I've run into problems compiling libz into Ray on the Amazon EC2
AMI ami-4583572c, which I believe is the correct AMI to run the HPC cluster
instances.
I changed HAVE_LIBZ to y (and the other files are compling with it), but
the final link step is failing; any suggestions? FastqGzLoader
complilation is apparently not being attempted. I tried compiling
the FastqGzLoader by hand, but that didn't help; still fails at linking.
Any suggestions?
make[1]: Leaving directory
`/data2/2013-02-public-soil/packages/Ray-v2.1.0/code'
mpicxx -lz code/TheRayGenomeAssembler.a RayPlatform/libRayPlatform.a -o
Ray
code/TheRayGenomeAssembler.a(Loader.o): In function
`Loader::load(std::basic_string<char, std::char_traits<char>,
std::allocator<char> >, bool)':
Loader.cpp:(.text+0xb89): undefined reference to
`FastqGzLoader::open(std::basic_string<char, std::char_traits<char>,
std::allocator<char> >, int)'
Loader.cpp:(.text+0xbac): undefined reference to `FastqGzLoader::getSize()'
Loader.cpp:(.text+0xc42): undefined reference to
`FastqGzLoader::open(std::basic_string<char, std::char_traits<char>,
std::allocator<char> >, int)'
code/TheRayGenomeAssembler.a(Loader.o): In function
`Loader::loadSequences()':
Loader.cpp:(.text+0x1322): undefined reference to `FastqGzLoader::load(int,
ArrayOfReads*, MyAllocator*, int)'
collect2: ld returned 1 exit status
make: *** [Ray] Error 1
------------------------------------------------------------------------------
Free Next-Gen Firewall Hardware Offer
Buy your Sophos next-gen firewall before the end March 2013
and get the hardware for free! Learn more.
http://p.sf.net/sfu/sophos-d2d-feb
_______________________________________________
Denovoassembler-users mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
