[SciPy-dev] confidence intervals on multi-parameter minimisation
Graeme O'Keefe
graeme.okeefe at petnm.unimelb.edu.au
Wed Mar 21 02:36:01 EDT 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 at scipy.org
> http://projects.scipy.org/mailman/listinfo/scipy-dev
>
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