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 1.6.7, which was generated by GNU Autoconf 2.68. Invocation command line was $ ./configure CC=icc FC=ifort CXX=icpc --prefix=/export/home/dkumar/RLIB -with-netcdf=/export/home/dkumar/RLIB/ -with-hdf5=/export/home/dkumar/RLIB ## --------- ## ## Platform. ## ## --------- ## hostname = weather.jnu.ac.in uname -m = x86_64 uname -r = 2.6.32-279.14.1.el6.x86_64 uname -s = Linux uname -v = #1 SMP Tue Nov 6 23:43:09 UTC 2012 /usr/bin/uname -p = unknown /bin/uname -X = unknown /bin/arch = x86_64 /usr/bin/arch -k = unknown /usr/convex/getsysinfo = unknown /usr/bin/hostinfo = unknown /bin/machine = unknown /usr/bin/oslevel = unknown /bin/universe = unknown PATH: /export/home/dkumar/RLIB/bin PATH: /usr/local/ncl-6.3.0/bin PATH: /opt/intel/impi/4.1.0.024/intel64/bin PATH: /opt/intel/impi/4.1.0.024/intel64/bin PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/mpirt/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64_mic PATH: /opt/intel/composer_xe_2013.1.117/debugger/gui/intel64 PATH: /opt/intel/impi/4.1.0.024/intel64/bin PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/mpirt/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64_mic PATH: /opt/intel/composer_xe_2013.1.117/debugger/gui/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /export/home/dkumar/RLIB/bin PATH: /usr/local/ncl-6.3.0/bin PATH: /usr/local/ferret/bin PATH: /opt/intel/impi/4.1.0.024/intel64/bin PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/mpirt/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64_mic PATH: /opt/intel/composer_xe_2013.1.117/debugger/gui/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/mpirt/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64 PATH: /opt/intel/composer_xe_2013.1.117/bin/intel64_mic PATH: /opt/intel/composer_xe_2013.1.117/debugger/gui/intel64 PATH: /opt/openmpi/bin PATH: /usr/lib64/qt-3.3/bin PATH: /usr/local/bin PATH: /bin PATH: /usr/bin PATH: /opt/bio/ncbi/bin PATH: /opt/bio/mpiblast/bin PATH: /opt/bio/EMBOSS/bin PATH: /opt/bio/clustalw/bin PATH: /opt/bio/tcoffee/bin PATH: /opt/bio/hmmer/bin PATH: /opt/bio/phylip/exe PATH: /opt/bio/mrbayes PATH: /opt/bio/fasta PATH: /opt/bio/glimmer/bin PATH: /opt/bio/glimmer/scripts PATH: /opt/bio/gromacs/bin PATH: /opt/bio/gmap/bin PATH: /opt/bio/tigr/bin PATH: /opt/bio/autodocksuite/bin PATH: /opt/bio/wgs/bin PATH: /opt/eclipse PATH: /opt/ganglia/bin PATH: /opt/ganglia/sbin PATH: /usr/java/latest/bin PATH: /opt/maven/bin PATH: /opt/pdsh/bin PATH: /opt/rocks/bin PATH: /opt/rocks/sbin PATH: /opt/condor/bin PATH: /opt/condor/sbin PATH: /opt/gridengine/bin/linux-x64 PATH: /opt/apps/hdf5-1.8.5/bin PATH: /opt/apps/netcdf-4.1.2/bin PATH: /opt/apps/NETCDF/intel-netcdf/bin PATH: /opt/apps/JASPER/intel-jasper/bin PATH: /opt/apps/LIBPNG/intel-libpng/bin PATH: /usr/local/sbin PATH: /usr/sbin PATH: /sbin PATH: /opt/apps/hdf5-1.8.5/bin PATH: /opt/apps/netcdf-4.1.2/bin PATH: /opt/apps/NETCDF/intel-netcdf/bin PATH: /opt/apps/JASPER/intel-jasper/bin PATH: /opt/apps/LIBPNG/intel-libpng/bin PATH: /home/dkumar/bin/ PATH: /export/home/dkumar/RLIB/bin/ ## ----------- ## ## Core tests. ## ## ----------- ## configure:2601: checking build system type configure:2615: result: x86_64-unknown-linux-gnu configure:2635: checking host system type configure:2648: result: x86_64-unknown-linux-gnu configure:2687: checking for a BSD-compatible install configure:2755: result: /usr/bin/install -c configure:2766: checking whether build environment is sane configure:2821: result: yes configure:2972: checking for a thread-safe mkdir -p configure:3011: result: /bin/mkdir -p configure:3018: checking for gawk configure:3034: found /bin/gawk configure:3045: result: gawk configure:3056: checking whether make sets $(MAKE) configure:3078: result: yes configure:3107: checking whether make supports nested variables configure:3124: result: yes configure:3252: checking whether to enable maintainer-specific portions of Makefiles configure:3261: result: no configure:3276: setting up libtool configure:3324: checking how to print strings configure:3351: result: printf configure:3384: checking for style of include used by make configure:3412: result: GNU configure:3483: checking for gcc configure:3510: result: icc configure:3739: checking for C compiler version configure:3748: icc --version >&5 icc (ICC) 13.0.1 20121010 Copyright (C) 1985-2012 Intel Corporation. All rights reserved. configure:3759: $? = 0 configure:3748: icc -v >&5 icc version 13.0.1 (gcc version 4.4.6 compatibility) configure:3759: $? = 0 configure:3748: icc -V >&5 Intel(R) C Intel(R) 64 Compiler XE for applications running on Intel(R) 64, Version 13.0.1.117 Build 20121010 Copyright (C) 1985-2012 Intel Corporation. All rights reserved. configure:3759: $? = 0 configure:3748: icc -qversion >&5 icc: