Mailman 3 April 2004 - SciPy-User

Multiple regression
by Jean-Baptiste Cazier April 22, 2004

April 22, 2004

Sæl ! I saw in some post in comp.lang.python that Scipy is supposed to have multiple regression tools included However when I look at the stat_test I see that it is not the case. Am I looking at the wrong place ? Could anybody please point me out to a multiple regression module in python ? Thanks a lot Jean-Baptiste -- ----------------------------- Jean-Baptiste.Cazier(a)decode.is Department of Statistics deCODE genetics Sturlugata,8 570 2993 101 Reykjavík

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Multiple regression
by Jean-Baptiste Cazier April 22, 2004

April 22, 2004

Sæl ! I saw in some post in comp.lang.python that Scipy is supposed to have multiple regression tools included However when I look at the stat_test I see that it is not the case. Am I looking at the wrong place ? Could anybody please point me out to a multiple regression module in python ? Thanks a lot Jean-Baptiste -- ----------------------------- Jean-Baptiste.Cazier(a)decode.is Department of Statistics deCODE genetics Sturlugata,8 570 2993 101 Reykjavík

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Multiple regression
by Jean-Baptiste Cazier April 22, 2004

April 22, 2004

Sæl ! I saw in some post in comp.lang.python that Scipy is supposed to have multiple regression tools included However when I look at the stat_test I see that it is not the case. Am I looking at the wrong place ? Could anybody please point me out to a multiple regression module in python ? Thanks a lot Jean-Baptiste -- ----------------------------- Jean-Baptiste.Cazier(a)decode.is Department of Statistics deCODE genetics Sturlugata,8 570 2993 101 Reykjavík

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corrupt png output from gplt
by Christopher Fonnesbeck April 22, 2004

April 22, 2004

I am using gplt to plot a number of traces and densities from my MCMC code; it seems to work well, but when the plots are saved to file many of them end up being zero-size files. Since I am producing a large number of plots sequentially, I am wondering if somehow the generation of the next plot interferes with saving the previous plot to a file? It is the only thing I can think of, since some plots save properly, while others do not. Has anyone else run into this problem? Is there a way of guaranteeing the file before the next plot is produced? Thanks, Chris -- Christopher J. Fonnesbeck ( c h r i s @ f o n n e s b e c k . o r g ) Georgia Cooperative Fish & Wildlife Research Unit, University of Georgia "More and more of our imports come from overseas." George W. Bush, 25 September 2000 -- Putting http://wecanstopspam.org in your email helps it pass through overzealous spam filters.

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ANN: SciPy 0.3 Released
by Travis N. Vaught April 21, 2004

April 21, 2004

Greetings, SciPy 0.3 has been released and binaries are available from the scipy.org site. http://www.scipy.org Changes since the 0.1 version (0.1 enjoyed a wide release, there was a version 0.2 that had limited exposure) include the following: - general improvements: Added utility functions for constructing arrays by concatenation, intended mainly for command-line use. Added bmat constructor for easy creation of block matrices. Added mat constructor for constructing matrices (where * is matrix multiplication). Added many PIL utility functions so that if the PIL is installed, image loading, saving, and other operations are available. Added scipy.info, which handles dynamic docstrings and class help better than python's help command. - documentation: much improved - sparse: superLU upgraded to 3.0 - optimize: Added non-linear conjugate gradient algorithm. Improvements to BFGS algorithm and Wolfe-condition line-search. Added two CONSTRAINED optimization techniques. Added simulated annealing and brute-force optimization strategies and Powell's method. Added many very good 1-D root-finding routines. - stats: Added many statistical distributions. Many continuous and discrete random variables are available with a simple mechanism for adding new ones. Added several statistical tests. - special: Added MANY new special functions. |general_function| renamed to |vectorize| and moved to scipy_base. Improved the way domain errors are handled (user specified display of problems). More tests on special functions added. - fftpack: replaced with fftpack2--can optionally be configured to support djbfft - io: Reading of MATLAB .mat files (version 4 and 5) supported. Writing version 4 .mat files supported. Added very flexible and general_purpose text file reader. Added shelving save operation to save variables into an importable module. Routines for reading and writing fortran-records. - linalg: Linear algebra is greatly improved over SciPy 0.1. ATLAS is now optional (but encouraged). Most lapack functions have simplified interfaces (all lapack and blas available). Matrix exponentials and other matrix functions added. - signal: Added support for filter design and LTI system analysis. - xplt: Updated xplt to use newer pygist so that Windows platform is supported. Addition of several plotting types. - integrate: added another ODE integrator. Added romberg integration and several other integration approaches. The complete release notes can be found here: http://www.scipy.org/download/scipy_release_notes_0.3.html You'll also notice that scipy.org is now a spanking new Plone portal (http://www.plone.org -- keep up the good work, plone folks). This is the first binary release in a long time and we hope to increase the frequency to every 6 months or so. If you'd like to follow or join the community, you can subscribe to the mailing lists here: http://www.scipy.org/mailinglists/ Best Regards, Travis BTW SciPy is: ------------- SciPy is an open source library of scientific tools for Python. SciPy supplements the popular Numeric module, gathering a variety of high level science and engineering modules together as a single package. SciPy includes modules for graphics and plotting, optimization, integration, special functions, signal and image processing, genetic algorithms, ODE solvers, and others.

