scipy-dev archive @ ASPN

[SciPy-dev] Recent SVN of NumPy has issues with SciPy

Travis Oliphant (oliphant.travis@...)

There are still some issues with my recent check-in for NumPy (r2663).	 
But, it does build and run the numpy.tests cleanly.  (It's failing on 
SciPy tests...)

You may want to hold off for a few hours until I can straighten it out.

-Travis

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[SciPy-dev] default axes for ndimage.rotate

Stefan van der Walt (stefan@...)

Hi,

Can anyone explain to me why the default 'axes' parameter to
ndimage.rotate is (-1,-2)?  This works for grey-scale images, but not
for colour images (MxNx3).

Would there be any objection to changing it to (0,1) or (1,0) instead?

Stéfan

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[SciPy-dev] old.scipy.org -> new.scipy.org migration

Jeff Strunk (jstrunk@...)

Good afternoon,

I need to finish the server migration. Does anybody know what remains to be 
moved from old.scipy.org to new.scipy.org?

I know of the following things:
-DNS
-smtp,pop,imap
-mailman

Anything else?

Thanks,
Jeff Strunk
IT Administrator
Enthought Inc

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[SciPy-dev] SciPy 2006 Tutorials

Travis N. Vaught (travis@...)

All,

As part of this year's SciPy 2006 Conference, we've planned Coding 
Sprints on Monday and Tuesday (August 14-15) and a Tutorial Day 
Wednesday (August 16)--the normal conference presentations follow on 
Thursday and Friday (August 17-18).

For this year at least, the Tutorials (and Sprints) are no additional 
charge (you're on your own for food on those days, though).

With regard to Tutorial topics, we've settled on the following:

"3D visualization in Python using tvtk and MayaVi"
"Scientific Data Analysis and Visualization using IPython and Matplotlib."
"Building Scientific Applications using the Enthought Tool Suite 
(Envisage, Traits, Chaco, etc.)"
"NumPy (migration from Numarray & Numeric, overview of NumPy)"

These will be in two tracks with two three hour sessions in each track.

If you plan to attend, please send an email to tutorials@... with 
the two sessions you'd most like to hear and we'll build the schedule 
with a minimum of conflict.

We'll post the schedule of the tracks on the Wiki here: 
http://www.scipy.org/SciPy2006/TutorialSessions

Also, if you haven't registered already, the deadline for early 
registration is July 14.  The abstract submission deadline is July 7.  
More information is here: http://www.scipy.org/SciPy2006

Thanks,

Travis

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Re: [SciPy-dev] Email subsription to Trac tickets?

Robert Kern (robert.kern@...)

Neilen Marais wrote:
> Hi!
> 
> I've registered on the numpy and scipy Trac instances so I can log
> tickets, but it did not seem to ask for my email address. Is there some
> way I can subscribe to track tickets via email?

We're fiddling with the email notification at the moment. You can add your email
address to your account by clicking on "Settings" at the top of the page. Then
you ought to be receiving ticket emails by adding your username to the Cc: field
of the ticket. You can use this ticket to test, if you like:

  http://projects.scipy.org/scipy/scipy/ticket/212

We are working on a tickets list and a checkins list for numpy and scipy, but
they do not seem to be operational at the moment.

-- 
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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[SciPy-dev] Email subsription to Trac tickets?

Neilen Marais (nmarais@...)

Hi!

I've registered on the numpy and scipy Trac instances so I can log
tickets, but it did not seem to ask for my email address. Is there some
way I can subscribe to track tickets via email?

Thanks
Neilen

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[SciPy-dev] abs return the absolute value of the argument (and this should be real)

Nils Wagner (nwagner@...)

>>> a=rand(3,3)
>>> w=linalg.eigvals(a)
>>> w
array([ 1.28249999+0.j, -0.29921706+0.j,  0.01819573+0.j])
>>> abs(w)
array([ 1.28249999,  0.29921706,  0.01819573])
>>> abs(w[0])
(1.2824999903657521+0j)


abs return the absolute value of the argument and this should be real.

BTW, I am using

>>> numpy.__version__
'0.9.9.2628'
>>> scipy.__version__
'0.5.0.1977'

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[SciPy-dev] band matrix wrapping ready for inclusion

Arnd Baecker (arnd.baecker@...)

Hi,

thanks to Johannes Loehnert and Waltraut Wustmann
the previous f2py wrappers have been supplied with many
more unit-tests, documentation and wrappers
for hermitian band matrices.
The wrappers deals with:
  sbev	  sbevd	  sbevx
  hbevd	  hbevx
  gbtrf  gbtrs
  lamch
In addition front-end routines `eig_banded`, `eigvals_banded`
for inclusion in  Lib/linalg/decomp.py are provided.

The current version is at
  http://www.physik.tu-dresden.de/~baecker/python/band.zip

Pearu, it would be nice if you could have a look
at the wrappers and let us know whether anything needs to
be done/improved.
If you prefer I can do a commit (after following the steps in the TODO),
but I would like to get your ok first
(I also don't mind if you prefer to make the corresponding
changes ;-).