command line warning #10006: ignoring unknown option '-qversion' icc: command line error: no files specified; for help type "icc -help" configure:3759: $? = 1 configure:3779: checking whether the C compiler works configure:3801: icc conftest.c >&5 configure:3805: $? = 0 configure:3853: result: yes configure:3856: checking for C compiler default output file name configure:3858: result: a.out configure:3864: checking for suffix of executables configure:3871: icc -o conftest conftest.c >&5 configure:3875: $? = 0 configure:3897: result: configure:3919: checking whether we are cross compiling configure:3927: icc -o conftest conftest.c >&5 configure:3931: $? = 0 configure:3938: ./conftest configure:3942: $? = 0 configure:3957: result: no configure:3962: checking for suffix of object files configure:3984: icc -c conftest.c >&5 configure:3988: $? = 0 configure:4009: result: o configure:4013: checking whether we are using the GNU C compiler configure:4032: icc -c conftest.c >&5 configure:4032: $? = 0 configure:4041: result: yes configure:4050: checking whether icc accepts -g configure:4070: icc -c -g conftest.c >&5 configure:4070: $? = 0 configure:4111: result: yes configure:4128: checking for icc option to accept ISO C89 configure:4192: icc -c -g -O2 conftest.c >&5 configure:4192: $? = 0 configure:4205: result: none needed configure:4230: checking whether icc understands -c and -o together configure:4252: icc -c conftest.c -o conftest2.o configure:4255: $? = 0 configure:4252: icc -c conftest.c -o conftest2.o configure:4255: $? = 0 configure:4267: result: yes configure:4286: checking dependency style of icc configure:4397: result: gcc3 configure:4412: checking for a sed that does not truncate output configure:4476: result: /bin/sed configure:4494: checking for grep that handles long lines and -e configure:4552: result: /bin/grep configure:4557: checking for egrep configure:4619: result: /bin/grep -E configure:4624: checking for fgrep configure:4686: result: /bin/grep -F configure:4721: checking for ld used by icc configure:4788: result: /usr/bin/ld configure:4795: checking if the linker (/usr/bin/ld) is GNU ld configure:4810: result: yes configure:4822: checking for BSD- or MS-compatible name lister (nm) configure:4871: result: /usr/bin/nm -B configure:5001: checking the name lister (/usr/bin/nm -B) interface configure:5008: icc -c -g -O2 conftest.c >&5 configure:5011: /usr/bin/nm -B "conftest.o" configure:5014: output 0000000000000000 N .debug_info_seg 0000000000000000 B some_variable configure:5021: result: BSD nm configure:5024: checking whether ln -s works configure:5028: result: yes configure:5036: checking the maximum length of command line arguments configure:5166: result: 1966080 configure:5183: checking whether the shell understands some XSI constructs configure:5193: result: yes configure:5197: checking whether the shell understands "+=" configure:5203: result: yes configure:5238: checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format configure:5278: result: func_convert_file_noop configure:5285: checking how to convert x86_64-unknown-linux-gnu file names to toolchain format configure:5305: result: func_convert_file_noop configure:5312: checking for /usr/bin/ld option to reload object files configure:5319: result: -r configure:5393: checking for objdump configure:5409: found /usr/bin/objdump configure:5420: result: objdump configure:5452: checking how to recognize dependent libraries configure:5654: result: pass_all configure:5739: checking for dlltool configure:5769: result: no configure:5799: checking how to associate runtime and link libraries configure:5826: result: printf %s\n configure:5887: checking for ar configure:5903: found /usr/bin/ar configure:5914: result: ar configure:5951: checking for archiver @FILE support configure:5968: icc -c -g -O2 conftest.c >&5 configure:5968: $? = 0 configure:5971: ar cru libconftest.a @conftest.lst >&5 configure:5974: $? = 0 configure:5979: ar cru libconftest.a @conftest.lst >&5 ar: conftest.o: No such file or directory configure:5982: $? = 1 configure:5994: result: @ configure:6052: checking for strip configure:6068: found /usr/bin/strip configure:6079: result: strip configure:6151: checking for ranlib configure:6167: found /usr/bin/ranlib configure:6178: result: ranlib configure:6280: checking command to parse /usr/bin/nm -B output from icc object configure:6400: icc -c -g -O2 conftest.c >&5 configure:6403: $? = 0 configure:6407: /usr/bin/nm -B conftest.o \| sed -n -e 's/^.