Thanks all the help, yes, something wrong with gcc-4.2 or/and g++-4.2, after reinstall Xcode and symlink as below, problem solved.
1. sudo ln -s /usr/bin/g++ /usr/bin/g++-4.2
2. sudo ln -s /usr/bin/gcc /usr/bin/gcc-4.2
XD
Hi,
I'm trying to compile Rosetta in my local machine and then run it in a different one (I am using the extras=static flag). It compiles fine, however when I try to run it in the other machine (cluster) it gives me the error:
FATAL: kernel too old
Hi!
I just downloaded Rosetta 3.4 from the RosettaCommons website and am trying to compile it. However, it keeps failing with the following message (while Rosetta 3.3 compiles fine) :
Background:
Processor: 2.66 GHz Intel Core i&
Memory: 8 GB 1067 MHz DDR3
Command Line: (executed from within rosetta_source directory): ./scons.py bin mode=release
I am trying to build rosetta on a cluster that is running SUSE 2.6.16
I use scons supplied with the rosetta 3.4 package.
In rosetta_source I run this command: external/scons-local/scons.py bin mode=release
At first everything seems to be working, it keeps on compiling for 1 hour and then I get the message below.
Any idea what could have gone wrong ?
Jarek
Hi all,
My cluster situation has changed, and my sysadmin needs to install a new OS on the cluster I'm currently using. He asked me if I could verify Rosetta's compatibility with the new OS he is planning on installing so we can recompile Rosetta on the new OS. I know the supported builds page of the documentation is a bit outdated from the last time I checked, so I thought it would be safer to run it past the devs first...the OS he's planning on running is OpenSUSE Linux 12.2.
Thanks,
Alex
Hi Rosettaers,
I am building Rosetta 3.4 on Unbuntu 12.04 running in VMWare player. I got the following error when I built it with scons bin mode=release:
Running versioning script ... fatal: Not a git repository (or any of the parent directories): .git
Done. (0.1 seconds)
scons: done reading SConscript files.
scons: Building targets ...
When I execute the command:
./scons.py -j? extras=omp bin mode=dubug
I get the following error:
build/src/release/linux/2.6/64/x86/gcc/4.3/omp/libprotocols_a.2.so: undefined reference to `boost::this_thread::disable_interruption::disable_interruption()'
build/src/release/linux/2.6/64/x86/gcc/4.3/omp/libprotocols_a.2.so: undefined reference to `boost::detail::get_current_thread_data()'
build/src/release/linux/2.6/64/x86/gcc/4.3/omp/libprotocols_a.2.so: undefined reference to `boost::thread::~thread()'
I hate to add another thread about compiling Rosetta with MPI, but after searching through this forum, and trying a number of potential solutions, I am still stuck.
When I execute the command:
$ ./scons.py bin mode=release extras=mpi
I get the following error:
Hey everyone, I'm trying to compile in mpi mode on a cluster. I used:
./scons.py bin mode=release extra=mpi
After entering the command, it gave me this error:
Running versioning script ... fatal: Not a git repository
But the compiling went on well and gave me "scons: done building targets." at the end.
Greetings,
I am trying to compile Rosetta 3.4 on Fedora 17 but I get the following error:
$ python scons.py bin mode=release
scons: Reading SConscript files ...
Traceback (most recent call last):
File "/home/thomas/Programs/Rosetta3.4/rosetta_source/SConstruct", line 141, in main
build = SConscript("tools/build/setup.py")
File "/home/thomas/Programs/Rosetta3.4/rosetta_source/external/scons-local/scons-local-2.0.1/SCons/Script/SConscript.py", line 614, in __call__
return method(*args, **kw)
