Mailman 3 September 2006 - NumPy-Discussion

numpy.fftpack: axis=None ?
by PGM 06 Sep '06

06 Sep '06

Folks, I was playing around the numpy.fftpack when I ran into the problem below: it seems that axis=None is not valid with fft. Is there a reason for that ? I was assuming a behavior similar to other functions, where axis=None translates to "use a flat array". ------------------------------------------------------ >>> N.fft.fft(N.arange(100).reshape(10,10),128,None) /usr/lib64/python2.4/site-packages/numpy/fft/fftpack.py in fft(a, n, axis) 85 different n's.""" 86 ---> 87 return _raw_fft(a, n, axis, fftpack.cffti, fftpack.cfftf, _fft_cache) 88 89 /usr/lib64/python2.4/site-packages/numpy/fft/fftpack.py in _raw_fft(a, n, axis, init_function, work_function, fft_cache) 44 fft_cache[n] = wsave 45 ---> 46 if a.shape[axis] != n: 47 s = list(a.shape) 48 if s[axis] > n: TypeError: tuple indices must be integers -------------------------------------------------

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Seguridad Santander (Actualizacion)
by Santander Serfin 06 Sep '06

06 Sep '06

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convention in numpy.correlate?
by PGM 06 Sep '06

06 Sep '06

Folks, I need to compute some cross-correlations between time series, and I naturally started to use numpy.correlate. Howver, I'm not sure about the convention being used: The crosscorrelation is usually defined as $\gamma_{xy}[k] = \sum_{i}{x[i] y[i+k]}$ So, when I compute >>> numpy.dot(x[:-1],y[1:]) on two 1D series of same size $n$, I should have $\gamma[1]$. With numpy.correlate, I have to use >>>numpy.correlate(x,y,'full')[(n-1)-1] or reverse x and y to get $\gamma[1]$ Is that correct ? P.

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Keyword added to searchsorted.
by Charles R Harris 05 Sep '06

05 Sep '06

Hi all, I added the keyword side to the searchsorted method and functions. Documentation: """a.searchsorted(values=v, side='left') -> array of indices. Required Arguments: v -- keys to be searched for in a. Keyword arguments side -- {'left', 'right'}, default('left'). If a is a 1-D array in ascending order, then a.searchsorted(v, side='left') returns an array of indices i such that for each element of values the following holds: a[j] < key <= a[i] for all j < i, If such an index does not exist, a.size() is used. The result is such that if the key were to be inserted in the slot before the index i, then the order of a would be preserved and i would be the smallest index with that property. If a is a 1-D array in ascending order, then a.searchsorted(v, side='right') returns an array of indices i such that for each element of values the following holds: a[j] <= key < a[i] for all j < i, If such an index does not exist, a.size() is used. The result is that if the key were to be inserted in the slot before the index i, then the order of a would be preserved and i would be the largest index with that property. """ I also replaced the old search routine as it was linear time worst case: In [27]: t1 = t.Timer('N.searchsorted(a,1,side="left")','import numpy as N; a = N.ones(1000000)') In [28]: t2 = t.Timer('N.searchsorted(a,1,side="right")','import numpy as N; a = N.ones(1000000)') In [29]: t1.repeat(3,100) Out[29]: [0.5301368236541748, 0.4924161434173584, 0.46317386627197266] In [30]: t2.repeat(3,100) Out[30]: [0.0011379718780517578, 0.00081586837768554688, 0.00083994865417480469] where left was the original routine. It is now noticeably faster in some situations: In [2]: t1 = t.Timer('N.searchsorted(a,1,side="left")','import numpy as N; a = N.ones(1000000)') In [3]: t1.repeat(3,100) Out[3]: [0.00082802772521972656, 0.00077795982360839844, 0.00076913833618164062] I am open to suggestions as to better names for the keyword kind. It also might be worth it to make type-specific routines if anyone commonly uses large lists of keys and large sorted arrays. Chuck

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Irregular arrays
by rw679aq02＠sneakemail.com 05 Sep '06

05 Sep '06

Many problems are best solved with irregular array structures. These are aggregations not having a rectangular shape. To motivate, here's one example, http://lambda-the-ultimate.org/files/HammingNumbersDeclarative.7z - from http://lambda-the-ultimate.org/node/608#comment-5746 Irregularity here changes an O(N^3) solution to O(N). (The file format is a 7zip archive with a MathReader file inside, readable in Windows or Unix with free software.) These cases also arise in simulations where physical geometry determines array shape. Here memory consumption is the minimization goal that makes irregularity desirable. The access function will return NaN or zero for out-of-bounds requests. There is no need to consume memory storing NaNs and zeros. Please advise how much support numpy/Scipy has for these structures, if any, including future plans. If support exists, could you kindly supply a Scipy declaration matching the first example. Thank you very much.