*[ ]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2 \2/p' | sed '/ __gnu_lto/d' \> conftest.nm configure:6410: $? = 0 configure:6476: icc -o conftest -g -O2 conftest.c conftstm.o >&5 configure:6479: $? = 0 configure:6517: result: ok configure:6554: checking for sysroot configure:6584: result: no configure:6661: icc -c -g -O2 conftest.c >&5 configure:6664: $? = 0 configure:6840: checking for mt configure:6870: result: no configure:6890: checking if : is a manifest tool configure:6896: : '-?' configure:6904: result: no configure:7546: checking how to run the C preprocessor configure:7577: icc -E conftest.c configure:7577: $? = 0 configure:7591: icc -E conftest.c conftest.c(11): error #2379: cannot open source file "ac_nonexistent.h" #include ^ configure:7591: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | /* end confdefs.h. */ | #include configure:7616: result: icc -E configure:7636: icc -E conftest.c configure:7636: $? = 0 configure:7650: icc -E conftest.c conftest.c(11): error #2379: cannot open source file "ac_nonexistent.h" #include ^ configure:7650: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | /* end confdefs.h. */ | #include configure:7679: checking for ANSI C header files configure:7699: icc -c -g -O2 conftest.c >&5 configure:7699: $? = 0 configure:7772: icc -o conftest -g -O2 conftest.c >&5 configure:7772: $? = 0 configure:7772: ./conftest configure:7772: $? = 0 configure:7783: result: yes configure:7796: checking for sys/types.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for sys/stat.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for stdlib.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for string.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for memory.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for strings.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for inttypes.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for stdint.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7796: checking for unistd.h configure:7796: icc -c -g -O2 conftest.c >&5 configure:7796: $? = 0 configure:7796: result: yes configure:7810: checking for dlfcn.h configure:7810: icc -c -g -O2 conftest.c >&5 configure:7810: $? = 0 configure:7810: result: yes configure:8016: checking for objdir configure:8031: result: .libs configure:8302: checking if icc supports -fno-rtti -fno-exceptions configure:8320: icc -c -g -O2 -fno-rtti -fno-exceptions conftest.c >&5 configure:8324: $? = 0 configure:8337: result: yes configure:8664: checking for icc option to produce PIC configure:8671: result: -fPIC -DPIC configure:8679: checking if icc PIC flag -fPIC -DPIC works configure:8697: icc -c -g -O2 -fPIC -DPIC -DPIC conftest.c >&5 configure:8701: $? = 0 configure:8714: result: yes configure:8743: checking if icc static flag -static works configure:8771: result: yes configure:8786: checking if icc supports -c -o file.o configure:8807: icc -c -g -O2 -o out/conftest2.o conftest.c >&5 configure:8811: $? = 0 configure:8833: result: yes configure:8841: checking if icc supports -c -o file.o configure:8888: result: yes configure:8921: checking whether the icc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries configure:10074: result: yes configure:10111: checking whether -lc should be explicitly linked in configure:10119: icc -c -g -O2 conftest.c >&5 configure:10122: $? = 0 configure:10137: icc -shared -fPIC -DPIC conftest.o -v -Wl,-soname -Wl,conftest -o conftest 2\>\&1 \| /bin/grep -lc \>/dev/null 2\>\&1 configure:10140: $? = 0 configure:10154: result: no configure:10314: checking dynamic linker characteristics configure:10825: icc -o conftest -g -O2 -Wl,-rpath -Wl,/foo conftest.c >&5 configure:10825: $? = 0 configure:11047: result: GNU/Linux ld.so configure:11154: checking how to hardcode library paths into programs configure:11179: result: immediate configure:11719: checking whether stripping libraries is possible configure:11724: result: yes configure:11759: checking if libtool supports shared libraries configure:11761: result: yes configure:11764: checking whether to build shared libraries configure:11785: result: yes configure:11788: checking whether to build static libraries configure:11792: result: yes configure:11874: checking for gcc configure:11901: result: icc configure:11923: checking for icc option to accept ISO C99 configure:12072: icc -c -g -O2 conftest.c >&5 conftest.c(73): error: expected a ")" test_restrict (ccp restrict text) ^ conftest.c(78): error: expected an expression for (unsigned int i = 0; *(text+i) != '\0'; ++i) ^ conftest.c(78): error: identifier "text" is undefined for (unsigned int i = 0; *(text+i) != '\0'; ++i) ^ conftest.c(78): error: identifier "i" is undefined for (unsigned int i = 0; *(text+i) != '\0'; ++i) ^ conftest.c(127): error: expected a ";" char *restrict newvar = "Another string"; ^ conftest.c(137): error: expected an expression for (int i = 0; i < ia->datasize; ++i) ^ conftest.c(137): error: identifier "i" is undefined for (int i = 0; i < ia->datasize; ++i) ^ conftest.c(153): error: identifier "newvar" is undefined return (!success || bignum == 0LL || ubignum == 0uLL || newvar[0] == 'x' ^ compilation aborted for conftest.c (code 2) configure:12072: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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:12072: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:12072: $? = 0 configure:12092: result: -std=gnu99 configure:12109: checking for icc -std=gnu99 option to support OpenMP configure:12124: icc -std=gnu99 -o conftest -g -O2 conftest.c >&5 conftest.c(25): error: identifier "choke" is undefined choke me ^ /opt/intel/composer_xe_2013.1.117/compiler/include/omp.h(76): error: expected a ";" typedef enum omp_sched_t { ^ /opt/intel/composer_xe_2013.1.117/compiler/include/omp.h(88): error: expected an identifier extern void __KAI_KMPC_CONVENTION omp_set_schedule (omp_sched_t, int); ^ /opt/intel/composer_xe_2013.1.117/compiler/include/omp.h(104): error: identifier "omp_sched_t" is undefined extern void __KAI_KMPC_CONVENTION omp_get_schedule (omp_sched_t *, int *); ^ compilation aborted for conftest.c (code 2) configure:12124: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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. */ | | #ifndef _OPENMP | choke me | #endif | #include | int main () { return omp_get_num_threads (); } | configure:12141: icc -std=gnu99 -o conftest -g -O2 -fopenmp conftest.c >&5 configure:12141: $? = 0 configure:12155: result: -fopenmp configure:12209: checking for ar configure:12236: result: ar configure:12393: checking for ld configure:12420: result: /usr/bin/ld -m elf_x86_64 configure:12485: checking for nm configure:12512: result: /usr/bin/nm -B configure:12577: checking for ar configure:12604: result: ar configure:12669: checking for as configure:12685: found /usr/bin/as configure:12696: result: as configure:12761: checking for dlltool configure:12788: result: false configure:12853: checking for objdump configure:12880: result: objdump configure:12945: checking for strip configure:12972: result: strip configure:13037: checking for ranlib configure:13064: result: ranlib configure:13199: checking for C++ compiler version configure:13208: icpc --version >&5 icpc (ICC) 13.0.1 20121010 Copyright (C) 1985-2012 Intel Corporation. All rights reserved. configure:13219: $? = 0 configure:13208: icpc -v >&5 icpc version 13.0.1 (gcc version 4.4.6 compatibility) configure:13219: $? = 0 configure:13208: icpc -V >&5 Intel(R) C++ Intel(R) 64 Compiler XE for applications running on Intel(R) 64, Version 13.0.1.117 Build 20121010 Copyright (C) 1985-2012 Intel Corporation. All rights reserved. configure:13219: $? = 0 configure:13208: icpc -qversion >&5 icpc: command line warning #10006: ignoring unknown option '-qversion' icpc: command line error: no files specified; for help type "icpc -help" configure:13219: $? = 1 configure:13223: checking whether we are using the GNU C++ compiler configure:13242: icpc -c conftest.cpp >&5 configure:13242: $? = 0 configure:13251: result: yes configure:13260: checking whether icpc accepts -g configure:13280: icpc -c -g conftest.cpp >&5 configure:13280: $? = 0 configure:13321: result: yes configure:13346: checking dependency style of icpc configure:13457: result: gcc3 configure:13490: checking how to run the C++ preprocessor configure:13517: icpc -E conftest.cpp configure:13517: $? = 0 configure:13531: icpc -E conftest.cpp conftest.cpp(23): error #2379: cannot open source file "ac_nonexistent.h" #include ^ configure:13531: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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:13556: result: icpc -E configure:13576: icpc -E conftest.cpp configure:13576: $? = 0 configure:13590: icpc -E conftest.cpp conftest.cpp(23): error #2379: cannot open source file "ac_nonexistent.h" #include ^ configure:13590: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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:13759: checking for ld used by icpc configure:13826: result: /usr/bin/ld -m elf_x86_64 configure:13833: checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld configure:13848: result: yes configure:13903: checking whether the icpc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries configure:14908: result: yes configure:14944: icpc -c -g -O2 conftest.cpp >&5 configure:14947: $? = 0 configure:15467: checking for icpc option to produce PIC configure:15474: result: -fPIC -DPIC configure:15482: checking if icpc PIC flag -fPIC -DPIC works configure:15500: icpc -c -g -O2 -fPIC -DPIC -DPIC conftest.cpp >&5 configure:15504: $? = 0 configure:15517: result: yes configure:15540: checking if icpc static flag -static works configure:15568: result: yes configure:15580: checking if icpc supports -c -o file.o configure:15601: icpc -c -g -O2 -o out/conftest2.o conftest.cpp >&5 configure:15605: $? = 0 configure:15627: result: yes configure:15632: