Mailman 3 January 2007 - SciPy-User

Help required regding Eigenvectors
by Sudheer Phani March 14, 2022

March 14, 2022

Hello All, I have been encountering some strange problems with the calculation of eigen vectors using python. The problem is with the sign of the eigen vectors calculated. On Very few occasions the eigen vectors calculated using python have an opposite sign than the actual eigenvectors, though the magnitude is correct. Can any one of you plz help me in this regard and suggest me some solution if you have encoutered similar problems . Any help in this regd is appreciated Thanks in Advace regds Sudheer

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3D plotting
by Robert Cimrman Sept. 10, 2009

Sept. 10, 2009

Hi, I need to do some simple 3D plots, so I tried the two Cookbook recipes (xplt, mplot3d) and failed: * xplt: does not work when using a custom installation directory such as python setup.py install --root=/home/share/software apparently the gistdata directory path is wrong: gist.error: failed to create drawing -- Gist work.gs style sheet missing * mplot3d: does not work with my version of matplotlib (0.80). I have made the changes mentioned in the Cookbook to no avail. (Axes.__init__() args apparently changed, as well as some other matplotlib object attributes) Any ideas? mplot3d looks great, I would really like to use it! thanks, r.

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clapack and cblas modules are empty
by jrpirone March 16, 2007

March 16, 2007

Hello, I've installed scipy and numpy from Andrew Straw's repository, all other libraries are from the standard Ubuntu repositories (6.10). When I execute scipy.test(), the following warnings appear: **************************************************************** WARNING: clapack module is empty ----------- See scipy/INSTALL.txt for troubleshooting. Notes: * If atlas library is not found by numpy/distutils/system_info.py, then scipy uses flapack instead of clapack. **************************************************************** **************************************************************** WARNING: cblas module is empty ----------- See scipy/INSTALL.txt for troubleshooting. Notes: * If atlas library is not found by numpy/distutils/system_info.py, then scipy uses fblas instead of cblas. **************************************************************** Running the command: ldd /usr/lib/python2.4/site-packages/numpy/linalg/lapack_lite.so Gives me: linux-gate.so.1 => (0xffffe000) liblapack.so.3 => /usr/lib/atlas/sse2/liblapack.so.3 (0xb7958000) libblas.so.3 => /usr/lib/atlas/sse2/libblas.so.3 (0xb7387000) libg2c.so.0 => /usr/lib/libg2c.so.0 (0xb735f000) libm.so.6 => /lib/tls/i686/cmov/libm.so.6 (0xb7339000) libgcc_s.so.1 => /lib/libgcc_s.so.1 (0xb732e000) libc.so.6 => /lib/tls/i686/cmov/libc.so.6 (0xb71fa000) /lib/ld-linux.so.2 (0x80000000) Is there a problem with the libraries I have installed? Should I be worried about these warnings, or am I just being compulsive? Thanks for your help, Jason

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Fitting sphere to 3d data points
by James Vincent March 2, 2007

March 2, 2007

Hello, Is it possible to fit a sphere to 3D data points using scipy.optimize.leastsq? I'd like to minimize the residual for the distance from the actual x,y,z point and the fitted sphere surface. I can see how to minimize for z, but that's not really what I'm looking for. Is there a better way to do this? Thanks for any help. params = a,b,c and r a,b,c are the fitted center point of the sphere, r is the radius err = distance-to-center - radius err = sqrt( x-a)**2 + (y-b)**2 + (z-c)**2) - r ---- James J. Vincent, Ph.D. National Cancer Institute National Institutes of Health Laboratory of Molecular Biology Building 37, Room 5120 37 Convent Drive, MSC 4264 Bethesda, MD 20892 USA 301-451-8755 jjv5(a)nih.gov

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QME-Dev wxSciPY workbench 0.0.9.24 released - updated and corrected for Python 2.4
by Robert VERGNES Feb. 8, 2007

Feb. 8, 2007

Version Alpha 0.0.9.2.4 updated today. New ZIP file for download. Correction made to the plotting/Graph issue with Python 2.4 + Example files added for review of workbench. https://sourceforge.net/project/showfiles.php?group_id=181979 Note: wxPython 2.8 is still necessary to run the wrokbench. --------------------------------- Découvrez une nouvelle façon d'obtenir des réponses à toutes vos questions ! Profitez des connaissances, des opinions et des expériences des internautes sur Yahoo! Questions/Réponses.

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Re: [SciPy-user] build issue on 64-bit Intel Core2 Duo
by Nadav Horesh Feb. 7, 2007

Feb. 7, 2007

> Few more informations: > >python numpy/distutils/cpuinfo.py: > >CPU information: getNCPUs=4 has_mmx has_sse has_sse2 is_64bit is_Intel >is_XEON is_Xeon is_i686 Well, Crossing our systems' info it looks to me that the best and straight forward way to identify Intel's imitation to amd64 arch is: def _is_Nocona(self): return self.is_64bit() and self.is_Intel() and self.is_i686() Did not test it but it fits and looks logical. Nadav.

