Hi,
When I run the following code, I get a seg fault on certain cluster nodes, but
not others:
>>> import numpy as N
>>> A = N.random.rand(262144,10)+1j*N.random.rand(262144,10)
>>> x = N.random.rand(262144,)
>>> d, res, rank, s = N.linalg.lstsq( A, x )
My numpy is configured as such:
lapack_opt_info:
libraries = ['mkl_lapack', 'mkl_intel_lp64', 'mkl_intel_thread',
'mkl_core', 'mkl_def', 'mkl_mc', 'iomp5', 'pthread']
library_dirs = ['/home/jhtu/local/lib/mkl_links']
define_macros = [('SCIPY_MKL_H', None)]
include_dirs = ['/opt/intel/Compiler/11.1/072/mkl/include']
blas_opt_info:
libraries = ['mkl_intel_lp64', 'mkl_intel_thread', 'mkl_core', 'mkl_def',
'mkl_mc', 'iomp5', 'pthread']
library_dirs = ['/home/jhtu/local/lib/mkl_links']
define_macros = [('SCIPY_MKL_H', None)]
include_dirs = ['/opt/intel/Compiler/11.1/072/mkl/include']
lapack_mkl_info:
libraries = ['mkl_lapack', 'mkl_intel_lp64', 'mkl_intel_thread',
'mkl_core', 'mkl_def', 'mkl_mc', 'iomp5', 'pthread']
library_dirs = ['/home/jhtu/local/lib/mkl_links']
define_macros = [('SCIPY_MKL_H', None)]
include_dirs = ['/opt/intel/Compiler/11.1/072/mkl/include']
blas_mkl_info:
libraries = ['mkl_intel_lp64', 'mkl_intel_thread', 'mkl_core', 'mkl_def',
'mkl_mc', 'iomp5', 'pthread']
library_dirs = ['/home/jhtu/local/lib/mkl_links']
define_macros = [('SCIPY_MKL_H', None)]
include_dirs = ['/opt/intel/Compiler/11.1/072/mkl/include']
mkl_info:
libraries = ['mkl_intel_lp64', 'mkl_intel_thread', 'mkl_core', 'mkl_def',
'mkl_mc', 'iomp5', 'pthread']
library_dirs = ['/home/jhtu/local/lib/mkl_links']
define_macros = [('SCIPY_MKL_H', None)]
include_dirs = ['/opt/intel/Compiler/11.1/072/mkl/include']
All unit tests pass except the following, but I was told (by this mailing list)
that this shouldn't be an issue:
======================================================================
FAIL: test_special_values (test_umath_complex.TestClog)
----------------------------------------------------------------------
Traceback (most recent call last):
File
"/home/jhtu/local/lib/python2.7/site-packages/numpy/testing/decorators.py",
line 215, in knownfailer
return f(*args, **kwargs)
File
"/home/jhtu/local/lib/python2.7/site-packages/numpy/core/tests/test_umath_complex.py",
line 312, in test_special_values
assert_almost_equal(np.log(np.conj(xa[i])), np.conj(np.log(xa[i])))
File "/home/jhtu/local/lib/python2.7/site-packages/numpy/testing/utils.py",
line 443, in assert_almost_equal
raise AssertionError(msg)
AssertionError:
Arrays are not almost equal
ACTUAL: array([-inf+3.14159265j])
DESIRED: array([-inf-3.14159265j])
----------------------------------------------------------------------
Ran 2648 tests in 15.852s
FAILED (KNOWNFAIL=4, SKIP=1, failures=1)
<nose.result.TextTestResult run=2648 errors=0 failures=1>
Anyone have ideas why this would fail on some nodes but not others? (I mean
the code snippet fails on some nodes. The above unit test always fails.)
Thanks,
Jonathan Tu
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