configure: netCDF 4.6.1 checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking target system type... x86_64-pc-linux-gnu checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... no checking whether make supports nested variables... no checking whether to enable maintainer-specific portions of Makefiles... no configure: checking user options checking whether a NCIO_MINBLOCKSIZE was specified... 256 checking if fsync support is enabled... no checking if jna bug workaround is enabledd... no checking whether we should build netCDF-4... no checking do we require hdf5 dynamic-loading support... yes checking whether reading of HDF4 SD files is to be enabled... no checking whether to fetch some sample HDF4 files from Unidata ftp site to test HDF4 reading (requires wget)... no checking whether we should attempt to install netcdf-fortran (EXPERIMENTAL)... no checking whether extra example tests should be run... no checking whether parallel IO tests should be run... no checking whether a default chunk size in bytes was specified... 4194304 checking whether a maximum per-variable cache size for HDF5 was specified... 67108864 checking whether a number of chunks for the default per-variable cache was specified... 10 checking whether a default file cache size for HDF5 was specified... 4194304 checking whether a default file cache maximum number of elements for HDF5 was specified... 1009 checking whether a default cache preemption for HDF5 was specified... 0.75 checking whether netCDF-4 logging is enabled... no checking whether DAP client(s) are to be built... no checking whether make supports the include directive... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for curl_easy_setopt in -lcurl... no checking whether dap remote testing should be enabled (default on)... no checking whether dap remote authorization testing should be enabled (default off)... no checking whether netcdf4 group names for DAP2 hould be enabled (default on)... yes configure: DAP2 groups is being disabled because DAP2 support is disabled or netcdf-4 disabled checking which remote test server(s) to use... remotetest.unidata.ucar.edu,jetstream.unidata.ucar.edu (defaults) checking whether the time-consuming dap tests should be enabled (default off)... no checking whether to enable strict null-byte header padding when reading (default off)... no checking whether FFIO will be used... no checking whether STDIO will be used... no checking whether examples should be built... yes checking whether v2 netCDF API should be built... yes checking whether the ncgen/ncdump/nccopy should be built... yes checking whether test should be built and run... yes checking whether large file (> 2GB) tests should be run... no checking whether benchmarks should be run (experimental)... no checking whether extreme numbers should be used in tests... yes checking where to put large temp files if large file tests are run... . configure: finding C compiler checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking dependency style of gcc... (cached) none checking for an ANSI C-conforming const... yes checking whether CURLOPT_USERNAME is defined... no checking whether CURLOPT_PASSWORD is defined... no checking whether CURLOPT_KEYPASSWD is defined... no checking whether CURLINFO_RESPONSE_CODE is defined... no configure: setting up libtool checking how to print strings... printf checking for a sed that does not truncate output... /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... mt checking if mt is a manifest tool... no checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... no checking whether to build static libraries... yes configure: finding other utilities checking for m4... m4 checking for doxygen... no configure: WARNING: Doxygen not found - documentation will not be built checking for dot... no configure: WARNING: dot not found - will use simple charts in documentation checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no configure: displaying some results checking CPPFLAGS... checking CC CFLAGS... gcc -fPIC -DSYSV -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ checking type gcc... gcc is /usr/bin/gcc checking CXX... unset checking FC... unset checking F90... unset checking AR... ar checking AR_FLAGS... cru checking type ar... ar is /usr/bin/ar checking NM... /usr/bin/nm -B checking NMFLAGS... configure: checking types, headers, and functions checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking libgen.h usability... yes checking libgen.h presence... yes checking for libgen.h... yes checking for ANSI C header files... (cached) yes checking locale.h usability... yes checking locale.h presence... yes checking for locale.h... yes checking stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking malloc.h usability... yes checking malloc.h presence... yes checking for malloc.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/stat.h... (cached) yes checking getopt.h usability... yes checking getopt.h presence... yes checking for getopt.