[SciPy-dev] confidence intervals on multi-parameter minimisation

Graeme O'Keefe graeme.okeefe@petnm.unimelb.edu...
Wed Mar 21 01:36:01 CDT 2007


I should have mentioned, I currently have scipy.__version__ =  
0.5.2.dev2095 ppc.

I retrieved numpy/scipy from svn (1.0.2.dev3583, 0.5.2.dev2850)

I completed the build for numpy/scipy

but first I had to remove "-lcc_dynamic" from lib/python2.4/site- 
packages/numpy/distutils/fcompiler/gnu.py, otherwise I got:

/usr/bin/ld: can't locate file for: -lcc_dynamic
collect2: ld returned 1 exit status
/usr/bin/ld: can't locate file for: -lcc_dynamic
collect2: ld returned 1 exit status
error: Command "/opt/local/bin/g77 -g -Wall -undefined dynamic_lookup  
-bundle build/temp.darwin-8.9.0-Power_Macintosh-2.4/build/ 
src.darwin-8.9.0-Power_Macintosh-2.4/Lib/fftpack/_fftpackmodule.o  
build/temp.darwin-8.9.0-Power_Macintosh-2.4/Lib/fftpack/src/zfft.o  
build/temp.darwin-8.9.0-Power_Macintosh-2.4/Lib/fftpack/src/drfft.o  
build/temp.darwin-8.9.0-Power_Macintosh-2.4/Lib/fftpack/src/zrfft.o  
build/temp.darwin-8.9.0-Power_Macintosh-2.4/Lib/fftpack/src/zfftnd.o  
build/temp.darwin-8.9.0-Power_Macintosh-2.4/build/src.darwin-8.9.0- 
Power_Macintosh-2.4/fortranobject.o -L/opt/local/lib -L/opt/local/ 
bin/../lib/gcc/powerpc-apple-darwin7.9.0/3.4.4 -Lbuild/ 
temp.darwin-8.9.0-Power_Macintosh-2.4 -ldfftpack -lfftw3 -lg2c - 
lcc_dynamic -o build/lib.darwin-8.9.0-Power_Macintosh-2.4/scipy/ 
fftpack/_fftpack.so" failed with exit status 1

Removing -cc_dynamic fixed that, something I've come across before,  
but then when I finished and installed the build, I got the following:

 >>> import scipy
 >>> import scipy.optimize
Traceback (most recent call last):
   File "<stdin>", line 1, in ?
   File "/Library/Frameworks/Python.framework/Versions/2.4/lib/ 
python2.4/site-packages/scipy/optimize/__init__.py", line 7, in ?
     from optimize import *
   File "/Library/Frameworks/Python.framework/Versions/2.4/lib/ 
python2.4/site-packages/scipy/optimize/optimize.py", line 26, in ?
     import linesearch
   File "/Library/Frameworks/Python.framework/Versions/2.4/lib/ 
python2.4/site-packages/scipy/optimize/linesearch.py", line 3, in ?
     import minpack2
ImportError: Failure linking new module: /Library/Frameworks/ 
Python.framework/Versions/2.4/lib/python2.4/site-packages/scipy/ 
optimize/minpack2.so: Symbol not found: _sprintf$LDBLStub
   Referenced from: /Library/Frameworks/Python.framework/Versions/2.4/ 
lib/python2.4/site-packages/scipy/optimize/minpack2.so
   Expected in: dynamic lookup

 >>> import scipy.odr
Traceback (most recent call last):
   File "<stdin>", line 1, in ?
   File "/Library/Frameworks/Python.framework/Versions/2.4/lib/ 
python2.4/site-packages/scipy/odr/__init__.py", line 11, in ?
     import odrpack
   File "/Library/Frameworks/Python.framework/Versions/2.4/lib/ 
python2.4/site-packages/scipy/odr/odrpack.py", line 103, in ?
     from scipy.odr import __odrpack
ImportError: Failure linking new module: /Library/Frameworks/ 
Python.framework/Versions/2.4/lib/python2.4/site-packages/scipy/odr/ 
__odrpack.so: Symbol not found: _printf$LDBLStub
   Referenced from: /Library/Frameworks/Python.framework/Versions/2.4/ 
lib/python2.4/site-packages/scipy/odr/__odrpack.so
   Expected in: dynamic lookup

 >>>

I have /opt/local/lib in DYLD_LIBRARY_PATH, LD_LIBRARY_PATH.

gcc --version
powerpc-apple-darwin8-gcc-4.0.1 (GCC) 4.0.1 (Apple Computer, Inc.  
build 5363)

So I am now stumped, can anyone advise?

regards,

Graeme



On 21/03/2007, at 4:16 PM, Graeme O'Keefe wrote:

>
> I have been using fmin_l_bfgs_b to perform bounded non-linear multi-
> parameter estimation.
>
> Is there a way to determine the confidence intervals on the resultant
> parameter estimates.
>
> I've seen reference to scipy.odr as a better alternative to
> scipy.optimize and have checked out the latest svn and currently
> trying to build (OS X 10.4.9) which is always fun.
>
> However, I can't find any documentation on what scipy.odr is.
>
> Can someone point me somewhere.
>
> regards,
>
> Graeme
>
> _______________________________________________
> Scipy-dev mailing list
> Scipy-dev@scipy.org
> http://projects.scipy.org/mailman/listinfo/scipy-dev
>



More information about the Scipy-dev mailing list