the.drizzle
November 11th, 2009, 11:23 AM
Hello!
So I thought I'd try out this new bit of software, and I know it's beta software so I'm not expecting a 100% easy path. However, I cannot seem to get past this error from the ./configure script. I'm all out of ideas, and don't really understand what it's telling me, as I have hdf5 development packages installed. What else might this script even be looking for?
Thanks in advance!
drizzle@klatu:~/scilab_5/scilab-5.2.0-beta-1$ ./configure
checking whether ln -s works... yes
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
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 for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... 64
checking for a BSD-compatible install... /usr/bin/install -c
checking build system type... i686-pc-linux-gnu
checking host system type... i686-pc-linux-gnu
checking for ld used by GCC... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for shared library path variable... LD_LIBRARY_PATH
checking whether to activate relocatable installation... no
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -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 shared library run path origin... done
checking whether to enable maintainer-specific portions of Makefiles... no
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for style of include used by make... GNU
checking dependency style of gcc... gcc3
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... (cached) /bin/grep
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for g77... no
checking for xlf... no
checking for f77... no
checking for frt... no
checking for pgf77... no
checking for cf77... no
checking for fort77... no
checking for fl32... no
checking for af77... no
checking for xlf90... no
checking for f90... no
checking for pgf90... no
checking for pghpf... no
checking for epcf90... no
checking for gfortran... gfortran
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking if gfortran is a fortran 90 compatible compiler... yes
checking size of int... 4
checking size of long... 4
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking for g++... yes
checking whether gcc and cc understand -c and -o together... yes
checking whether gfortran understands -c and -o together... yes
checking for nm... nm
checking for leading underscores with Fortran (name-mangling scheme)... no
checking for trailing underscores with Fortran (name-mangling scheme)... yes
checking use of the sharpsign in CPP... yes
Define C2F with Trailing Underscore and Sharp Sign
checking hdf5.h usability... yes
checking hdf5.h presence... yes
checking for hdf5.h... yes
checking for H5Fopen in -lhdf5... yes
checking JAVA_HOME variable... not defined
checking for javac... /usr/bin/javac
checking Symlink for /usr/bin/javac... /etc/alternatives/javac
checking Symlink for /etc/alternatives/javac... /usr/lib/jvm/java-6-sun/bin/javac
Java base directory (probably) available here : /usr/lib/jvm/java-6-sun
checking for zip or jar files to include on CLASSPATH...
checking to see if the java compiler works... yes
Using JAVAC=/usr/lib/jvm/java-6-sun/bin/javac
Java found in /usr/lib/jvm/java-6-sun
checking type of jvm... jdk
checking java API version... 1.5
Using the following JNI include flags -I/usr/lib/jvm/java-6-sun/include -I/usr/lib/jvm/java-6-sun/include/linux
checking if jni.h can be included... yes
Looking for JNI libs with i386 as machine hardware name
Looking for /usr/lib/jvm/java-6-sun/jre/lib/i386/libjava.so
Found /usr/lib/jvm/java-6-sun/jre/lib/i386/libjava.so
Using the following JNI library flags -L/usr/lib/jvm/java-6-sun/jre/lib/i386 -ljava -lverify -L/usr/lib/jvm/java-6-sun/jre/lib/i386/client -ljvm -L/usr/lib/jvm/java-6-sun/jre/lib/i386/native_threads -lhpi
Using the following runtime library path /usr/lib/jvm/java-6-sun/jre/lib/i386:/usr/lib/jvm/java-6-sun/jre/lib/i386/client:/usr/lib/jvm/java-6-sun/jre/lib/i386/native_threads
checking to see if we can link a JNI application... yes
checking for zip or jar files to include on CLASSPATH...