checking if icpc supports -c -o file.o configure:15679: result: yes configure:15709: checking whether the icpc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries configure:15745: result: yes configure:15886: checking dynamic linker characteristics configure:16553: result: GNU/Linux ld.so configure:16606: checking how to hardcode library paths into programs configure:16631: result: immediate configure:16683: checking for special C compiler options needed for large files configure:16728: result: no configure:16734: checking for _FILE_OFFSET_BITS value needed for large files configure:16759: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:16759: $? = 0 configure:16791: result: no configure:16882: checking for stdlib.h configure:16882: result: yes configure:16882: checking for unistd.h configure:16882: result: yes configure:16882: checking for sys/param.h configure:16882: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:16882: $? = 0 configure:16882: result: yes configure:16902: checking for getpagesize configure:16902: icc -std=gnu99 -o conftest -g -O2 conftest.c >&5 configure:16902: $? = 0 configure:16902: result: yes configure:16911: checking for working mmap configure:17058: icc -std=gnu99 -o conftest -g -O2 conftest.c >&5 configure:17058: $? = 0 configure:17058: ./conftest configure:17058: $? = 0 configure:17068: result: yes configure:17079: checking for malloc in -lmalloc configure:17104: icc -std=gnu99 -o conftest -g -O2 conftest.c -lmalloc >&5 ld: cannot find -lmalloc configure:17104: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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:17113: result: no configure:17126: checking for struct stat.st_blksize configure:17126: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:17126: $? = 0 configure:17126: result: yes configure:17140: checking sys/resource.h usability configure:17140: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:17140: $? = 0 configure:17140: result: yes configure:17140: checking sys/resource.h presence configure:17140: icc -E conftest.c configure:17140: $? = 0 configure:17140: result: yes configure:17140: checking for sys/resource.h configure:17140: result: yes configure:17152: checking sys/times.h usability configure:17152: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:17152: $? = 0 configure:17152: result: yes configure:17152: checking sys/times.h presence configure:17152: icc -E conftest.c configure:17152: $? = 0 configure:17152: result: yes configure:17152: checking for sys/times.h configure:17152: result: yes configure:17164: checking malloc.h usability configure:17164: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:17164: $? = 0 configure:17164: result: yes configure:17164: checking malloc.h presence configure:17164: icc -E conftest.c configure:17164: $? = 0 configure:17164: result: yes configure:17164: checking for malloc.h configure:17164: result: yes configure:17176: checking glob.h usability configure:17176: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:17176: $? = 0 configure:17176: result: yes configure:17176: checking glob.h presence configure:17176: icc -E conftest.c configure:17176: $? = 0 configure:17176: result: yes configure:17176: checking for glob.h configure:17176: result: yes configure:17190: checking for mallinfo configure:17190: icc -std=gnu99 -o conftest -g -O2 conftest.c >&5 configure:17190: $? = 0 configure:17190: result: yes configure:17201: checking whether isnan is declared configure:17201: icc -std=gnu99 -c -g -O2 conftest.c >&5 configure:17201: $? = 0 configure:17201: result: yes configure:17216: checking for getrlimit configure:17216: icc -std=gnu99 -o conftest -g -O2 conftest.c >&5 configure:17216: $? = 0 configure:17216: result: yes configure:17227: checking for gethostname configure:17227: icc -std=gnu99 -o conftest -g -O2 conftest.c >&5 configure:17227: $? = 0 configure:17227: result: yes configure:17295: checking for floor in -lm configure:17320: icc -std=gnu99 -o conftest -g -O2 conftest.c -lm >&5 configure:17320: $? = 0 configure:17329: result: yes configure:17342: checking for DATA support configure:17359: result: yes configure:17503: checking if compiler needs -Werror to reject unknown flags configure:17519: icc -std=gnu99 -c -g -O2 -fopenmp -Werror -Wunknown-warning-option -Wsizeof-array-argument conftest.c >&5 icc: command line warning #10006: ignoring unknown option '-Wunknown-warning-option' icc: command line warning #10006: ignoring unknown option '-Wsizeof-array-argument' configure:17519: $? = 0 configure:17520: result: yes configure:17590: checking for the pthreads library -lpthreads configure:17628: icc -std=gnu99 -o conftest -g -O2 -fopenmp -Werror conftest.c -lpthreads -lm >&5 ld: cannot find -lpthreads