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sparse matrix multiplication
by Eli Dichterman April 21, 2004

April 21, 2004

Is it implemented in scipy.sparse ? sparse.matrixmultiply(a,b) does not seem to work.

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Sparse Matrices
by Christoph Ortner April 21, 2004

April 21, 2004

Dear All, I apologize for bringing up this question again. Has anybody so far succeeded in building the scipy.sparse library under windows or cygwin? Thanks, Christoph

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sparse matrix
by Eli Dichterman April 21, 2004

April 21, 2004

Does anybody know where I can find a manual on how to use the sparse matrix package? It does not seem to work on my Python 2.3 + Scipy. Thanks, Eli

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Re: [SciPy-user] optimize.leastsq fit errors?
by Gary Ruben April 19, 2004

April 19, 2004

Hi Robert, I seem to remember you offered this for integration into scipy a while back and it was put on the backburner for some reason. Licensing or something? If my memory is correct, I'd just like to say to the scipy overlords that I think it would be nice to see it integrated. Gary ----- Original Message ----- From: Robert Kern <rkern(a)ucsd.edu> Date: Sun, 18 Apr 2004 03:35:07 -0700 To: SciPy Users List <scipy-user(a)scipy.net> Subject: Re: [SciPy-user] optimize.leastsq fit errors? > Scott Ransom wrote: > > Hi all, > > > > Is it possible (or does anyone have any add-on functions available) to get > > error estimates on the fit parameters using optimize.leastq? (or > > alternatively, the resulting covariance matrix from the fit?) > > If your problem is nonlinear, you can try my bindings to ODRPACK. It's > main purpose for existence is to do orthogonal distance regression > (errors in both input and output variables), but it can do ordinary > least squares just fine. Just a quick note: the standard errors that are > reported are scaled by the reduced chi-square value as is sometimes > recommended. The full covariance matrix, however, is unscaled. > > http://starship.python.net/crew/kernr/source/odr-0.6.tar.gz > > > Thanks, > > > > Scott > > -- > Robert Kern > rkern(a)ucsd.edu > > "In the fields of hell where the grass grows high > Are the graves of dreams allowed to die." > -- Richard Harter > > _______________________________________________ > SciPy-user mailing list > SciPy-user(a)scipy.net > http://www.scipy.net/mailman/listinfo/scipy-user -- ___________________________________________________________ Sign-up for Ads Free at Mail.com http://promo.mail.com/adsfreejump.htm

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optimize.leastsq fit errors?
by Scott Ransom April 18, 2004

April 18, 2004

Hi all, Is it possible (or does anyone have any add-on functions available) to get error estimates on the fit parameters using optimize.leastq? (or alternatively, the resulting covariance matrix from the fit?) Thanks, Scott -- Scott M. Ransom Address: McGill Univ. Physics Dept. Phone: (514) 398-6492 3600 University St., Rm 338 email: ransom(a)physics.mcgill.ca Montreal, QC Canada H3A 2T8 GPG Fingerprint: 06A9 9553 78BE 16DB 407B FFCA 9BFA B6FF FFD3 2989

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