Georg
We got you error message via the GUI bug system and I'm working with others
to get this bug solved. Can you send me (directly) the input files so I can
double check that we have solved it?
Cheers
Nigel
---
Nigel W. Moriarty
Building 33R0349, Physical Biosciences Division
Lawrence Berkeley National Laboratory
Berkeley, CA 94720-8235
Phone : 510-486-5709 Email : [email protected]
Fax : 510-486-5909 Web : CCI.LBL.gov
On Mon, Dec 7, 2015 at 12:40 PM, Georg Mlynek
Dear Phenix/Rosetta Developers, we get following error message when running rosetta.refine on ubuntu 14.04 and on scientic linux 6.0.
untimeError : Aborted due to error in job 1. Traceback: File
"/home/xsoft/phenix-dev-2247/modules/cctbx_project/libtbx/runtime_utils.py", line 179, in run return_value = self.target()
File
"/home/xsoft/phenix-dev-2247/modules/cctbx_project/libtbx/runtime_utils.py", line 74, in __call__ result = self.run()
File
"/home/xsoft/phenix-dev-2247/modules/phenix/phenix/command_line/rosetta_refine.py", line 300, in run return run(args=list(self.args))
File
"/home/xsoft/phenix-dev-2247/modules/phenix/phenix/command_line/rosetta_refine.py", line 189, in run debug=params.output.debug)
File "/home/xsoft/phenix-dev-2247/modules/phenix/phenix/rosetta/refine.py", line 313, in __init__ self.run_jobs()
File "/home/xsoft/phenix-dev-2247/modules/phenix/phenix/rosetta/refine.py", line 397, in run_jobs check_result(result)
File "/home/xsoft/phenix-dev-2247/modules/phenix/phenix/rosetta/refine.py", line 379, in check_result raise RuntimeError("Aborted due to error in job %d." % result.job_id)
Platform info: __FILE__ =
/home/builder/slave/phenix-nightly-intel-linux-2_6-x86_64-centos6/modules/cctbx_project/boost_adaptbx/meta_ext.cpp __DATE__ = Dec 3 2015 __TIME__ = 23:02:36 __TIMESTAMP__ = Tue Sep 1 10:03:35 2015 __x86_64__ __linux __GNUC__ = 4 __GNUC_MINOR__ = 4 __GNUC_PATCHLEVEL__ = 7 boost::python::cxxabi_cxa_demangle_is_broken(): false __GXX_WEAK__ = 1 __LP64__ = 1 __VERSION__ = 4.4.7 20120313 (Red Hat 4.4.7-4) FE_INEXACT = 32 FE_DIVBYZERO = 4 FE_UNDERFLOW = 16 FE_OVERFLOW = 8 FE_INVALID = 1 FE_ALL_EXCEPT = 61 __SSE2__ = 1 BOOST_LIB_VERSION = 1_55 PY_VERSION = 2.7.8 PYTHON_API_VERSION = 1013 sizeof(bool) = 1 sizeof(short) = 2 sizeof(int) = 4 sizeof(long) = 8 sizeof(std::size_t) = 8 sizeof(void*) = 8 sizeof(long long) = 8 sizeof(float) = 4 sizeof(double) = 8 sizeof(long double) = 16 sizeof(boost::int32_t) = 4 sizeof(boost::uint32_t) = 4 sizeof(wchar_t) = 4 __PTRDIFF_TYPE__ Py_USING_UNICODE sizeof(PY_UNICODE_TYPE) = 2 gnu libc version: 2.12 BOOST_ADAPTBX_TYPE_ID_SIZE_T_EQ_UNSIGNED_LONG boost/TAG: 86799 os.name: posix sys.platform: linux2 sys.byteorder: little platform.platform(): Linux-2.6.32-573.7.1.el6.x86_64-x86_64-with-redhat-6.7-Santiago platform.architecture(): ('64bit', 'ELF') floating_point_exceptions.division_by_zero_trapped: False floating_point_exceptions.invalid_trapped: False floating_point_exceptions.overflow_trapped: False number of processors: 24 Memory total: 76,158,160,896 Memory free: 60,290,256,896 import thread: OK "hello" = ['h', 'e', 'l', 'l', 'o'] u"hello" = ['h', '\x00', 'e', '\x00', 'l', '\x00', 'l', '\x00', 'o', '\x00'] u"\u00C5" = ['\xc5', '\x00'] as utf-8 = ['\xc3', '\x85'] LATIN CAPITAL LETTER A WITH RING ABOVE = Å
Many thanks in advance, Georg.
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