configure:17628: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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 "icc (ICC) 13.0.1 20121010" | #define USER_NAME "dkumar" | #define HOST_NAME "weather.jnu.ac.in" | #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | /* end confdefs.h. */ | #include | static void routine(void *a) { a = 0; } | static void *start_routine(void *a) { return a; } | int | main () | { | pthread_t th; pthread_attr_t attr; | pthread_create(&th, 0, start_routine, 0); | pthread_join(th, 0); | pthread_attr_init(&attr); | pthread_cleanup_push(routine, 0); | pthread_cleanup_pop(0) /* ; */ | ; | return 0; | } configure:17637: result: no configure:17535: checking whether pthreads work without any flags configure:17628: icc -std=gnu99 -o conftest -g -O2 -fopenmp -Werror conftest.c -lm >&5 configure:17628: $? = 0 configure:17637: result: yes configure:17656: checking for joinable pthread attribute configure:17671: icc -std=gnu99 -o conftest -g -O2 -fopenmp conftest.c -lm >&5 configure:17671: $? = 0 configure:17677: result: PTHREAD_CREATE_JOINABLE configure:17687: checking if more special flags are required for pthreads configure:17702: result: no configure:17708: checking for PTHREAD_PRIO_INHERIT configure:17725: icc -std=gnu99 -o conftest -g -O2 -fopenmp conftest.c -lm >&5 conftest.c(47): error: identifier "PTHREAD_PRIO_INHERIT" is undefined int i = PTHREAD_PRIO_INHERIT; ^ compilation aborted for conftest.c (code 2) configure:17725: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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 "icc (ICC) 13.0.1 20121010" | #define USER_NAME "dkumar" | #define HOST_NAME "weather.jnu.ac.in" | #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | /* end confdefs.h. */ | #include | int | main () | { | int i = PTHREAD_PRIO_INHERIT; | ; | return 0; | } configure:17734: result: no configure:18072: checking zlib.h usability configure:18072: icc -std=gnu99 -c -g -O2 -fopenmp conftest.c >&5 configure:18072: $? = 0 configure:18072: result: yes configure:18072: checking zlib.h presence configure:18072: icc -E conftest.c configure:18072: $? = 0 configure:18072: result: yes configure:18072: checking for zlib.h configure:18072: result: yes configure:18082: checking for library containing deflate configure:18113: icc -std=gnu99 -o conftest -g -O2 -fopenmp conftest.c -lm >&5 /tmp/icchhxWRA.o: In function `main': /home/dkumar/RLIB/cdo-1.6.7/conftest.c:56: undefined reference to `deflate' configure:18113: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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 "icc (ICC) 13.0.1 20121010" | #define USER_NAME "dkumar" | #define HOST_NAME "weather.jnu.ac.in" | #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 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:18113: icc -std=gnu99 -o conftest -g -O2 -fopenmp conftest.c -lz -lm >&5 configure:18113: $? = 0 configure:18130: result: -lz configure:18320: checking for szlib library configure:18322: result: suppressed configure:18488: checking hdf5.h usability configure:18488: icc -std=gnu99 -c -g -O2 -fopenmp -I/export/home/dkumar/RLIB/include conftest.c >&5 /export/home/dkumar/RLIB/include/H5public.h(61): catastrophic error: cannot open source file "mpi.h" # include ^ compilation aborted for conftest.c (code 4) configure:18488: $? = 4 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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 "icc (ICC) 13.0.1 20121010" | #define USER_NAME "dkumar" | #define HOST_NAME "weather.jnu.ac.in" | #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 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:18488: result: no configure:18488: checking hdf5.h presence configure:18488: icc -E -I/export/home/dkumar/RLIB/include conftest.c /export/home/dkumar/RLIB/include/H5public.h(61): error #2379: cannot open source file "mpi.h" # include ^ /export/home/dkumar/RLIB/include/H5public.h(63): error #2379: cannot open source file "mpio.h" # include ^ configure:18488: $? = 2 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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 "icc (ICC) 13.0.1 20121010" | #define USER_NAME "dkumar" | #define HOST_NAME "weather.jnu.ac.in" | #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 1 | /* end confdefs.h. */ | #include configure:18488: result: no configure:18488: checking for hdf5.h configure:18488: result: no configure:18498: checking for library containing H5Fopen configure:18529: icc -std=gnu99 -o conftest -g -O2 -fopenmp -I/export/home/dkumar/RLIB/include -L/export/home/dkumar/RLIB/lib conftest.c -lz -lm >&5 /tmp/icc3BATe8.o: In function `main': /home/dkumar/RLIB/cdo-1.6.7/conftest.c:57: undefined reference to `H5Fopen' configure:18529: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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 "icc (ICC) 