[phenixbb] Problem with BOOST_ADAPTBX_FPE_DEFAULT and BOOST_ADAPTBX_SIGNALS_DEFAULT

Sam Stampfer Samuel.Stampfer at tufts.edu
Tue Aug 25 12:15:40 PDT 2009


Hi,

I'm running the latest complete version of phenix (version 1.4-147, on Linux
2.6-x86 64).  When I run my .csh file I get the following error (with the 4
previous lines included):


/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/bin/python(PyDict_SetItem+0x1fd)
[0x446bdd]

/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/bin/python
[0x4396e4]

/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/bin/python
[0x4470a9]
  /lib64/libc.so.6 [0x30fca322a0]
Segmentation fault (Python and libc call stacks above)
                This crash may be due to a problem in any imported
                Python module, including modules which are not part
                of the cctbx project. To disable the traps leading
                to this message, define these environment variables
                (e.g. assign the value 1):
                    BOOST_ADAPTBX_FPE_DEFAULT
                    BOOST_ADAPTBX_SIGNALS_DEFAULT
                This will NOT solve the problem, just mask it, but
                may allow you to proceed in case it is not critical.

When I type the command "setenv BOOST_ADAPTBX_FPE_DEFAULT 1" and then run my
.csh file, it runs for a slightly longer period of time before ending with a
different error:

311240e000-3112410000 rw-p 0000e000 fd:00 14237822
/lib64/libbz2.so.1.0.4
2ad973412000-2ad973414000 rw-p 2ad973412000 00:00 0
2ad973429000-2ad97346d000 rw-p 2ad973429000 00:00 0
2ad97346e000-2ad9734af000 rw-p 2ad97346e000 00:00 0
2ad9734e1000-2ad973563000 rw-p 2ad9734e1000 00:00 0
2ad973563000-2ad973567000 r-xp 00000000 fd:00 5727920
/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/lib/python2.6/lib-dynload/time.so
2ad973567000-2ad973666000 ---p 00004000 fd:00 5727920
/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/lib/python2.6/lib-dynload/time.so
2ad973666000-2ad973668000 rw-p 00003000 fd:00 5727920
/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/lib/python2.6/lib-dynload/time.so
2ad973668000-2ad97366d000 r-xp 00000000 fd:00 5727941
/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/lib/python2.6/lib-dynload/select.so
2ad97366d000-2ad97376c000 ---p 00005000 fd:00 5727941
/usr/local/phenix/phenix-1.4-147/build/intel-linux-2.6-x86_64/base/lAbort

However, the file ran fine and successfully output an improved .pdb file
without any BOOST-related problems on my PI's Mac- she is running version 95
of Phenix (which I was unable to obtain for linux- is it available
somewhere?)

Can you help me with this?

Thanks!

-Sam
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://phenix-online.org/pipermail/phenixbb/attachments/20090825/6eded96e/attachment-0003.htm>


More information about the phenixbb mailing list