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cblas_dtrsm not found
by Eric Emsellem Feb. 7, 2007

Feb. 7, 2007

Hi! I have been using numpy+scipy+matplotlib extensively in scripts since quite some time, and regularly updated all these packages using svn. For some reason the following does not work anymore, and is trying to find cblas_dtrsm. I have it in /usr/local/lib/atlas/libcblas.a (I checked doing a "ar -t" of that library). I also have that directory in my ld.so.conf (and indeed as ATLAS default dir). it must be a very stupid mistake I am making here, but I cannot make it work. (it always worked, and I haven't changed anything in my ATLAS/BLAS, etc) (I tried recompiling scipy but no luck) Anyone has an idea of what is wrong with that? thanks for any help here. Eric ==================================== ---> 21 from scipy import optimize, special, interpolate 22 from scipy.optimize import leastsq, fsolve 23 from scipy.special import gammainc /usr/local/lib/python2.4/site-packages/scipy/optimize/__init__.py 9 from zeros import * 10 from anneal import * ---> 11 from lbfgsb import fmin_l_bfgs_b 12 from tnc import fmin_tnc 13 from cobyla import fmin_cobyla /usr/local/lib/python2.4/site-packages/scipy/optimize/lbfgsb.py 28 29 from numpy import zeros, float64, array, int32 ---> 30 import _lbfgsb 31 import optimize 32 ImportError: /usr/local/lib/python2.4/site-packages/scipy/optimize/_lbfgsb.so: undefined symbol: cblas_dtrsm

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Getting started wiki page
by Gael Varoquaux Feb. 5, 2007

Feb. 5, 2007

Once again I had to explain to a new student what scipy was, what python was, and what he should read in order to start working with these tools. I have started a "Getting Started" page on the wiki to answer this problem. The idea would be to guide the complete beginner to get him productive as quickly as possible (like the "Getting started" page in matlab). Currently the page is quite empty and pretty bad, but if people start improving it it could be very useful and hopefuly be linked from the front page. The page is not linked by any page yet, but it is accessible at: http://scipy.org/Getting_Started Cheers, Gaël

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RHEL 4 SciPy Install Failure
by Chad Kidder Feb. 5, 2007

Feb. 5, 2007

I was trying to install SciPy today after a successful numpy install and it went well until it got to the fortran compilation of dfftpack. Below is an exerpt of the error. Anyone know what's going on? running build_clib customize UnixCCompiler customize UnixCCompiler using build_clib customize GnuFCompiler customize GnuFCompiler customize GnuFCompiler using build_clib building 'dfftpack' library compiling Fortran sources Fortran f77 compiler: /usr/bin/g77 -g -Wall -fno-second-underscore -fPIC -O3 -funroll-loops -march=i686 -mmmx -msse2 -msse -fomit-frame-pointer creating build/temp.linux-x86_64-2.3 creating build/temp.linux-x86_64-2.3/Lib creating build/temp.linux-x86_64-2.3/Lib/fftpack creating build/temp.linux-x86_64-2.3/Lib/fftpack/dfftpack compile options: '-c' g77:f77: Lib/fftpack/dfftpack/dsinqi.f Lib/fftpack/dfftpack/dsinqi.f:0: error: CPU you selected does not support x86-64 instruction set Lib/fftpack/dfftpack/dsinqi.f:0: error: CPU you selected does not support x86-64 instruction set Lib/fftpack/dfftpack/dsinqi.f:0: error: CPU you selected does not support x86-64 instruction set Lib/fftpack/dfftpack/dsinqi.f:0: error: CPU you selected does not support x86-64 instruction set error: Command "/usr/bin/g77 -g -Wall -fno-second-underscore -fPIC -O3 -funroll-loops -march=i686 -mmmx -msse2 -msse -fomit-frame-pointer -c -c Lib/fftpack/dfftpack/dsinqi.f -o build/temp.linux-x86_64-2.3/Lib/fftpack/dfftpack/dsinqi.o" failed with exit status 1 Thanks for your help.

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Release 0.6.1 of pyaudio, renamed pyaudiolab
by David Cournapeau Feb. 2, 2007

Feb. 2, 2007

Hi There, A few months ago, I posted the first release of pyaudio, a python module to give numpy/scipy environment audio file IO capabilities (ala matlab wavread and co). I recently took time to update it significantly, and as several people showed interest in pyaudio recently, I thought this may interest some people here. The main improvements since last public annoucement: - renamed to pyaudiolab to avoid nameclash with other package pyaudio. - ability to seek into audio files and sync files for flushing IO buffers - matlab-like API: wavread and wavwrite - improvements of the API: more similar to numpy conventions, ability to retrieve most meta-data of a file. - some bug fixing (one bug was quite severe, leading to data corruption on ubuntu with python2.5, due to some weirdness in ubuntu python2.5 packaging) - a real documentation If some people manage to use it on something else than linux, I would happy to hear (particularly Mac OS X, which I cannot test myself). Cheers, David ====== pyaudiolab ====== * WHAT FOR ?: The Goal of pyaudiolab is to give to a numpy/scipy environment some basic audio IO facilities (ala sound, wavread, wavwrite of matlab). With pyaudiolab, you should be able to read and write most common audio files from and to numpy arrays. The underlying IO operations are done using libsndfile from Erik Castro Lopo (http://www.mega-nerd.com/libsndfile/), so he is the one who did the hard work. As libsndfile has support for a vast number of audio files (including wav, aiff, but also htk, ircam, and flac, an open source lossless codec), pyaudiolab enables the import from and export to a fairly large number of file formats. * WHERE TO GET ?: http://www.ar.media.kyoto-u.ac.jp/members/david/softwares/pyaudiolab/index.… bzr archive: http://www.ar.media.kyoto-u.ac.jp/members/david/archives/pyaudiolab/pyaudio… # HOW TO USE ?: http://www.ar.media.kyoto-u.ac.jp/members/david/softwares/pyaudiolab/index.…

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