13.0.1 20121010" | #define USER_NAME "dkumar" | #define HOST_NAME "weather.jnu.ac.in" | #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 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:18529: icc -std=gnu99 -o conftest -g -O2 -fopenmp -I/export/home/dkumar/RLIB/include -L/export/home/dkumar/RLIB/lib conftest.c -lhdf5 -lz -lm >&5 /export/home/dkumar/RLIB/lib/libhdf5.a(H5Z.o): In function `H5Zregister': H5Z.c:(.text+0x2bb): undefined reference to `SZ_encoder_enabled' /export/home/dkumar/RLIB/lib/libhdf5.a(H5Z.o): In function `H5Zunregister': H5Z.c:(.text+0x704): undefined reference to `SZ_encoder_enabled' /export/home/dkumar/RLIB/lib/libhdf5.a(H5Z.o): In function `H5Z_unregister': H5Z.c:(.text+0xce9): undefined reference to `SZ_encoder_enabled' /export/home/dkumar/RLIB/lib/libhdf5.a(H5Z.o): In function `H5Zfilter_avail': H5Z.c:(.text+0x1501): undefined reference to `SZ_encoder_enabled' /export/home/dkumar/RLIB/lib/libhdf5.a(H5Z.o): In function `H5Z_filter_avail': H5Z.c:(.text+0x1851): undefined reference to `SZ_encoder_enabled' /export/home/dkumar/RLIB/lib/libhdf5.a(H5Z.o):H5Z.c:(.text+0x1ba7): more undefined references to `SZ_encoder_enabled' follow /export/home/dkumar/RLIB/lib/libhdf5.a(H5Zszip.o): In function `H5Z_filter_szip': H5Zszip.c:(.text+0x865): undefined reference to `SZ_BufftoBuffDecompress' H5Zszip.c:(.text+0x969): undefined reference to `SZ_BufftoBuffCompress' configure:18529: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "cdo" | #define PACKAGE_TARNAME "cdo" | #define PACKAGE_VERSION "1.6.7" | #define PACKAGE_STRING "cdo 1.6.7" | #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" | #define PACKAGE_URL "" | #define PACKAGE "cdo" | #define VERSION "1.6.7" | #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 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 "icc (ICC) 13.0.1 20121010" | #define USER_NAME "dkumar" | #define HOST_NAME "weather.jnu.ac.in" | #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" | #define HAVE_LIBM 1 | #define ENABLE_DATA 1 | #define HAVE_LIBPTHREAD 1 | #define HAVE_ZLIB_H 1 | #define HAVE_LIBZ 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:18546: result: no configure:18555: error: Cannot link to hdf5! It is required for netCDF4. ## ---------------- ## ## Cache variables. ## ## ---------------- ## ac_cv_build=x86_64-unknown-linux-gnu ac_cv_c_compiler_gnu=yes ac_cv_cxx_compiler_gnu=yes ac_cv_env_CCC_set= ac_cv_env_CCC_value= ac_cv_env_CC_set=set ac_cv_env_CC_value=icc ac_cv_env_CFLAGS_set= ac_cv_env_CFLAGS_value= ac_cv_env_CPPFLAGS_set= ac_cv_env_CPPFLAGS_value= ac_cv_env_CPP_set= ac_cv_env_CPP_value= ac_cv_env_CXXCPP_set= ac_cv_env_CXXCPP_value= ac_cv_env_CXXFLAGS_set= ac_cv_env_CXXFLAGS_value= ac_cv_env_CXX_set=set ac_cv_env_CXX_value=icpc ac_cv_env_LDFLAGS_set= ac_cv_env_LDFLAGS_value= ac_cv_env_LIBS_set= ac_cv_env_LIBS_value= ac_cv_env_build_alias_set= ac_cv_env_build_alias_value= ac_cv_env_host_alias_set= ac_cv_env_host_alias_value= ac_cv_env_target_alias_set= ac_cv_env_target_alias_value= ac_cv_func_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_glob_h=yes ac_cv_header_hdf5_h=no ac_cv_header_inttypes_h=yes ac_cv_header_malloc_h=yes ac_cv_header_memory_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_unistd_h=yes ac_cv_header_zlib_h=yes ac_cv_host=x86_64-unknown-linux-gnu ac_cv_lib_m_floor=yes ac_cv_lib_malloc_malloc=no 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='icc -E' ac_cv_prog_CXXCPP='icpc -E' ac_cv_prog_ac_ct_AR=ar ac_cv_prog_ac_ct_AS=as ac_cv_prog_ac_ct_CC=icc ac_cv_prog_ac_ct_DLLTOOL=false ac_cv_prog_ac_ct_LD='/usr/bin/ld -m elf_x86_64' 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_c_openmp=-fopenmp ac_cv_prog_cc_c89= ac_cv_prog_cc_c99=-std=gnu99 ac_cv_prog_cc_g=yes ac_cv_prog_cxx_g=yes ac_cv_prog_make_make_set=yes ac_cv_search_H5Fopen=no ac_cv_search_deflate=-lz ac_cv_sys_file_offset_bits=no ac_cv_sys_largefile_CC=no am_cv_CC_dependencies_compiler_type=gcc3 am_cv_CXX_dependencies_compiler_type=gcc3 am_cv_make_support_nested_variables=yes am_cv_prog_cc_c_o=yes ax_cv_PTHREAD_PRIO_INHERIT=no lt_cv_ar_at_file=@ 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 -m elf_x86_64' lt_cv_path_NM='/usr/bin/nm -B' lt_cv_path_mainfest_tool=no lt_cv_prog_compiler_c_o=yes lt_cv_prog_compiler_c_o_CXX=yes lt_cv_prog_compiler_pic='-fPIC -DPIC' lt_cv_prog_compiler_pic_CXX='-fPIC -DPIC' lt_cv_prog_compiler_pic_works=yes lt_cv_prog_compiler_pic_works_CXX=yes lt_cv_prog_compiler_rtti_exceptions=yes lt_cv_prog_compiler_static_works=yes lt_cv_prog_compiler_static_works_CXX=yes lt_cv_prog_gnu_ld=yes lt_cv_prog_gnu_ldcxx=yes lt_cv_sharedlib_from_linklib_cmd='printf %s\n' 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'\'' | sed '\''/ __gnu_lto/d'\''' 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]* .* \(.