[Numpy-discussion] numpy build error on Solaris, No module named _md5

2008-12-09 Thread Gong, Shawn (Contractor) 
hi list,

I tried to build numpy 1.2.1 on Solaris 9 with gcc 3.4.6

when I typed python setup.py build, I got error from hashlib.py
  File /home/sgong/dev181/dist/lib/python2.5/hashlib.py, line 133, in
module
md5 = __get_builtin_constructor('md5')
  File /home/sgong/dev181/dist/lib/python2.5/hashlib.py, line 60, in
__get_builtin_constructor
import _md5
ImportError: No module named _md5

I then tried python 2.6.1 instead of 2.5.2, but got the same error.
I did not get the error while building on Linux. But I performed steps
on Linux:
1) copy *.a Atlas libraries to my local_install/atlas/
2) ranlib *.a
3) created a site.cfg
Do I need to do the same on Solaris?

Any help is appreciated.

thanks,
Shawn



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Re: [Numpy-discussion] numpy build error on Solaris, No module named _md5

2008-12-09 Thread Gong, Shawn (Contractor) 
hi Matthieu,

import md5 doesn't work. I got:

 import md5
Traceback (most recent call last):
  File stdin, line 1, in module
  File /home/sgong/dev181/dist.org/lib/python2.5/md5.py, line 6, in
module
from hashlib import md5
  File /home/sgong/dev181/dist.org/lib/python2.5/hashlib.py, line 133,
in module
md5 = __get_builtin_constructor('md5')
  File /home/sgong/dev181/dist.org/lib/python2.5/hashlib.py, line 60,
in __get_builtin_constructor
import _md5
ImportError: No module named _md5


But I followed the same steps to build python 2.5.2 as on Linux:
config
make clean
make
make -i install  (because there is an older python 2.5.1 on my
/usr/local/bin/)


thanks,
Shawn


-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of Matthieu
Brucher
Sent: Tuesday, December 09, 2008 11:45 AM
To: Discussion of Numerical Python
Subject: Re: [Numpy-discussion] numpy build error on Solaris,No module
named _md5

Hi,

Does:

 import md5

work? If it doesn't, it's a packaging problem. md5 must be available.

Matthieu

2008/12/9 Gong, Shawn (Contractor) [EMAIL PROTECTED]:
 hi list,

 I tried to build numpy 1.2.1 on Solaris 9 with gcc 3.4.6

 when I typed python setup.py build, I got error from hashlib.py

   File /home/sgong/dev181/dist/lib/python2.5/hashlib.py, line 133,
in
 module

 md5 = __get_builtin_constructor('md5')

   File /home/sgong/dev181/dist/lib/python2.5/hashlib.py, line 60, in
 __get_builtin_constructor

 import _md5

 ImportError: No module named _md5

 I then tried python 2.6.1 instead of 2.5.2, but got the same error.

 I did not get the error while building on Linux. But I performed steps
on
 Linux:

 1) copy *.a Atlas libraries to my local_install/atlas/

 2) ranlib *.a

 3) created a site.cfg

 Do I need to do the same on Solaris?

 Any help is appreciated.

 thanks,

 Shawn

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-- 
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Website: http://matthieu-brucher.developpez.com/
Blogs: http://matt.eifelle.com and http://blog.developpez.com/?blog=92
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[Numpy-discussion] non-linear array manipulation

2008-08-12 Thread Gong, Shawn (Contractor) 
hi list,

The following array manipulation takes long time because I can't find
ways to do in row/column, and have to do cell by cell.  Would you check
to see if there is a nicer/faster way for this non-linear operation?

for i in range(rows):
  for j in range(columns):
a[i][j] = math.sqrt( max(0.0, a[i][j]*a[i][j] - b[j]*c[j]) )


thanks,
Shawn



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Re: [Numpy-discussion] non-linear array manipulation

2008-08-12 Thread Gong, Shawn (Contractor) 
thank you, Nadav
Shawn


-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Nadav Horesh
Sent: Tuesday, August 12, 2008 11:58 AM
To: Discussion of Numerical Python
Subject: RE: [Numpy-discussion] non-linear array manipulation

from numpy import *

a = sqrt(maximum(0, a**2-repeat(b*c, columns).reshape(rows, columns)))