checking for java... /usr/lib/jvm/java-6-sun/bin/java
checking for java_g... no
checking for javah... /usr/lib/jvm/java-6-sun/bin/javah
checking for jar... /usr/lib/jvm/java-6-sun/bin/jar
checking for jdb... /usr/lib/jvm/java-6-sun/bin/jdb
checking for ant... /usr/bin/ant
checking jgraphx... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jgraphx.jar
checking flexdock... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/flexdock-0.5.1.jar
checking looks... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/looks-2.1.1.jar
checking skinlf... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/skinlf.jar
checking jogl... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jogl.jar
checking for glTexParameterf in -ljogl... yes
checking gluegen-rt... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/gluegen-rt.jar
checking for Java_com_sun_gluegen_runtime_UnixDynamicLinkerImpl _dlclose__J in -lgluegen-rt... yes
checking jhall... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jhall.jar
checking jrosetta-API... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jrosetta-API.jar
checking jrosetta-engine... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jrosetta-engine.jar
checking jhdf5... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jhdf5.jar
checking commons-logging... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/commons-logging.jar
checking jlatexmath... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jlatexmath-0.5.jar
checking checkstyle... /usr/share/java//checkstyle.jar
checking commons-beanutils... /usr/share/java//commons-beanutils.jar
checking antlr... /usr/share/java//antlr.jar
checking for sleep... yes
checking for usleep... yes
checking for dup2... yes
checking for getcwd... yes
checking for getpagesize... yes
checking for getpass... yes
checking for rmdir... yes
checking for getwd... yes
checking for regcomp... yes
checking for atexit... yes
checking for putenv... yes
checking for setenv... yes
checking for bzero... yes
checking for memmove... yes
checking for memset... yes
checking for strcasecmp... yes
checking for strerror... yes
checking for strchr... yes
checking for strdup... yes
checking for strpbrk... yes
checking for strrchr... yes
checking for strstr... yes
checking for strtol... yes
checking for select... yes
checking for endpwent... yes
checking for gethostbyaddr... yes
checking for gethostbyname... yes
checking for gethostname... yes
checking for gettimeofday... yes
checking for isascii... yes
checking for iswprint... yes
checking for mkdir... yes
checking for munmap... yes
checking for pow... yes
checking for sqrt... yes
checking for finite... yes
checking for floor... yes
checking for exp10... yes
checking for isinf... yes
checking for re_comp... yes
checking for socket... yes
checking for uname... yes
checking for setlocale... yes
checking for working memcmp... yes
checking whether lstat dereferences a symlink specified with a trailing slash... yes
checking whether stat accepts an empty string... no
checking for working strtod... yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking values.h usability... yes
checking values.h presence... yes
checking for values.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking float.h usability... yes
checking float.h presence... yes
checking for float.h... yes
checking libintl.h usability... yes
checking libintl.h presence... yes
checking for libintl.h... yes
checking locale.h usability... yes
checking locale.h presence... yes
checking for locale.h... yes
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking netdb.h usability... yes
checking netdb.h presence... yes
checking for netdb.h... yes
checking netinet/in.h usability... yes
checking netinet/in.h presence... yes
checking for netinet/in.h... yes
checking nlist.h usability... no
checking nlist.h presence... no
checking for nlist.h... no
checking sgtty.h usability... yes
checking sgtty.h presence... yes
checking for sgtty.h... yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking sys/file.h usability... yes
checking sys/file.h presence... yes
checking for sys/file.h... yes
checking sys/ioctl.h usability... yes
checking sys/ioctl.h presence... yes
checking for sys/ioctl.h... yes
checking sys/param.h usability... yes
checking sys/param.h presence... yes
checking for sys/param.h... yes
checking sys/socket.h usability... yes
checking sys/socket.h presence... yes
checking for sys/socket.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking sys/timeb.h usability... yes
checking sys/timeb.h presence... yes
checking for sys/timeb.h... yes
checking sys/utsname.h usability... yes
checking sys/utsname.h presence... yes
checking for sys/utsname.h... yes
checking syslog.h usability... yes
checking syslog.h presence... yes
checking for syslog.h... yes
checking term.h usability... yes
checking term.h presence... yes
checking for term.h... yes
checking termcap.h usability... yes
checking termcap.h presence... yes
checking for termcap.h... yes
checking termio.h usability... yes
checking termio.h presence... yes
