Charm++ parallel programming system

["Michael S. Sellers (Cont, ARL/WMRD)" <michael.s.sellers.ctr AT us.army.mil>]

All,

This message was sent to the NAMD listserv about a week ago, and I haven't heard anything back so I thought I would try charm.  

I am trying to build NAMD as a shared library, but having some linking 
trouble.  I realize it can't "work" as is without an interface, but this 
is a first step.

I first compiled Charm++ as a shared libary, as well as FFTW and TCL.  
Then I edited the NAMD Makefile and added -fPIC in the compiler options, 
and an additional linkage section to create "libnamd.so" with 
"-charm-shared" and "-rdynamic" options.  It seems to compile and link 
okay via the edited Makefile.  "namd2" from the compile runs fine.

I'm testing the libnamd.so library using a simple program that sets 
"dlopen("path-to-library", RTLD_LAZY);" equal to a dummy pointer.  
However, with this I am getting an error.

****loadNAMD.C******
  ....

  cout << "Opening libnamd.so...\n";
  void* handle = dlopen("software/lib/NAMD/libnamd.so", RTLD_LAZY);
  if (handle == NULL){
      printf("%s\n", dlerror());
      return 0;
  }

***********************

[]$ g++ loadNAMD.C -o loadNAMD -rdynamic -ldl
[]$ ./loadNAMD

The output of dlerror() is:

Opening libnamd.so...
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libconv-core.so: 
undefined symbol: Cpv_CthData_

I'm wondering if this is being caused by a lack of Charm++ (via charmrun 
or charmc), or the fact that dlopen invokes any _init() methods existing 
in the code (I read that somewhere...) ?  I would appreciate any 
suggestions from those who are familiar with this type of thing.  I have 
included the output of "ldd -d libnamd.so" at the bottom of this message.

Thanks,

Michael Sellers

[]$ ldd -d ~/software/lib/NAMD/libnamd.so
      libmoduleNeighborLB.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libmoduleNeighborLB.so 
(0x00002b7fe9318000)
      libmoduleHybridLB.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libmoduleHybridLB.so 
(0x00002b7fe9524000)
      libmoduleRefineLB.so => 
/software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libmoduleRefineLB.so 
(0x00002b7fe9730000)
      libmoduleGreedyLB.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libmoduleGreedyLB.so 
(0x00002b7fe993b000)
      libck.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so 
(0x00002b7fe9b48000)
      libconv-cplus-y.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libconv-cplus-y.so 
(0x00002b7fe9f23000)
      libconv-core.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libconv-core.so 
(0x00002b7fea138000)
      libconv-util.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libconv-util.so 
(0x00002b7fea3d4000)
      libpthread.so.0 => /lib64/libpthread.so.0 (0x00002b7fea61a000)
      libckqt.so => 
software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libckqt.so 
(0x00002b7fea835000)
      libdl.so.2 => /lib64/libdl.so.2 (0x00002b7feaa39000)
      libtcl8.5.so => software/lib/libtcl8.5.so (0x00002b7feac3d000)
      libsrfftw.so.2 => software/lib/libsrfftw.so.2 (0x00002b7feaf58000)
      libsfftw.so.2 => software/lib/libsfftw.so.2 (0x00002b7feb188000)
      libm.so.6 => /lib64/libm.so.6 (0x00002b7feb3be000)
      libstdc++.so.6 => /usr/local/lib64/libstdc++.so.6 
(0x00002b7feb641000)
      libgcc_s.so.1 => /usr/local/lib64/libgcc_s.so.1 (0x00002b7feb947000)
      libc.so.6 => /lib64/libc.so.6 (0x00002b7febb5c000)
      /lib64/ld-linux-x86-64.so.2 (0x0000003f25000000)
undefined symbol: Cpv_CthData_  
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libconv-core.so) 

undefined symbol: cpd_memory_pup        
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

undefined symbol: memory_stack_top      
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

undefined symbol: Cpv_CthData_  
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

undefined symbol: cpd_memory_length     
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

undefined symbol: cpd_memory_getLength  
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

undefined symbol: cpdInSystem   
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

undefined symbol: cpd_memory_get        
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

undefined symbol: memory_status_info    
(software/src/NAMD_CVS_Source/Linux-x86_64-g++/.rootdir/charm-6.2.2/multicore-linux64/lib_so/libck.so) 

[]$

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