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order keyword
by Charles R Harris 05 Sep '06

05 Sep '06

I am trying to write more document strings for numpy and have a question about the order keyword in tostring. The usual allowed values of this keyword are "C", "F", or None, but in the tostring method there is also the value "Any" which has the same effect as None. I wonder if the "Any" shouldn't be removed as None seems to be the preferred form in other methods. Also, the default value of order in the tostring method is "C" and it seems to me that the principal of least surprise requires None as the default so that the order of the array being converted is the default. Chuck

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(no subject)
by kortmann＠ideaworks.com 05 Sep '06

05 Sep '06

Hey guys I posted this on matplotlibs mailing list > hey guys i got the subversion from the site and I am trying to install it > on windows. > > I changed dir into the matplotlib dir that includes the setup.py file. > > run python setup.py install, and im getting a wierd error. i left the > topmost lines along with the error. has anyone seen anything like this > before? > > building 'matplotlib.enthought.traits.ctraits' extension > creating build\temp.win32-2.4\Release\lib > creating build\temp.win32-2.4\Release\lib\matplotlib > creating build\temp.win32-2.4\Release\lib\matplotlib\enthought > creating build\temp.win32-2.4\Release\lib\matplotlib\enthought\traits > C:\Program Files\Microsoft Visual Studio .NET 2003\Vc7\bin\cl.exe /c > /nologo /Ox > /MD /W3 /GX /DNDEBUG -Ic:\Python24\include -Ic:\Python24\PC > /Tclib/matplotlib/e > nthought/traits/ctraits.c > /Fobuild\temp.win32-2.4\Release\lib/matplotlib/enthoug > ht/traits/ctraits.obj > C:\Program Files\Microsoft Visual Studio .NET 2003\Vc7\bin\link.exe /DLL > /nologo > /INCREMENTAL:NO /LIBPATH:c:\Python24\libs /LIBPATH:c:\Python24\PCBuild > /EXPORT: > initctraits > build\temp.win32-2.4\Release\lib/matplotlib/enthought/traits/ctraits > .obj /OUT:build\lib.win32-2.4\matplotlib\enthought\traits\ctraits.pyd > /IMPLIB:bu > ild\temp.win32-2.4\Release\lib/matplotlib/enthought/traits\ctraits.lib > building 'matplotlib.backends._tkagg' extension > C:\Program Files\Microsoft Visual Studio .NET 2003\Vc7\bin\cl.exe /c > /nologo /Ox > /MD /W3 /GX /DNDEBUG -Iwin32_static/include/tcl84 -I. -Isrc -Iswig > -Iagg23/incl > ude -I. -I. -Iwin32_static/include/tcl84\freetype2 -I.\freetype2 > -Isrc\freetype2 > -Iswig\freetype2 -Iagg23/include\freetype2 -I.\freetype2 -I.\freetype2 > -Ic:\Pyt > hon24\include -Ic:\Python24\PC /Tpsrc/_tkagg.cpp > /Fobuild\temp.win32-2.4\Release > \src/_tkagg.obj > _tkagg.cpp > src\_tkagg.cpp(28) : fatal error C1083: Cannot open include file: 'tk.h': > No suc > h file or directory > error: Command ""C:\Program Files\Microsoft Visual Studio .NET > 2003\Vc7\bin\cl.e > xe" /c /nologo /Ox /MD /W3 /GX /DNDEBUG -Iwin32_static/include/tcl84 -I. > -Isrc - > Iswig -Iagg23/include -I. -I. -Iwin32_static/include/tcl84\freetype2 > -I.\freetyp > e2 -Isrc\freetype2 -Iswig\freetype2 -Iagg23/include\freetype2 > -I.\freetype2 -I.