Hope the result is useful not just for us but also to others.
In addition, the contents of band.zip might be helpful
as an example on how to provide wrappers
for other LAPACK routines.

Best, Arnd


P.S.: In the long run one could also think of adding code
for performing inverse iteration, but this might also fit
into the sparse matrix department.

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Re: [SciPy-dev] Status of interpolate.interp2d

David Huard (david.huard@...)

Hi David,

There were (and are) still a couple of problems with interp2d. A patch is
attached for the problems I've able to solve. It now works for evaluating
the spline at one location, but not for arrays. However, I don't have time
to fiddle with it right now.

Cheers,

David

Here is a simple test case that works, with an example of what ought to work
in the future.

# Example of the use of interp2
from scipy import *

x,y = mgrid[0:pi:20j, 0:pi:21j]
z = sin(x*y)

I = interpolate.interp2d(x,y,z)

# Now it should be possible to interpolate anywhere inside the x,y grid.
# The answer should be around sin(1) = .84
print I(1.,1.)


# This should eventually work (but it still doesn't)
#1. I(ravel(x), ravel(y))
#2. I(x,y)







2006/6/12, David M. Cooke 
> On Mon, 12 Jun 2006 17:12:07 -0400
> "David Huard" 
> > Hi,
> > Line 41 in interpolate.py should read
> >
> > if rank(self.x) > 2 or rank(self.y) > 2:
> >
> > instead of
> > if self.x > 2 or rank(self.y) > 2:
> >
> > When this is fixed and I call it to evaluate z at some point x,y, it
> > complains that it has no attribute tck. In fact, it seems that the
> spline is
> > not evaluated during __init__.  Should I understand that interp2d is
> getting
> > a rehaul and is currently broken ? If so, I'd like to help since I need
> it.
>
> Looks like interp2d was broken. I fiddled with it until calls to stuff
> matched the docstrings of other stuff (yes, I don't really know how to use
> it :-).
>
> From the log, Travis touched it at the end of May, so he may have broken
> it.
> There's no test case for it, so that's quite possible.
>
> So it may work now. If it does, send us a test case, then we can make sure
> it
> doesn't break again :D
>
> --
> |>|\/|<
>
> /--------------------------------------------------------------------------> |David M.
Cooke
> http://arbutus.physics.mcmaster.ca/dmc/
> |cookedm@...
>

[SciPy-dev] Compiling error fftpack

Bernhard Reimar Hoefle (Bernhard.Hoefle@...)

Hi!
I have the following compilers on FC5:

gcc-gnat-4.1.1-1.fc5
compat-libgcc-296-2.96-135
compat-gcc-32-g77-3.2.3-55.fc5
gcc-c++-4.1.1-1.fc5
compat-gcc-32-3.2.3-55.fc5
compat-gcc-32-c++-3.2.3-55.fc5
libgcc-4.1.1-1.fc5
gcc-4.1.1-1.fc5
gcc-objc-4.1.1-1.fc5
gcc-gfortran-4.1.1-1.fc5
gcc-java-4.1.1-1.fc5

and these packages:
atlas-3.6.0-10.fc5
atlas-devel-3.6.0-10.fc5
lapack-devel-3.0-37.fc5
lapack-3.0-37.fc5
blas-3.0-37.fc5
blas-devel-3.0-37.fc5

I also installed gcc-2.95.3 as it is mentioned on:
http://pong.tamu.edu/tiki/tiki-view_blog_post.php?blogId=6&postId=97

I tried to compile scipy-0.4.9 and scipy svn and got the same error message.
I get stuck here:

...
building extension "scipy.ndimage._nd_image" sources
building data_files sources
running build_py
copying build/src.linux-i686-2.4/scipy/__config__.py ->
build/lib.linux-i686-2.4/scipy
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 -O2
-funroll-loops -march=i686 -mmmx -msse2 -msse -fomit-frame-pointer
-malign-double
compile options: '-c'
g77:f77: Lib/fftpack/dfftpack/zfftf1.f
/tmp/ccQtTXdW.s: Assembler messages:
/tmp/ccQtTXdW.s:598: Error: suffix or operands invalid for `movd'
/tmp/ccQtTXdW.s:2994: Error: suffix or operands invalid for `movd'
/tmp/ccQtTXdW.s: Assembler messages:
/tmp/ccQtTXdW.s:598: Error: suffix or operands invalid for `movd'
/tmp/ccQtTXdW.s:2994: Error: suffix or operands invalid for `movd'
error: Command "/usr/bin/g77 -g -Wall -fno-second-underscore -fPIC -O2
-funroll-loops -march=i686 -mmmx -msse2 -msse -fomit-frame-pointer
-malign-double -c -c Lib/fftpack/dfftpack/zfftf1.f -o
build/temp.linux-i686-2.4/Lib/fftpack/dfftpack/zfftf1.o" failed with exit
status 1

Any ideas?

Thanks,
Bernhard

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