<div dir="ltr">Georg<div><br></div><div>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?</div></div><div class="gmail_extra"><br clear="all"><div><div class="gmail_signature"><div dir="ltr"><div><div dir="ltr">Cheers<div><br></div><div>Nigel<div><br></div><div>---</div><div>Nigel W. Moriarty<br>Building 33R0349, Physical Biosciences Division<br>Lawrence Berkeley National Laboratory<br>Berkeley, CA 94720-8235<br>Phone : 510-486-5709 Email : NWMoriarty@LBL.gov<br>Fax : 510-486-5909 Web : <a href="http://CCI.LBL.gov" target="_blank">CCI.LBL.gov</a></div></div></div></div></div></div></div>
<br><div class="gmail_quote">On Mon, Dec 7, 2015 at 12:40 PM, Georg Mlynek <span dir="ltr"><<a href="mailto:georg.mlynek@univie.ac.at" target="_blank">georg.mlynek@univie.ac.at</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Dear Phenix/Rosetta Developers, we get following error message when<br>
running rosetta.refine on ubuntu 14.04 and on scientic linux 6.0.<br>
<br>
<br>
<br>
untimeError : Aborted due to error in job 1.<br>
Traceback:<br>
File<br>
"/home/xsoft/phenix-dev-2247/modules/cctbx_project/libtbx/runtime_utils.py",<br>
line 179, in run<br>
return_value = self.target()<br>
<br>
File<br>
"/home/xsoft/phenix-dev-2247/modules/cctbx_project/libtbx/runtime_utils.py",<br>
line 74, in __call__<br>
result = self.run()<br>
<br>
File<br>
"/home/xsoft/phenix-dev-2247/modules/phenix/phenix/command_line/rosetta_refine.py",<br>
line 300, in run<br>
return run(args=list(self.args))<br>
<br>
File<br>
"/home/xsoft/phenix-dev-2247/modules/phenix/phenix/command_line/rosetta_refine.py",<br>
line 189, in run<br>
debug=params.output.debug)<br>
<br>
File<br>
"/home/xsoft/phenix-dev-2247/modules/phenix/phenix/rosetta/refine.py",<br>
line 313, in __init__<br>
self.run_jobs()<br>
<br>
File<br>
"/home/xsoft/phenix-dev-2247/modules/phenix/phenix/rosetta/refine.py",<br>
line 397, in run_jobs<br>
check_result(result)<br>
<br>
File<br>
"/home/xsoft/phenix-dev-2247/modules/phenix/phenix/rosetta/refine.py",<br>
line 379, in check_result<br>
raise RuntimeError("Aborted due to error in job %d." % result.job_id)<br>
<br>
<br>
<br>
Platform info:<br>
__FILE__ =<br>
/home/builder/slave/phenix-nightly-intel-linux-2_6-x86_64-centos6/modules/cctbx_project/boost_adaptbx/meta_ext.cpp<br>
__DATE__ = Dec 3 2015<br>
__TIME__ = 23:02:36<br>
__TIMESTAMP__ = Tue Sep 1 10:03:35 2015<br>
__x86_64__<br>
__linux<br>
__GNUC__ = 4<br>
__GNUC_MINOR__ = 4<br>
__GNUC_PATCHLEVEL__ = 7<br>
boost::python::cxxabi_cxa_demangle_is_broken(): false<br>
__GXX_WEAK__ = 1<br>
__LP64__ = 1<br>
__VERSION__ = 4.4.7 20120313 (Red Hat 4.4.7-4)<br>
FE_INEXACT = 32<br>
FE_DIVBYZERO = 4<br>
FE_UNDERFLOW = 16<br>
FE_OVERFLOW = 8<br>
FE_INVALID = 1<br>
FE_ALL_EXCEPT = 61<br>
__SSE2__ = 1<br>
BOOST_LIB_VERSION = 1_55<br>
PY_VERSION = 2.7.8<br>
PYTHON_API_VERSION = 1013<br>
sizeof(bool) = 1<br>
sizeof(short) = 2<br>
sizeof(int) = 4<br>
sizeof(long) = 8<br>
sizeof(std::size_t) = 8<br>
sizeof(void*) = 8<br>
sizeof(long long) = 8<br>
sizeof(float) = 4<br>
sizeof(double) = 8<br>
sizeof(long double) = 16<br>
sizeof(boost::int32_t) = 4<br>
sizeof(boost::uint32_t) = 4<br>
sizeof(wchar_t) = 4<br>
__PTRDIFF_TYPE__<br>
Py_USING_UNICODE<br>
sizeof(PY_UNICODE_TYPE) = 2<br>
gnu libc version: 2.12<br>
BOOST_ADAPTBX_TYPE_ID_SIZE_T_EQ_UNSIGNED_LONG<br>
boost/TAG: 86799<br>
<a href="http://os.name" rel="noreferrer" target="_blank">os.name</a>: posix<br>
sys.platform: linux2<br>
sys.byteorder: little<br>
platform.platform():<br>
Linux-2.6.32-573.7.1.el6.x86_64-x86_64-with-redhat-6.7-Santiago<br>
platform.architecture(): ('64bit', 'ELF')<br>
floating_point_exceptions.division_by_zero_trapped: False<br>
floating_point_exceptions.invalid_trapped: False<br>
floating_point_exceptions.overflow_trapped: False<br>
number of processors: 24<br>
Memory total: 76,158,160,896<br>
Memory free: 60,290,256,896<br>
import thread: OK<br>
"hello" = ['h', 'e', 'l', 'l', 'o']<br>
u"hello" = ['h', '\x00', 'e', '\x00', 'l', '\x00', 'l', '\x00', 'o', '\x00']<br>
u"\u00C5" = ['\xc5', '\x00'] as utf-8 = ['\xc3', '\x85']<br>
LATIN CAPITAL LETTER A WITH RING ABOVE = Å<br>
<br>
<br>
Many thanks in advance, Georg.<br>
<br>
<br>
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