[SciPy-Dev] Fwd: numpy.test hangs

akshar bhosale akshar.bhosale@gmail....
Sat Oct 22 04:24:39 CDT 2011


---------- Forwarded message ----------
From: akshar bhosale <akshar.bhosale@gmail.com>
Date: Sat, Oct 22, 2011 at 1:46 PM
Subject: Re: [SciPy-Dev] numpy.test hangs
To: SciPy Developers List <scipy-dev@scipy.org>, Discussion of Numerical
Python <numpy-discussion@scipy.org>


<charlesr.harris@gmail.com>Hi,

python
Python 2.6 (r26:66714, May 29 2011, 15:10:47)
[GCC 4.1.2 20071124 (Red Hat 4.1.2-42)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import numpy
>>> numpy.show_config()
lapack_opt_info:
    libraries = ['mkl_lapack95_lp64', 'mkl_def', 'mkl_intel_lp64',
'mkl_intel_thread', 'mkl_core', 'mkl_mc', 'pthread']
    library_dirs = ['/opt/intel/Compiler/11.0/069/mkl/lib/em64t']
    define_macros = [('SCIPY_MKL_H', None)]
    include_dirs = ['/opt/intel/Compiler/11.0/069/mkl/include',
'/opt/intel/Compiler/11.0/069/include/']
blas_opt_info:
    libraries = ['mkl_def', 'mkl_intel_lp64', 'mkl_intel_thread',
'mkl_core', 'mkl_mc', 'pthread']
    library_dirs = ['/opt/intel/Compiler/11.0/069/mkl/lib/em64t']
    define_macros = [('SCIPY_MKL_H', None)]
    include_dirs = ['/opt/intel/Compiler/11.0/069/mkl/include',
'/opt/intel/Compiler/11.0/069/include/']
lapack_mkl_info:
    libraries = ['mkl_lapack95_lp64', 'mkl_def', 'mkl_intel_lp64',
'mkl_intel_thread', 'mkl_core', 'mkl_mc', 'pthread']
    library_dirs = ['/opt/intel/Compiler/11.0/069/mkl/lib/em64t']
    define_macros = [('SCIPY_MKL_H', None)]
    include_dirs = ['/opt/intel/Compiler/11.0/069/mkl/include',
'/opt/intel/Compiler/11.0/069/include/']
blas_mkl_info:
    libraries = ['mkl_def', 'mkl_intel_lp64', 'mkl_intel_thread',
'mkl_core', 'mkl_mc', 'pthread']
    library_dirs = ['/opt/intel/Compiler/11.0/069/mkl/lib/em64t']
    define_macros = [('SCIPY_MKL_H', None)]
    include_dirs = ['/opt/intel/Compiler/11.0/069/mkl/include',
'/opt/intel/Compiler/11.0/069/include/']
mkl_info:
    libraries = ['mkl_def', 'mkl_intel_lp64', 'mkl_intel_thread',
'mkl_core', 'mkl_mc', 'pthread']
    library_dirs = ['/opt/intel/Compiler/11.0/069/mkl/lib/em64t']
    define_macros = [('SCIPY_MKL_H', None)]
    include_dirs = ['/opt/intel/Compiler/11.0/069/mkl/include',
'/opt/intel/Compiler/11.0/069/include/']

Akshar



On Sat, Oct 22, 2011 at 11:54 AM, akshar bhosale
<akshar.bhosale@gmail.com>wrote:

> yes sure..
> i have intel cluster toolkit installed on my system. (11/069 version and
> mkl 10.3). i have machine having intel xeon processor and rhel 5.2 x86_64
> platform. i am trying with intel compilers.
> if i do
>
> python -c 'import numpy;numpy.matrix([[1, 5, 10], [1.0, 3j, 4]],
> numpy.complex128).T.I.H'
> python: symbol lookup error:
> /opt/intel/Compiler/11.0/069/mkl/lib/em64/libmkl_lapack.so: undefined
> symbol: mkl_lapack_zgeqrf
>
> my site.cfg is :
> ####################
> [mkl]
>
> mkl_libs = mkl_def, mkl_intel_lp64, mkl_intel_thread, mkl_core, mkl_mc
> lapack_libs = mkl_lapack95_lp64
>
> library_dirs =
> /opt/intel/Compiler/11.0/069/mkl/lib/em64t:/opt/intel/Compiler/11.0/069/lib/intel64/
> include_dirs =
> /opt/intel/Compiler/11.0/069/mkl/include:/opt/intel/Compiler/11.0/069/include/
> ####################
> and intelcompiler.py is :
> ############################
> from distutils.unixccompiler import UnixCCompiler
> from numpy.distutils.exec_command import find_executable
> import sys
>
> class IntelCCompiler(UnixCCompiler):
>     """ A modified Intel compiler compatible with an gcc built Python."""
>     compiler_type = 'intel'
>     cc_exe = 'icc'
>     cc_args = 'fPIC'
>
>     def __init__ (self, verbose=0, dry_run=0, force=0):
>         sys.exit(0)
>         UnixCCompiler.__init__ (self, verbose,dry_run, force)
>         self.cc_exe = 'icc -fPIC '
>         compiler = self.cc_exe
>         self.set_executables(compiler=compiler,
>                              compiler_so=compiler,
>                              compiler_cxx=compiler,
>                              linker_exe=compiler,
>                              linker_so=compiler + ' -shared -lstdc++')
>
> class IntelItaniumCCompiler(IntelCCompiler):
>     compiler_type = 'intele'
>
>     # On Itanium, the Intel Compiler used to be called ecc, let's search
> for
>     # it (now it's also icc, so ecc is last in the search).
>     for cc_exe in map(find_executable,['icc','ecc']):
>         if cc_exe:
>             break
>
> class IntelEM64TCCompiler(UnixCCompiler):
>     """ A modified Intel x86_64 compiler compatible with a 64bit gcc built
> Python.
>     """
>     compiler_type = 'intelem'
>     cc_exe = 'icc -m64 -fPIC'
>     cc_args = "-fPIC -openmp"
>     def __init__ (self, verbose=0, dry_run=0, force=0):
>         UnixCCompiler.__init__ (self, verbose,dry_run, force)
>         self.cc_exe = 'icc -m64 -fPIC -openmp '
>         compiler = self.cc_exe
>         self.set_executables(compiler=compiler,
>                              compiler_so=compiler,
>                              compiler_cxx=compiler,
>                              linker_exe=compiler,
>                              linker_so=compiler + ' -shared -lstdc++')
> ##########################
> LD_LIBRARY_PATH is :
> #########################
>
> /opt/intel/Compiler/11.0/069/mkl/lib/em64t:/opt/scalasca-1.3.3/lib:/opt/PBS/lib:/opt/intel/mpi/lib64:/opt/maui/lib:/opt/jdk1.6.0_23/lib:/opt/intel/Compiler/11.0/069/ipp/em64t/sharedlib:/opt/intel/Compiler/11.0/069/mkl/lib/em64t:/opt/intel/Compiler/11.0/069/tbb/em64t/cc4.1.0_libc2.4_kernel2.6.16.21/lib:/opt/intel/Compiler/11.0/069/lib/intel64:/opt/intel/Compiler/11.0/069/ipp/em64t/sharedlib:/opt/intel/Compiler/11.0/069/mkl/lib/em64t:/opt/intel/Compiler/11.0/069/tbb/em64t/cc4.1.0_libc2.4_kernel2.6.16.21/lib:/opt/intel/Compiler/11.0/069/lib/intel64:/usr/local/lib
> #########################
>
> -AKSHAR
>
>
>
> On Sat, Oct 22, 2011 at 11:32 AM, Charles R Harris <
> charlesr.harris@gmail.com> wrote:
>
>>
>>
>> On Fri, Oct 21, 2011 at 11:49 PM, akshar bhosale <
>> akshar.bhosale@gmail.com> wrote:
>>
>>> Hi,
>>>
>>> unfortunately 1.6.1 also hangs on the same place. Can i move ahead with
>>> installing scipy?
>>>
>>>
>> Hmm. Well, give scipy a try, but it would be nice to know what the problem
>> is with einsum. I'm thinking compiler, GCC 4.1.2 might be a bit old, but
>> it could easily be something else. Can you give us more information about
>> your system?
>>
>> Chuck
>>
>>>
>>> On Sat, Oct 22, 2011 at 12:19 AM, Charles R Harris <
>>> charlesr.harris@gmail.com> wrote:
>>>
>>>>
>>>>
>>>> On Fri, Oct 21, 2011 at 5:25 AM, akshar bhosale <
>>>> akshar.bhosale@gmail.com> wrote:
>>>>
>>>>> Hi,
>>>>> does this mean that numpy is not configured properly or i can ignore
>>>>> this and go ahead with scipy installation?
>>>>>
>>>>
>>>> Scipy will probably work, but you should really install numpy 1.6.1
>>>> instead of 1.6.0.
>>>>
>>>> <snip>
>>>>
>>>> Chuck
>>>>
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>>>>
>>>>
>>>
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>>
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>
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