  Nadav


-הודעה מקורית-
מאת: [EMAIL PROTECTED] בשם Gong, Shawn (Contractor)
נשלח: ג 12-אוגוסט-08 17:37
אל: Discussion of Numerical Python
נושא: [Numpy-discussion] non-linear array manipulation
 
hi list,

The following array manipulation takes long time because I can't find
ways to do in row/column, and have to do cell by cell.  Would you check
to see if there is a nicer/faster way for this non-linear operation?

for i in range(rows):
  for j in range(columns):
a[i][j] = math.sqrt( max(0.0, a[i][j]*a[i][j] - b[j]*c[j]) )


thanks,
Shawn




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[Numpy-discussion] cubic spline function in numarray or numpy

2008-08-06 Thread Gong, Shawn (Contractor) 
hi list,

I am trying to find 1-D cubic spline function.  Google search yields
that there is a function called spline_filter1d in numarray.  But I am
not able to call it.

Would someone point me to 1-D cubic spline function either in numarray
or numpy?
I can find source codes and enter in Python. But I prefer the built-in
function.

thanks,
Shawn



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Re: [Numpy-discussion] cubic spline function in numarray or numpy

2008-08-06 Thread Gong, Shawn (Contractor) 
Thank you both, Nadav and Zach.

Shawn


-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Nadav Horesh
Sent: Wednesday, August 06, 2008 12:16 PM
To: Discussion of Numerical Python
Subject: RE: [Numpy-discussion] cubic spline function in numarray or numpy

You can access nd_image by:

from numpy.numarray import nd_image

but as Zach noted, scipy.interpolate is what you are looking for.

  Nadav.

-הודעה מקורית-
מאת: [EMAIL PROTECTED] בשם Zachary Pincus
נשלח: ד 06-אוגוסט-08 19:09
אל: Discussion of Numerical Python
נושא: Re: [Numpy-discussion] cubic spline function in numarray or numpy
 
Hi Shawn,

 I am trying to find 1-D cubic spline function. But I am not able to  
 call it. Error message can’t find “ndimage”



Numpy provides tools for creating and dealing with multidimensional  
arrays and some basic FFT and linear algebra functions. You want to  
look at scipy, a set of packages built on numpy that provide more  
sophisticated domain-specific functionality. Specifically, ndimage is  
part of *scipy*, not numpy.

Zach



On Aug 6, 2008, at 11:46 AM, Gong, Shawn (Contractor) wrote:

 hi list,

 I am trying to find 1-D cubic spline function. But I am not able to  
 call it. Error message can’t find “ndimage”

 Would someone point me to 1-D cubic spline functions either in  
 numarray or numpy? and their help pages?


 I use python 2.3.5 and numpy 1.0.1. Are they too old to use cubic  
 spline?


 thanks,

 Shawn


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[Numpy-discussion] memory error caused by astype()

2007-08-22 Thread Gong, Shawn (Contractor) 
Hi list,

When I do large array manipulations, I get out-of-memory errors.
For instance if the array size is 5000 by 6000, the following codes use
nearly 1G of RAM. 
Then my PC displays a Python error box.  The try/except won't even catch
it if the error happens in astype instead of array1* array2

try:
if ( array1.typecode() in cplx_types ):
array1 = abs(array1.astype(Numeric.Complex32))
else:
array1 = array1.astype(Numeric.Float32)

if ( array2.typecode() in cplx_types ):
array2 = abs(array2.astype(Numeric.Complex32))
else:
array2 = array2.astype(Numeric.Float32)

array1 = Numeric.sqrt(array1) * Numeric.sqrt(array2)
return array1

except:
gvutils.error(Memory error occurred\nPlease select a smaller
array)
return None

My questions are:
1)  Is there a more memory efficient way instead of using astype?
2)  If not, then how do I catch error during astype?
3)  Is there a way in Python that detects the available RAM and
limits the array size before he/she can go ahead with the array
multiplications?  
i.e. detects the available RAM, say 1G
Assume the worst case - Complex32
Figure out the array size limit and warn user

Thanks,
Shaw Gong


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[Numpy-discussion] memory error caused by astype()

2007-08-15 Thread Gong, Shawn (Contractor) 
Hi list,

When I do large array manipulations, I get out-of-memory errors.
If the array size is 5000 by 6000, the following codes use nearly 1G.
Then my PC displays a Python error box.  The try/except won't catch it
if the memory error happens in astype instead of array1* array2

try:
if ( array1.typecode() in cplx_types ):
array1 = abs(array1.astype(Numeric.Complex32))
else:
array1 = array1.astype(Numeric.Float32)

if ( array2.typecode() in cplx_types ):
array2 = abs(array2.astype(Numeric.Complex32))
else:
array2 = array2.astype(Numeric.Float32)

array1 = Numeric.sqrt(array1) * Numeric.sqrt(array2)
return array1

except:
gvutils.error(Memory error occurred\nPlease select a smaller
array)
return None