checking for termio.h... yes
checking termios.h usability... yes
checking termios.h presence... yes
checking for termios.h... yes
checking wchar.h usability... yes
checking wchar.h presence... yes
checking for wchar.h... yes
checking wctype.h usability... yes
checking wctype.h presence... yes
checking for wctype.h... yes
checking time.h usability... yes
checking time.h presence... yes
checking for time.h... yes
checking for dirent.h that defines DIR... yes
checking for library containing opendir... none required
checking whether time.h and sys/time.h may both be included... yes
checking for sys/wait.h that is POSIX.1 compatible... yes
checking for struct stat.st_blksize... yes
checking for struct stat.st_rdev... yes
checking whether NLS is requested... yes
checking for msgfmt... /usr/bin/msgfmt
checking for gmsgfmt... /usr/bin/msgfmt
checking for xgettext... /usr/bin/xgettext
checking for msgmerge... /usr/bin/msgmerge
checking for CFPreferencesCopyAppValue... no
checking for CFLocaleCopyCurrent... no
checking for GNU gettext in libc... yes
checking whether to use NLS... yes
checking where the gettext function comes from... libc
checking whether closedir returns void... no
checking return type of signal handlers... void
checking whether struct tm is in sys/time.h or time.h... time.h
checking for struct stat.st_blocks... yes
checking for main in -lcurses... yes
checking for library containing tgetent... none required
checking ncurses.h usability... yes
checking ncurses.h presence... yes
checking for ncurses.h... yes
checking curses.h usability... yes
checking curses.h presence... yes
checking for curses.h... yes
checking for dlopen in -ldl... yes
checking for library containing pthread_join... -lpthread
checking for clock_gettime in -lrt... yes
checking for h5JNIFatalError in -ljhdf5... no
configure: error: libjhdf5: Library missing (Cannot find symbol h5JNIFatalError). Check if libjhdf5 - C/Java (JNI) interface for HDF5 - is installed and if the version is correct. Note that you might have to update etc/librarypath.xml to provide the actual path the the JNI libraries.
So I thought I'd try out this new bit of software, and I know it's beta software so I'm not expecting a 100% easy path. However, I cannot seem to get past this error from the ./configure script. I'm all out of ideas, and don't really understand what it's telling me, as I have hdf5 development packages installed. What else might this script even be looking for?
Thanks in advance!
drizzle@klatu:~/scilab_5/scilab-5.2.0-beta-1$ ./configure
checking whether ln -s works... yes
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
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 for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... 64
checking for a BSD-compatible install... /usr/bin/install -c
checking build system type... i686-pc-linux-gnu
checking host system type... i686-pc-linux-gnu
checking for ld used by GCC... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for shared library path variable... LD_LIBRARY_PATH
checking whether to activate relocatable installation... no
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -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 shared library run path origin... done
checking whether to enable maintainer-specific portions of Makefiles... no
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for style of include used by make... GNU
checking dependency style of gcc... gcc3
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... (cached) /bin/grep
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for g77... no
checking for xlf... no
checking for f77... no
checking for frt... no
checking for pgf77... no
checking for cf77... no
checking for fort77... no
checking for fl32... no
checking for af77... no
checking for xlf90... no
checking for f90... no
checking for pgf90... no
checking for pghpf... no
checking for epcf90... no
checking for gfortran... gfortran
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking if gfortran is a fortran 90 compatible compiler... yes
checking size of int... 4
checking size of long... 4
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking for g++... yes
checking whether gcc and cc understand -c and -o together... yes
checking whether gfortran understands -c and -o together... yes
checking for nm... nm
checking for leading underscores with Fortran (name-mangling scheme)... no
checking for trailing underscores with Fortran (name-mangling scheme)... yes
checking use of the sharpsign in CPP... yes
Define C2F with Trailing Underscore and Sharp Sign
checking hdf5.h usability... yes
checking hdf5.h presence... yes
checking for hdf5.h... yes
checking for H5Fopen in -lhdf5... yes
checking JAVA_HOME variable... not defined
checking for javac... /usr/bin/javac
checking Symlink for /usr/bin/javac... /etc/alternatives/javac
checking Symlink for /etc/alternatives/javac... /usr/lib/jvm/java-6-sun/bin/javac
Java base directory (probably) available here : /usr/lib/jvm/java-6-sun
checking for zip or jar files to include on CLASSPATH...
