[FLASH-USERS] Solved: Undefined symbol in FLASH 3.0beta

[Cole Miller]

Hi all,

I'm writing this so there exists a specific record of the solution
to the problem I ran into, which is that I was getting runtime errors
such as
> flash3: symbol lookup error: flash3: undefined symbol: H5P_CLS_DATASET_XFER_g

or H5P_CLS_DATASET_CREATE_g in the case of FLASH2.5.  Dan Sheeler
suggested a couple of things, and the one that worked in my case
is an explicit setting of LD_LIBRARY_PATH to point to the compile
time hdf5 library:
    setenv LD_LIBRARY_PATH /astromake/opt/hdf5/1.6.6/lib:$LD_LIBRARY_PATH

A way of testing this that Dan suggested is to type "ldd flash3" in
the object/ directory.  With LD_LIBRARY_PATH defined I get
         linux-gate.so.1 =>  (0xffffe000)
         libsvml.so => /astromake/opt/intel/cc/9.1.043/lib/libsvml.so 
(0xb7f8c000)
         libhdf5.so.0 => /astromake/opt/hdf5/1.6.6/lib/libhdf5.so.0 
(0xb7e85000)
         libz.so.1 => /lib/libz.so.1 (0xb7e5a000)
         libpthread.so.0 => /lib/tls/libpthread.so.0 (0xb7e49000)
         librt.so.1 => /lib/tls/librt.so.1 (0xb7e35000)
         libm.so.6 => /lib/tls/libm.so.6 (0xb7e12000)
         libc.so.6 => /lib/tls/libc.so.6 (0xb7cf3000)
         libgcc_s.so.1 => /lib/libgcc_s.so.1 (0xb7cea000)
         libdl.so.2 => /lib/libdl.so.2 (0xb7ce6000)
         libirc.so => /astromake/opt/intel/cc/9.1.043/lib/libirc.so 
(0xb7ca5000)
         libimf.so => /astromake/opt/intel/cc/9.1.043/lib/libimf.so 
(0xb7a67000)
         /lib/ld-linux.so.2 => /lib/ld-linux.so.2 (0xb7fec000)

and without I get

         linux-gate.so.1 =>  (0xffffe000)
         libsvml.so => /astromake/opt/intel/cc/9.1.043/lib/libsvml.so 
(0xb7f8c000)
         libhdf5.so.0 => /usr/lib/libhdf5.so.0 (0xb7e9c000)
         libz.so.1 => /lib/libz.so.1 (0xb7e89000)
         libpthread.so.0 => /lib/tls/libpthread.so.0 (0xb7e78000)
         librt.so.1 => /lib/tls/librt.so.1 (0xb7e64000)
         libm.so.6 => /lib/tls/libm.so.6 (0xb7e41000)
         libc.so.6 => /lib/tls/libc.so.6 (0xb7d22000)
         libgcc_s.so.1 => /lib/libgcc_s.so.1 (0xb7d19000)
         libdl.so.2 => /lib/libdl.so.2 (0xb7d15000)
         libirc.so => /astromake/opt/intel/cc/9.1.043/lib/libirc.so 
(0xb7cd4000)
         /lib/ld-linux.so.2 => /lib/ld-linux.so.2 (0xb7fec000)

The differences are (1) libhdf5.so.0 is defined differently when
LD_LIBRARY_PATH points directly to the hdf5 library, and (2) when
this is defined we have an extra line, related to libimf.so.

Thanks to Dan for his help!

Cole