My questions are:
1)  Is there a more memory efficient way of doing this?
2)  How do I deal with exception if astype is the only way to go
3)  Is there a way in Python that detects the available RAM and
limits the array size before he/she can go ahead with the array
multiplications?  
i.e. detects the available RAM, say 800K 
Assume worst case - Complex32
Figure out how many temp_arrays used by numpy
Calculate array size limit = ??
4)  If there is no 3) Is there something in Python that monitors
memory and warns the user. I have these astype at a number functions.
Do I have to put try/except at each location?

Thanks,
Shaw Gong


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Re: [Numpy-discussion] Linux numpy 1.0.1 install failed - undefined symbol: pthread_join

2007-05-25 Thread Gong, Shawn (Contractor) 
Hi Robert

The override does the trick.
It worked.  Thanks and have a nice weekend.

Shawn



Okay, here is the full scoop:

* The multi-threaded ATLAS is always tried first. This doesn't work for
you
since you compiled your Python without pthreads.

* The standard library directories (/usr/lib, /usr/local/lib, etc.) are
tried
along with fairly standard ATLAS library directories, too
(/usr/lib/atlas,
/usr/local/lib/atlas).

* Consequently, the multi-threaded libraries in /usr/local/lib/atlas are
picked
up before the version that you want.

Here is how to override this (I think):

Set the environment variable PTATLAS=None and then run the build. E.g.

  $ export PTATLAS=None
  $ python setup.py build

-- 
Robert Kern

I have come to believe that the whole world is an enigma, a harmless
enigma
 that is made terrible by our own mad attempt to interpret it as though
it had
 an underlying truth.
  -- Umberto Eco
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[Numpy-discussion] Linux numpy 1.0.1 install failed - undefined symbol: pthread_join

2007-05-23 Thread Gong, Shawn (Contractor) 
Hi Robert and list,

My colleague said that it certainly looks like a missing thread library.
It looks like the problem is that lapack_lite was compiled
multi-threaded and can't find the thread library.

Any solution to that?
BTW, I tried 1.0.2 and got the same error.

Thanks,
Shawn


-Original Message-
From: Gong, Shawn (Contractor) 
Sent: Tuesday, May 22, 2007 1:28 PM
To: 'Discussion of Numerical Python'
Subject: RE: [Numpy-discussion] FW: RE: Linux numpy 1.0.1 install failed

Thank you David M. Cooke and Robert.

Now I changed directory and ran python,
Got further and hit this error message:

python
Python 2.3.6 (#9, May 18 2007, 10:22:59)
[GCC 3.2.3 20030502 (Red Hat Linux 3.2.3-53)] on linux2
Type help, copyright, credits or license for more information.
 import numpy
Traceback (most recent call last):
  File stdin, line 1, in ?
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/__init__.py,
line 40, in ?
import linalg
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/__init__.
py, line 4, in ?
from linalg import *
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/linalg.py
, line 25, in ?
from numpy.linalg import lapack_lite
ImportError: 
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/lapack_lit
e.so: undefined symbol: pthread_join

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Re: [Numpy-discussion] FW: RE: Linux numpy 1.0.1 install failed

2007-05-22 Thread Gong, Shawn (Contractor) 
Hi Robert
Running from numpy source directory message also appears when I
installed numpy.
I am running python 2.3.6, not 2.4

You said It is picking up the partial numpy package in the source.  Do
you mean it is picking up the partial numpy package from python 2.3.6 ? 

How do I change out of that directory and try again?

Thanks,
Shawn



-Original Message-
From: [EMAIL PROTECTED]
[mailto:[EMAIL PROTECTED] On Behalf Of Robert Kern
Sent: Tuesday, May 22, 2007 1:05 PM
To: Discussion of Numerical Python
Subject: Re: [Numpy-discussion] FW: RE: Linux numpy 1.0.1 install failed

Gong, Shawn (Contractor) wrote:

 2) Then in Python, when I type import numpy
 It says: Running from numpy source directory
 Then I type numpy.sqrt(5)
 AttributeError: 'module' object has no attribute 'sqrt'
 I assume that this means numpy was not installed successfully.