checking to see if the java compiler works... yes
Using JAVAC=/usr/lib/jvm/java-6-sun/bin/javac
Java found in /usr/lib/jvm/java-6-sun
checking type of jvm... jdk
checking java API version... 1.5
Using the following JNI include flags -I/usr/lib/jvm/java-6-sun/include -I/usr/lib/jvm/java-6-sun/include/linux
checking if jni.h can be included... yes
Looking for JNI libs with i386 as machine hardware name
Looking for /usr/lib/jvm/java-6-sun/jre/lib/i386/libjava.so
Found /usr/lib/jvm/java-6-sun/jre/lib/i386/libjava.so
Using the following JNI library flags -L/usr/lib/jvm/java-6-sun/jre/lib/i386 -ljava -lverify -L/usr/lib/jvm/java-6-sun/jre/lib/i386/client -ljvm -L/usr/lib/jvm/java-6-sun/jre/lib/i386/native_threads -lhpi
Using the following runtime library path /usr/lib/jvm/java-6-sun/jre/lib/i386:/usr/lib/jvm/java-6-sun/jre/lib/i386/client:/usr/lib/jvm/java-6-sun/jre/lib/i386/native_threads
checking to see if we can link a JNI application... yes
checking for zip or jar files to include on CLASSPATH...
checking for java... /usr/lib/jvm/java-6-sun/bin/java
checking for java_g... no
checking for javah... /usr/lib/jvm/java-6-sun/bin/javah
checking for jar... /usr/lib/jvm/java-6-sun/bin/jar
checking for jdb... /usr/lib/jvm/java-6-sun/bin/jdb
checking for ant... /usr/bin/ant
checking jgraphx... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jgraphx.jar
checking flexdock... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/flexdock-0.5.1.jar
checking looks... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/looks-2.1.1.jar
checking skinlf... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/skinlf.jar
checking jogl... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jogl.jar
checking for glTexParameterf in -ljogl... yes
checking gluegen-rt... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/gluegen-rt.jar
checking for Java_com_sun_gluegen_runtime_UnixDynamicLinkerImpl _dlclose__J in -lgluegen-rt... yes
checking jhall... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jhall.jar
checking jrosetta-API... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jrosetta-API.jar
checking jrosetta-engine... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jrosetta-engine.jar
checking jhdf5... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jhdf5.jar
checking commons-logging... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/commons-logging.jar
checking jlatexmath... /home/drizzle/scilab_5/scilab-5.2.0-beta-1/thirdparty/jlatexmath-0.5.jar
checking checkstyle... /usr/share/java//checkstyle.jar
checking commons-beanutils... /usr/share/java//commons-beanutils.jar
checking antlr... /usr/share/java//antlr.jar
checking for sleep... yes
checking for usleep... yes
checking for dup2... yes
checking for getcwd... yes
checking for getpagesize... yes
checking for getpass... yes
checking for rmdir... yes
checking for getwd... yes
checking for regcomp... yes
checking for atexit... yes
checking for putenv... yes
checking for setenv... yes
checking for bzero... yes
checking for memmove... yes
checking for memset... yes
checking for strcasecmp... yes
checking for strerror... yes
checking for strchr... yes
checking for strdup... yes
checking for strpbrk... yes
checking for strrchr... yes
checking for strstr... yes
checking for strtol... yes
checking for select... yes
checking for endpwent... yes
checking for gethostbyaddr... yes
checking for gethostbyname... yes
checking for gethostname... yes
checking for gettimeofday... yes
checking for isascii... yes
checking for iswprint... yes
checking for mkdir... yes
checking for munmap... yes
checking for pow... yes
checking for sqrt... yes
checking for finite... yes
checking for floor... yes
checking for exp10... yes
checking for isinf... yes
checking for re_comp... yes
checking for socket... yes
checking for uname... yes
checking for setlocale... yes
checking for working memcmp... yes
checking whether lstat dereferences a symlink specified with a trailing slash... yes
checking whether stat accepts an empty string... no
checking for working strtod... yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking values.h usability... yes