*\)$/extern char \1;/p'\''' lt_cv_sys_max_cmd_len=1966080 lt_cv_to_host_file_cmd=func_convert_file_noop lt_cv_to_tool_file_cmd=func_convert_file_noop ## ----------------- ## ## Output variables. ## ## ----------------- ## ACLOCAL='${SHELL} /home/dkumar/RLIB/cdo-1.6.7/config/missing aclocal-1.14' AMDEPBACKSLASH='\' AMDEP_FALSE='#' AMDEP_TRUE='' AMTAR='$${TAR-tar}' AM_BACKSLASH='\' AM_CPPFLAGS='' AM_DEFAULT_V='$(AM_DEFAULT_VERBOSITY)' AM_DEFAULT_VERBOSITY='1' AM_V='$(V)' AR='ar' AS='as' AUTOCONF='${SHELL} /home/dkumar/RLIB/cdo-1.6.7/config/missing autoconf' AUTOHEADER='${SHELL} /home/dkumar/RLIB/cdo-1.6.7/config/missing autoheader' AUTOMAKE='${SHELL} /home/dkumar/RLIB/cdo-1.6.7/config/missing automake-1.14' AWK='gawk' BUILD_AVX2_TESTS_FALSE='' BUILD_AVX2_TESTS_TRUE='' BUILD_AVX_TESTS_FALSE='' BUILD_AVX_TESTS_TRUE='' BUILD_SSE42_TESTS_FALSE='' BUILD_SSE42_TESTS_TRUE='' CC='icc -std=gnu99' CCDEPMODE='depmode=gcc3' CFLAGS='-g -O2 -fopenmp ' CLDFLAGS='' CLIBS='' CPP='icc -E' CPPFLAGS='-I/export/home/dkumar/RLIB/include ' CURL_INCLUDE='' CURL_LDFLAGS='' CXX='icpc' CXXCPP='icpc -E' CXXDEPMODE='depmode=gcc3' CXXFLAGS='-g -O2' CYGPATH_W='echo' DEFS='' DEPDIR='.deps' DLLTOOL='false' DSYMUTIL='' DUMPBIN='' ECHO_C='' ECHO_N='-n' ECHO_T='' EGREP='/bin/grep -E' ENABLE_ALL_STATIC_FALSE='' ENABLE_ALL_STATIC_TRUE='' ENABLE_CDI_LIB='' ENABLE_CDI_LIB_FALSE='' ENABLE_CDI_LIB_TRUE='' ENABLE_CGRIBEX='' ENABLE_DATA='yes' ENABLE_EXTRA='' ENABLE_GRIB='' ENABLE_GRIBAPI='' ENABLE_IEG='' ENABLE_MAGICS_FALSE='' ENABLE_MAGICS_TRUE='' ENABLE_NC2='' ENABLE_NC4='' ENABLE_NETCDF='' ENABLE_SERVICE='' EXEEXT='' FCFLAGS='' FGREP='/bin/grep -F' GREP='/bin/grep' GRIB_API_INCLUDE='' GRIB_API_LIBS='' HDF5_INCLUDE='' HDF5_LIBS='' HDF5_ROOT='/export/home/dkumar/RLIB' HOST_NAME='weather.jnu.ac.in' INSTALL_DATA='${INSTALL} -m 644' INSTALL_PROGRAM='${INSTALL}' INSTALL_SCRIPT='${INSTALL}' INSTALL_STRIP_PROGRAM='$(install_sh) -c -s' JASPER_LIBS='' LD='/usr/bin/ld -m elf_x86_64' LDFLAGS='-L/export/home/dkumar/RLIB/lib ' LIBOBJS='' LIBS='-lz -lm ' LIBTOOL='$(SHELL) $(top_builddir)/libtool' LIPO='' LN_S='ln -s' LTLIBOBJS='' MAGICS_INCLUDE='' MAGICS_LIBS='' MAGICS_ROOT='' MAINT='#' MAINTAINER_MODE_FALSE='' MAINTAINER_MODE_TRUE='#' MAKEINFO='${SHELL} /home/dkumar/RLIB/cdo-1.6.7/config/missing makeinfo' MANIFEST_TOOL=':' MKDIR_P='/bin/mkdir -p' NC_CONFIG='' NETCDF_INCLUDE='' NETCDF_LIBS='' NETCDF_ROOT='' NM='/usr/bin/nm -B' NMEDIT='' OBJDUMP='objdump' OBJEXT='o' OPENMP_CFLAGS='-fopenmp' OTOOL64='' OTOOL='' PACKAGE='cdo' PACKAGE_BUGREPORT='https://code.zmaw.de/projects/cdo' PACKAGE_NAME='cdo' PACKAGE_STRING='cdo 1.6.7' PACKAGE_TARNAME='cdo' PACKAGE_URL='' PACKAGE_VERSION='1.6.7' PATH_SEPARATOR=':' PROJ_INCLUDE='' PROJ_LDFLAGS='' PTHREAD_CC='icc -std=gnu99' PTHREAD_CFLAGS='' PTHREAD_LIBS='' RANLIB='ranlib' SED='/bin/sed' SET_MAKE='' SHELL='/bin/sh' STRIP='strip' SYSTEM_TYPE='x86_64-unknown-linux-gnu' SZLIB_INCLUDE='' SZLIB_LIBS='' THREADS_INCLUDE='' THREADS_LIBS='' UDUNITS_INCLUDE='' UDUNITS_LDFLAGS='' USER_NAME='dkumar' VERSION='1.6.7' XML2_LIBS='' ZLIB_INCLUDE='' ZLIB_LIBS=' -lz' ac_ct_AR='ar' ac_ct_CC='icc' ac_ct_CXX='' 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='${exec_prefix}/bin' build='x86_64-unknown-linux-gnu' build_alias='' build_cpu='x86_64' build_os='linux-gnu' build_vendor='unknown' datadir='${datarootdir}' datarootdir='${prefix}/share' docdir='${datarootdir}/doc/${PACKAGE_TARNAME}' dvidir='${docdir}' exec_prefix='NONE' host='x86_64-unknown-linux-gnu' host_alias='' host_cpu='x86_64' host_os='linux-gnu' host_vendor='unknown' htmldir='${docdir}' includedir='${prefix}/include' infodir='${datarootdir}/info' install_sh='${SHELL} /home/dkumar/RLIB/cdo-1.6.7/config/install-sh' libdir='${exec_prefix}/lib' libexecdir='${exec_prefix}/libexec' localedir='${datarootdir}/locale' localstatedir='${prefix}/var' mandir='${datarootdir}/man' mkdir_p='$(MKDIR_P)' oldincludedir='/usr/include' pdfdir='${docdir}' prefix='/export/home/dkumar/RLIB' program_transform_name='s,x,x,' psdir='${docdir}' sbindir='${exec_prefix}/sbin' sharedstatedir='${prefix}/com' subdirs='' sysconfdir='${prefix}/etc' target_alias='' ## ----------- ## ## confdefs.h. ## ## ----------- ## /* confdefs.h */ #define PACKAGE_NAME "cdo" #define PACKAGE_TARNAME "cdo" #define PACKAGE_VERSION "1.6.7" #define PACKAGE_STRING "cdo 1.6.7" #define PACKAGE_BUGREPORT "https://code.zmaw.de/projects/cdo" #define PACKAGE_URL "" #define PACKAGE "cdo" #define VERSION "1.6.7" #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 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 "icc (ICC) 13.0.1 20121010" #define USER_NAME "dkumar" #define HOST_NAME "weather.jnu.ac.in" #define SYSTEM_TYPE "x86_64-unknown-linux-gnu" #define HAVE_LIBM 1 #define ENABLE_DATA 1 #define HAVE_LIBPTHREAD 1 #define HAVE_ZLIB_H 1 #define HAVE_LIBZ 1 configure: exit 1