No, it means that you are running from the numpy source directory. That
means it
is picking up the partial numpy package in the source that's used to
bootstrap
the installation. Change out of that directory and try again.

-- 
Robert Kern

I have come to believe that the whole world is an enigma, a harmless
enigma
 that is made terrible by our own mad attempt to interpret it as though
it had
 an underlying truth.
  -- Umberto Eco
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Re: [Numpy-discussion] FW: RE: Linux numpy 1.0.1 install failed

2007-05-22 Thread Gong, Shawn (Contractor) 
Thank you David M. Cooke and Robert.

Now I changed directory and ran python,
Got further and hit this error message:

python
Python 2.3.6 (#9, May 18 2007, 10:22:59)
[GCC 3.2.3 20030502 (Red Hat Linux 3.2.3-53)] on linux2
Type help, copyright, credits or license for more information.
 import numpy
Traceback (most recent call last):
  File stdin, line 1, in ?
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/__init__.py,
line 40, in ?
import linalg
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/__init__.
py, line 4, in ?
from linalg import *
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/linalg.py
, line 25, in ?
from numpy.linalg import lapack_lite
ImportError: 
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/lapack_lit
e.so: undefined symbol: pthread_join

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Re: [Numpy-discussion] FW: RE: Linux numpy 1.0.1 install failed

2007-05-22 Thread Gong, Shawn (Contractor) 
Sorry forgot to mention that Python was installed with-thread=no as it
is required for OpenEV application.

I remember that when I installed numarray I had to set --unthreaded

Maybe I need to do the same thing.  Can someone tell me how to set this
flag?

Thanks,
Shawn


-Original Message-
From: Gong, Shawn (Contractor) 
Sent: Tuesday, May 22, 2007 1:28 PM
To: 'Discussion of Numerical Python'
Subject: RE: [Numpy-discussion] FW: RE: Linux numpy 1.0.1 install failed

Thank you David M. Cooke and Robert.

Now I changed directory and ran python,
Got further and hit this error message:

python
Python 2.3.6 (#9, May 18 2007, 10:22:59)
[GCC 3.2.3 20030502 (Red Hat Linux 3.2.3-53)] on linux2
Type help, copyright, credits or license for more information.
 import numpy
Traceback (most recent call last):
  File stdin, line 1, in ?
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/__init__.py,
line 40, in ?
import linalg
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/__init__.
py, line 4, in ?
from linalg import *
  File
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/linalg.py
, line 25, in ?
from numpy.linalg import lapack_lite
ImportError: 
/home/sgong/dev/dist/lib/python2.3/site-packages/numpy/linalg/lapack_lit
e.so: undefined symbol: pthread_join

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[Numpy-discussion] Linux numpy 1.0.1 install failed

2007-05-18 Thread Gong, Shawn (Contractor) 
Hi List,

I am trying to install numpy 1.0.1 on Linux. (Numeric and numarray have been 
fine)
System info: Redhat Linux kernel 2.4 with gcc 3.2.3 but no separate FORTRAN 
compiler.
It has a Fortran 77 compiler (the one which comes as part of gcc)

My questions:
1) install can't find ATLAS (*.a) that I specify.
Do they have to be *.so files?  Do the *.a file sizes look right?
Where can I get libblas.so liblapack.so files?
2) do I need a FORTRAN compiler? Will Fortran 77 compiler do?

Thanks,
Shawn

Followings are error messages:
-

When I type python setup.py install  numpy.out, I get:
Screen display as follows:
-
Running from numpy source directory.
/home/sgong/dev/numpy-1.0.1/numpy/distutils/system_info.py:934:
UserWarning:
*
    Lapack library (from ATLAS) is probably incomplete:
  size of /usr/lib/liblapack.so is 3676k (expected 4000k)
 
Follow the instructions in the KNOWN PROBLEMS section of the file
    numpy/INSTALL.txt.
*
  
I then asked system admin people to install a complete ATLAS onto 
/usr/local/lib/atlas
-rw-r--r--1 root root  8049172 May 15 08:49 libatlas.a
-rw-r--r--1 root root   279016 May 15 08:49 libcblas.a
-rw-r--r--1 root root   342062 May 15 08:49 libf77blas.a
-rw-r--r--1 root root  5314268 May 15 08:49 liblapack.a
-rw-r--r--1 root root   279590 May 15 08:49 libptcblas.a
-rw-r--r--1 root root   342430 May 15 08:49 libptf77blas.a
-rw-r--r--1 root root   320316 May 15 08:49 libtstatlas.a

