Daniel - thanks. It turned out that I did not include imp_misc in my
linked libs. probably easier installing imp ...
I didn't think you should have to include imp_misc directly if the
symbols are only referenced through imp_helper and you are doing
dynamic linking on linux. It should pull it in automatically as long
as the directory is in your linking rpath or your LD_LIBRARY_PATH.
That is
g++ main.cc -limp_helper -Lpath/to/libs -Wl,-rpath,path/to/libs
will work, but if you leave off the rpath it will not.
On Nov 9, 2009, at 6:49 PM, Daniel Russel wrote:
On Nov 9, 2009, at 6:21 PM, Keren Lasker wrote:
hi,
Compiling an external exe, I am getting an error in the linkage
stage, basically saying that helper can not see misc:
/usr/bin/ld: warning: libimp_misc.so, needed by /viola1/home/
kerenl/bioinformatics/projects/imp/build/lib/libi\
mp_helper.so, not found (try using -rpath or -rpath-link)
/viola1/home/kerenl/bioinformatics/projects/imp/build/lib/
libimp_helper.so: undefined reference to `IMP::misc:\
:get_module_version_info()'
/viola1/home/kerenl/bioinformatics/projects/imp/build/lib/
libimp_helper.so: undefined reference to `IMP::misc:\
:LowestRefinedPairScore::LowestRefinedPairScore(IMP::Refiner*,
IMP::PairScore*)'
collect2: ld returned 1 exit status
scons: *** [bin/clustering_coefficient] Error 1
How are you linking against imp_helper? How did you tell your
executable to find imp misc/helper? Do you set the rpath in your
executable or use imppy.sh? Is misc in the same dir as helper?
If you just passed the full path to imp helper to the link call for
the exe then the compiler has no way to find other libraries. You
should link as is done by binaries created within (say benchmarks/
bin) and either
- run everything using imppy.sh
- or install imp in some place and add that place to your
LD_LIBRARY_PATH and link search path
I tried changing the dependency order in the SCons files, but did
not succeed - can someone help ?