checking values.h presence... yes
checking for values.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking float.h usability... yes
checking float.h presence... yes
checking for float.h... yes
checking libintl.h usability... yes
checking libintl.h presence... yes
checking for libintl.h... yes
checking locale.h usability... yes
checking locale.h presence... yes
checking for locale.h... yes
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking netdb.h usability... yes
checking netdb.h presence... yes
checking for netdb.h... yes
checking netinet/in.h usability... yes
checking netinet/in.h presence... yes
checking for netinet/in.h... yes
checking nlist.h usability... no
checking nlist.h presence... no
checking for nlist.h... no
checking sgtty.h usability... yes
checking sgtty.h presence... yes
checking for sgtty.h... yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking sys/file.h usability... yes
checking sys/file.h presence... yes
checking for sys/file.h... yes
checking sys/ioctl.h usability... yes
checking sys/ioctl.h presence... yes
checking for sys/ioctl.h... yes
checking sys/param.h usability... yes
checking sys/param.h presence... yes
checking for sys/param.h... yes
checking sys/socket.h usability... yes
checking sys/socket.h presence... yes
checking for sys/socket.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking sys/timeb.h usability... yes
checking sys/timeb.h presence... yes
checking for sys/timeb.h... yes
checking sys/utsname.h usability... yes
checking sys/utsname.h presence... yes
checking for sys/utsname.h... yes
checking syslog.h usability... yes
checking syslog.h presence... yes
checking for syslog.h... yes
checking term.h usability... yes
checking term.h presence... yes
checking for term.h... yes
checking termcap.h usability... yes
checking termcap.h presence... yes
checking for termcap.h... yes
checking termio.h usability... yes
checking termio.h presence... yes
checking for termio.h... yes
checking termios.h usability... yes
checking termios.h presence... yes
checking for termios.h... yes
checking wchar.h usability... yes
checking wchar.h presence... yes
checking for wchar.h... yes
checking wctype.h usability... yes
checking wctype.h presence... yes
checking for wctype.h... yes
checking time.h usability... yes
checking time.h presence... yes
checking for time.h... yes
checking for dirent.h that defines DIR... yes
checking for library containing opendir... none required
checking whether time.h and sys/time.h may both be included... yes
checking for sys/wait.h that is POSIX.1 compatible... yes
checking for struct stat.st_blksize... yes
checking for struct stat.st_rdev... yes
checking whether NLS is requested... yes
checking for msgfmt... /usr/bin/msgfmt
checking for gmsgfmt... /usr/bin/msgfmt
checking for xgettext... /usr/bin/xgettext
checking for msgmerge... /usr/bin/msgmerge
checking for CFPreferencesCopyAppValue... no
checking for CFLocaleCopyCurrent... no
checking for GNU gettext in libc... yes
checking whether to use NLS... yes
checking where the gettext function comes from... libc
checking whether closedir returns void... no
checking return type of signal handlers... void
checking whether struct tm is in sys/time.h or time.h... time.h
checking for struct stat.st_blocks... yes
checking for main in -lcurses... yes
checking for library containing tgetent... none required
checking ncurses.h usability... yes
checking ncurses.h presence... yes
checking for ncurses.h... yes
checking curses.h usability... yes
checking curses.h presence... yes
checking for curses.h... yes
checking for dlopen in -ldl... yes
checking for library containing pthread_join... -lpthread
checking for clock_gettime in -lrt... yes
checking for h5JNIFatalError in -ljhdf5... no
configure: error: libjhdf5: Library missing (Cannot find symbol h5JNIFatalError). Check if libjhdf5 - C/Java (JNI) interface for HDF5 - is installed and if the version is correct. Note that you might have to update etc/librarypath.xml to provide the actual path the the JNI libraries.