALL}' INSTALL_SCRIPT='${INSTALL}' INSTALL_STRIP_PROGRAM='$(install_sh) -c -s' JASPER_LIBS=' -L/usr/local//lib -ljasper' LD='/usr/bin/ld' LDFLAGS='-L/usr//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local//lib -L/usr/local/lib -L/usr/local//lib -L/usr/local//lib' LIBOBJS='' LIBS='-lxml2 -lMagPlus -ludunits2 -lproj -lgrib_api -ljasper -lnetcdf -lhdf5_hl -lhdf5 -lsz -lz -lpthread -lm -lstdc++' LIBTOOL='$(SHELL) $(top_builddir)/libtool' LIPO='' LN_S='ln -s' LTLIBOBJS='' MAGICS_INCLUDE=' -I/usr/local//include/magics' MAGICS_LIBS=' -L/usr/local//lib -lMagPlus' MAGICS_ROOT='/usr/local/' MAINT='#' MAINTAINER_MODE_FALSE='' MAINTAINER_MODE_TRUE='#' MAKEINFO='${SHELL} /home/HYDROMECH/kostas/Desktop/cdo1/cdo-1.6.1rc3/config/missing --run makeinfo' MKDIR_P='/bin/mkdir -p' NC_CONFIG='/usr/local//bin/nc-config' NETCDF_INCLUDE=' -I/usr/local//include' NETCDF_LIBS=' -L/usr/local//lib -lnetcdf' NETCDF_ROOT='/usr/local/' NM='/usr/bin/nm -B' NMEDIT='' OBJDUMP='objdump' OBJEXT='o' OTOOL64='' OTOOL='' PACKAGE='cdo' PACKAGE_BUGREPORT='http://code.zmaw.de/projects/cdo' PACKAGE_NAME='cdo' PACKAGE_STRING='cdo 1.6.1rc3' PACKAGE_TARNAME='cdo' PACKAGE_URL='' PACKAGE_VERSION='1.6.1rc3' PATH_SEPARATOR=':' PROJ_INCLUDE=' -I/usr/local//include' PROJ_LDFLAGS=' -L/usr/local//lib -lproj' PTHREAD_CC='' PTHREAD_CFLAGS='' PTHREAD_LIBS='' RANLIB='ranlib' SED='/bin/sed' SET_MAKE='' SHELL='/bin/sh' STRIP='strip' SYSTEM_TYPE='i686-pc-linux-gnu' SZLIB_INCLUDE=' -I/usr/local//include' SZLIB_LIBS=' -L/usr/local//lib -lsz' THREADS_INCLUDE=' -I/usr/local/include' THREADS_LIBS=' -L/usr/local/lib -lpthread' UDUNITS_INCLUDE=' -I/usr/local//include' UDUNITS_LDFLAGS=' -L/usr/local//lib -ludunits2' USER_NAME='kostas' VERSION='1.6.1rc3' XML2_LIBS=' -L/usr//lib -lxml2' ZLIB_INCLUDE=' -I/usr/local//include' ZLIB_LIBS=' -L/usr/local//lib -lz' 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__nodep='_no' am__quote='' am__tar='$${TAR-tar} chof - "$$tardir"' am__untar='$${TAR-tar} xf -' ax_pthread_config='' bindir='${exec_prefix}/bin' build='i686-pc-linux-gnu' build_alias='' build_cpu='i686' build_os='linux-gnu' build_vendor='pc' datadir='${datarootdir}' datarootdir='${prefix}/share' docdir='${datarootdir}/doc/${PACKAGE_TARNAME}' dvidir='${docdir}' exec_prefix='${prefix}' host='i686-pc-linux-gnu' host_alias='' host_cpu='i686' host_os='linux-gnu' host_vendor='pc' htmldir='${docdir}' includedir='${prefix}/include' infodir='${datarootdir}/info' install_sh='${SHELL} /home/HYDROMECH/kostas/Desktop/cdo1/cdo-1.6.1rc3/config/install-sh' libdir='${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='${docdir}' prefix='/usr/local' program_transform_name='s,x,x,' psdir='${docdir}' sbindir='${exec_prefix}/sbin' sharedstatedir='${prefix}/com' subdirs=' libcdi' sysconfdir='${prefix}/etc' target_alias='' ## ----------- ## ## confdefs.h. ## ## ----------- ## /* confdefs.h */ #define PACKAGE_NAME "cdo" #define PACKAGE_TARNAME "cdo" #define PACKAGE_VERSION "1.6.1rc3" #define PACKAGE_STRING "cdo 1.6.1rc3" #define PACKAGE_BUGREPORT "http://code.zmaw.de/projects/cdo" #define PACKAGE_URL "" #define PACKAGE "cdo" #define VERSION "1.6.1rc3" #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 _FILE_OFFSET_BITS 64 #define HAVE_STDLIB_H 1 #define HAVE_UNISTD_H 1 #define HAVE_SYS_PARAM_H 1 #define HAVE_GETPAGESIZE 1 #define HAVE_MMAP 1 #define HAVE_STRUCT_STAT_ST_BLKSIZE 1 #define HAVE_SYS_RESOURCE_H 1 #define HAVE_SYS_TIMES_H 1 #define HAVE_MALLOC_H 1 #define HAVE_GLOB_H 1 #define HAVE_MALLINFO 1 #define HAVE_DECL_ISNAN 1 #define HAVE_GETRLIMIT 1 #define HAVE_GETHOSTNAME 1 #define COMP_VERSION "gcc (GCC) 4.4.6 20120305 (Red Hat 4.4.6-4)" #define USER_NAME "kostas" #define HOST_NAME "diogenis.hydromech.tuc.gr" #define SYSTEM_TYPE "i686-pc-linux-gnu" #define HAVE_LIBM 1 #define ENABLE_DATA 1 #define HAVE_PTHREAD_H 1 #define HAVE_LIBPTHREAD 1 #define HAVE_ZLIB_H 1 #define HAVE_LIBZ 1 #define HAVE_SZLIB_H 1 #define HAVE_LIBSZ 1 #define HAVE_HDF5_H 1 #define HAVE_LIBHDF5 1 #define HAVE_NETCDF_H 1 #define HAVE_LIBNETCDF 1 #define HAVE_NETCDF2 1 #define HAVE_NETCDF4 1 #define HAVE_LIBJASPER 1 #define HAVE_GRIB_API_H 1 #define HAVE_LIBGRIB_API 1 #define HAVE_LIBGRIB 1 #define HAVE_LIBCGRIBEX 1 #define HAVE_LIBSERVICE 1 #define HAVE_LIBEXTRA 1 #define HAVE_LIBIEG 1 #define HAVE_PROJ_API_H 1 #define HAVE_LIBPROJ 1 #define HAVE_UDUNITS2_H 1 #define HAVE_LIBUDUNITS2 1 #define HAVE_MAGICS_API_H 1 #define HAVE_LIBMAGICS 1 #define HAVE_LIBXML_PARSER_H 1 #define HAVE_LIBXML_TREE_H 1 #define HAVE_LIBXML2 1 #define COMPILER "gcc -std=gnu99 -fopenmp" configure: exit 0