System admin people said that he doesn't know how to get/install *.so. He can 
only get *.a library.
I also changed site.cfg to enter 
library_dirs = /usr/local/lib/atlas/

Please find the numpy.out.txt file.  Some of the lines are:

F2PY Version 2_3473
blas_opt_info:
blas_mkl_info:
  libraries mkl,vml,guide not found in /home/sgong/dev/dist/lib
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  NOT AVAILABLE

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib/atlas/
  libraries lapack,blas not found in /home/sgong/dev/dist/lib
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib
Setting PTATLAS=ATLAS
Setting PTATLAS=ATLAS
  FOUND:
libraries = ['lapack', 'blas']
library_dirs = ['/usr/lib']
language = c

Could not locate executable gfortran
Could not locate executable f95
customize GnuFCompiler
customize GnuFCompiler
customize GnuFCompiler using config
compiling '_configtest.c':

/* This file is generated from numpy_distutils/system_info.py */
void ATL_buildinfo(void);
int main(void) {
  ATL_buildinfo();
  return 0;
}
C compiler: gcc -fno-strict-aliasing -DNDEBUG -g -O3 -Wall -Wstrict-prototypes 
-fPIC

compile options: '-c'
gcc: _configtest.c
gcc _configtest.o -L/usr/lib -llapack -lblas -o _configtest
_configtest.o(.text+0x15): In function `main':
/home/sgong/dev/numpy-1.0.1/_configtest.c:5: undefined reference to 
`ATL_buildinfo'
/usr/lib/liblapack.so: undefined reference to `e_wsfe'
/usr/lib/liblapack.so: undefined reference to `z_abs'
/usr/lib/liblapack.so: undefined reference to `c_sqrt'
/usr/lib/liblapack.so: undefined reference to `s_cmp'
/usr/lib/liblapack.so: undefined reference to `z_exp'
/usr/lib/liblapack.so: undefined reference to `c_exp'
/usr/lib/liblapack.so: undefined reference to `etime_'
/usr/lib/liblapack.so: undefined reference to `do_fio'
/usr/lib/liblapack.so: undefined reference to `z_sqrt'
/usr/lib/liblapack.so: undefined reference to `s_cat'
/usr/lib/liblapack.so: undefined reference to `s_stop'
/usr/lib/liblapack.so: undefined reference to `c_abs'
/usr/lib/liblapack.so: undefined reference to `s_wsfe'
/usr/lib/liblapack.so: undefined reference to `s_copy'
collect2: ld returned 1 exit status
_configtest.o(.text+0x15): In function `main':
/home/sgong/dev/numpy-1.0.1/_configtest.c:5: undefined reference to 
`ATL_buildinfo'

F2PY Version 2_3473
blas_opt_info:
blas_mkl_info:
  libraries mkl,vml,guide not found in /home/sgong/dev/dist/lib
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  NOT AVAILABLE

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib/atlas/
  libraries lapack,blas not found in /home/sgong/dev/dist/lib
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib
Setting PTATLAS=ATLAS
Setting PTATLAS=ATLAS
  FOUND:
libraries = ['lapack', 'blas']
library_dirs = ['/usr/lib']
language = c

Could not locate

[Numpy-discussion] FW: RE: Linux numpy 1.0.1 install failed

2007-05-18 Thread Gong, Shawn (Contractor) 
Sorry Robert,
My email sent to mail-list bounced back 5 times.

Shawn


_
From: Gong, Shawn (Contractor) 
Sent: Friday, May 18, 2007 5:05 PM
To: '[EMAIL PROTECTED]'
Subject: RE: [Numpy-discussion] Linux numpy 1.0.1 install failed

Hi Robert,

I added ref to site.cfg, but still getting the same error message: see
out.txt file.