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for sys/types.h... (cached) yes checking sys/resource.h usability... yes checking sys/resource.h presence... yes checking for sys/resource.h... yes checking ftw.h usability... yes checking ftw.h presence... yes checking for ftw.h... yes checking for strlcat... no checking for snprintf... yes checking for strdup... yes checking for strtoll... yes checking for strtoull... yes checking for mkstemp... yes checking for mktemp... yes checking for random... yes checking for getrlimit... yes checking for gettimeofday... yes checking for fsync... yes checking for MPI_Comm_f2c... no checking whether in-memory files are enabled... yes configure: WARNING: netcdf-4 not enabled; disabling DAP4 checking for memmove... yes checking for getpagesize... yes checking for sysconf... yes checking whether mmap is enabled for in-memory files... no checking for mremap... yes mmap function or mremap function is not available: disabling mmap checking for size_t... yes checking for working alloca.h... yes checking for alloca... yes checking whether isnan is declared... yes checking whether isinf is declared... yes checking whether isfinite is declared... yes checking for struct stat.st_blksize... yes checking for IEEE floating point format... yes checking for size_t... (cached) yes checking for ssize_t... yes checking for schar... no checking for uchar... no checking for longlong... no checking for ushort... yes checking for uint... yes checking for int64... no checking for uint64... no checking for off_t... yes checking whether byte ordering is bigendian... no checking size of short... 2 checking size of int... 4 checking size of long... 8 checking size of long long... 8 checking size of float... 4 checking size of double... 8 checking size of off_t... 8 checking size of size_t... 8 checking size of unsigned long long... 8 checking whether CDF5 support should be enabled... yes checking size of unsigned char... 1 checking size of ushort... 2 checking size of uint... 4 checking size of ushort... (cached) 2 checking size of uint... (cached) 4 checking size of ssize_t... 8 checking size of void*... 8 checking for floor in -lm... yes checking whether parallel I/O for classic files is to be enabled... no checking what to call the output of the ftpbin target... binary-netcdf-4.6.1_nc3.tar checking if libtool needs -no-undefined flag to build shared libraries... no checking value of LIBS... -lm checking If compilation is for use with JNA... no checking whether filter testing should be run... yes configure: WARNING: netCDF-4 disabled => --disable-filter-testing ./configure: line 14948: enable_filter_testing: command not found configure: WARNING: Shared libraries are disabled => --disable-filter-testing ./configure: line 14954: enable_filter_testing: command not found configure: generating header files and makefiles checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating test_common.sh config.status: creating nc_test4/findplugin.sh config.status: creating Makefile config.status: creating nc-config config.status: creating netcdf.pc config.status: creating libnetcdf.settings config.status: creating postinstall.sh config.status: creating include/netcdf_meta.h config.status: creating include/Makefile config.status: creating h5_test/Makefile config.status: creating hdf4_test/Makefile config.status: creating libsrc/Makefile config.status: creating libsrc4/Makefile config.status: creating libsrcp/Makefile config.status: creating ncdump/Makefile config.status: creating ncgen3/Makefile config.status: creating ncgen/Makefile config.status: creating examples/Makefile config.status: creating examples/C/Makefile config.status: creating examples/C/hdf5plugins/Makefile config.status: creating examples/CDL/Makefile config.status: creating oc2/Makefile config.status: creating libdap2/Makefile config.status: creating libdap4/Makefile config.status: creating libhdf4/Makefile config.status: creating libdispatch/Makefile config.status: creating liblib/Makefile config.status: creating ncdump/cdl/Makefile config.status: creating ncdump/expected/Makefile config.status: creating docs/Makefile config.status: creating docs/images/Makefile config.status: creating nctest/Makefile config.status: creating nc_test4/Makefile config.status: creating nc_test4/hdf5plugins/Makefile config.status: creating nc_test/Makefile config.status: creating ncdap_test/Makefile config.status: creating ncdap_test/testdata3/Makefile config.status: creating ncdap_test/expected3/Makefile config.status: creating ncdap_test/expectremote3/Makefile config.status: creating dap4_test/Makefile config.status: creating config.h config.status: config.h is unchanged config.status: executing depfiles commands config.status: error: in `/home/ritu/software/amber18/AmberTools/src/netcdf-4.6.1': config.status: error: Something went wrong bootstrapping makefile fragments for automatic dependency tracking. Try re-running configure with the '--disable-dependency-tracking' option to at least be able to build the package (albeit without support for automatic dependency tracking). See `config.log' for more details