It seems that install can't find the libraries in /usr/local/lib/atlas/
(see the out.txt file Line 14: libraries lapack,blas not found in
/usr/local/lib/atlas)

Shawn


 out.txt  site.cfg 
F2PY Version 2_3473
blas_opt_info:
blas_mkl_info:
  libraries mkl,vml,guide not found in /home/sgong/dev/dist/lib
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  NOT AVAILABLE

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib/atlas/
  libraries lapack,blas not found in /home/sgong/dev/dist/lib
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib
Setting PTATLAS=ATLAS
Setting PTATLAS=ATLAS
  FOUND:
libraries = ['lapack', 'blas']
library_dirs = ['/usr/lib']
language = c

Could not locate executable gfortran
Could not locate executable f95
customize GnuFCompiler
customize GnuFCompiler
customize GnuFCompiler using config
compiling '_configtest.c':

/* This file is generated from numpy_distutils/system_info.py */
void ATL_buildinfo(void);
int main(void) {
  ATL_buildinfo();
  return 0;
}
C compiler: gcc -fno-strict-aliasing -DNDEBUG -g -O3 -Wall -Wstrict-prototypes 
-fPIC

compile options: '-c'
gcc: _configtest.c
gcc _configtest.o -L/usr/lib -llapack -lblas -o _configtest
_configtest.o(.text+0x15): In function `main':
/home/sgong/dev/numpy-1.0.1/_configtest.c:5: undefined reference to 
`ATL_buildinfo'
/usr/lib/liblapack.so: undefined reference to `e_wsfe'
/usr/lib/liblapack.so: undefined reference to `z_abs'
/usr/lib/liblapack.so: undefined reference to `c_sqrt'
/usr/lib/liblapack.so: undefined reference to `s_cmp'
/usr/lib/liblapack.so: undefined reference to `z_exp'
/usr/lib/liblapack.so: undefined reference to `c_exp'
/usr/lib/liblapack.so: undefined reference to `etime_'
/usr/lib/liblapack.so: undefined reference to `do_fio'
/usr/lib/liblapack.so: undefined reference to `z_sqrt'
/usr/lib/liblapack.so: undefined reference to `s_cat'
/usr/lib/liblapack.so: undefined reference to `s_stop'
/usr/lib/liblapack.so: undefined reference to `c_abs'
/usr/lib/liblapack.so: undefined reference to `s_wsfe'
/usr/lib/liblapack.so: undefined reference to `s_copy'
collect2: ld returned 1 exit status
_configtest.o(.text+0x15): In function `main':
/home/sgong/dev/numpy-1.0.1/_configtest.c:5: undefined reference to 
`ATL_buildinfo'
/usr/lib/liblapack.so: undefined reference to `e_wsfe'
/usr/lib/liblapack.so: undefined reference to `z_abs'
/usr/lib/liblapack.so: undefined reference to `c_sqrt'
/usr/lib/liblapack.so: undefined reference to `s_cmp'
/usr/lib/liblapack.so: undefined reference to `z_exp'
/usr/lib/liblapack.so: undefined reference to `c_exp'
/usr/lib/liblapack.so: undefined reference to `etime_'
/usr/lib/liblapack.so: undefined reference to `do_fio'
/usr/lib/liblapack.so: undefined reference to `z_sqrt'
/usr/lib/liblapack.so: undefined reference to `s_cat'
/usr/lib/liblapack.so: undefined reference to `s_stop'
/usr/lib/liblapack.so: undefined reference to `c_abs'
/usr/lib/liblapack.so: undefined reference to `s_wsfe'
/usr/lib/liblapack.so: undefined reference to `s_copy'
collect2: ld returned 1 exit status
failure.
removing: _configtest.c _configtest.o
Status: 255
Output: 
  FOUND:
libraries = ['lapack', 'blas']
library_dirs = ['/usr/lib']
language = c
define_macros = [('NO_ATLAS_INFO', 2)]

lapack_opt_info:
lapack_mkl_info:
mkl_info:
  libraries mkl,vml,guide not found in /home/sgong/dev/dist/lib
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  NOT AVAILABLE

  NOT AVAILABLE

atlas_threads_info:
Setting PTATLAS=ATLAS
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack_atlas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib/atlas/
  libraries lapack_atlas not found in /usr/local/lib/atlas/
  libraries lapack,blas not found in /home/sgong/dev/dist/lib
  libraries lapack_atlas not found in /home/sgong/dev/dist/lib
  libraries lapack,blas not found in /usr/local/lib/atlas
  libraries lapack_atlas not found in /usr/local/lib/atlas
  libraries lapack,blas not found in /usr/local/lib
  libraries lapack_atlas not found in /usr/local/lib
  libraries lapack_atlas not found in /usr/lib
numpy.distutils.system_info.atlas_threads_info
Setting PTATLAS=ATLAS
Setting PTATLAS=ATLAS
  FOUND:
libraries = ['lapack', 'lapack', 'blas']
library_dirs = ['/usr/lib']
language = c

customize GnuFCompiler
customize