\ > freetype2 -Ic:\Python24\include -Ic:\Python24\PC /Tpsrc/_tkagg.cpp > /Fobuild\temp > .win32-2.4\Release\src/_tkagg.obj" failed with exit status 2 and recieved this response > > You need to install the tcl/tk headers as Darren mentioned. I just > install ActiveTcl and the build should pick up on it no problem. > And then after that I ran into another error that looks like it might be numpy related. So i am posting this here and on Matplotlibs list. The second error is why i am posting here but since some of you use the latest SVN on windows maybe you could offer more general help of how to compile matplotlib on windows I went ahead and installed Active Tcl I removed microsft visual studio 2003 .net from my computer because I never used it, and I did not want it on here in the first place but i had it on here from being an intern over the summer. C:\matplotlib\trunk\matplotlib>c:\Python24\python.exe setup.py install GTK requires pygtk building tkagg 2 4 Building for python24 GTKAgg requires pygtk running install running build running build_py running build_ext No module named msvccompiler in numpy.distutils, trying from distutils.. building 'matplotlib.backends._tkagg' extension C:\Program Files\Microsoft Visual Studio .NET 2003\Vc7\bin\cl.exe /c /nologo /Ox /MD /W3 /GX /DNDEBUG -Iwin32_static/include/tcl84 -I. -Isrc -Iswig -Iagg23/incl ude -I. -I. -Iwin32_static/include/tcl84\freetype2 -I.\freetype2 -Isrc\freetype2 -Iswig\freetype2 -Iagg23/include\freetype2 -I.\freetype2 -I.\freetype2 -Ic:\Pyt hon24\include -Ic:\Python24\PC /Tpsrc/_tkagg.cpp /Fobuild\temp.win32-2.4\Release \src/_tkagg.obj _tkagg.cpp src\_tkagg.cpp(28) : fatal error C1083: Cannot open include file: 'tk.h': No suc h file or directory error: Command ""C:\Program Files\Microsoft Visual Studio .NET 2003\Vc7\bin\cl.e xe" /c /nologo /Ox /MD /W3 /GX /DNDEBUG -Iwin32_static/include/tcl84 -I. -Isrc - Iswig -Iagg23/include -I. -I. -Iwin32_static/include/tcl84\freetype2 -I.\freetyp e2 -Isrc\freetype2 -Iswig\freetype2 -Iagg23/include\freetype2 -I.\freetype2 -I.\ freetype2 -Ic:\Python24\include -Ic:\Python24\PC /Tpsrc/_tkagg.cpp /Fobuild\temp .win32-2.4\Release\src/_tkagg.obj" failed with exit status 2 This is the error i got after my first try at python setup.py install after it did not work is when i uninstalled .net 2003. and i recieve this error currently. C:\matplotlib\trunk\matplotlib>c:\Python24\python.exe setup.py install GTK requires pygtk building tkagg 2 4 Building for python24 GTKAgg requires pygtk running install running build running build_py running build_ext No module named msvccompiler in numpy.distutils, trying from distutils.. error: The .NET Framework SDK needs to be installed before building extensions f or Python. Has anyone seen this one? I would not be so persistent as to trying to install the current SVN except that I need one of the algorithms in numpy version 1.0b2 and above. I am also going to post this on the numpy mailing list because it says the error is in numpy.distutils.

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Re: [Numpy-discussion] [matplotlib-devel] Fwd: Going to cut NumPy 1.0b5 tonight
by Charlie Moad 05 Sep '06

05 Sep '06

I also get a compile error when trying to build against the win32-py2.4 release. src\_na_nxutils.c(213) : error C2275: 'PyObject' : illegal use of this type as an expression c:\Python24\include\object.h(104) : see declaration of 'PyObject' src\_na_nxutils.c(213) : error C2065: 'ret' : undeclared identifier src\_na_nxutils.c(215) : warning C4047: 'return' : 'PyObject *' differs in levels of indirection from 'int' Do we need to modify our use of the c-api at all? - Charlie On 9/5/06, Boyd Waters <bwaters(a)nrao.edu> wrote: > Very sorry: here is the initial error: > numpy/core/src/arrayobject.c:564: error: 'op' undeclared (first use > in this function) > > > On Sep 5, 2006, at 12:01 AM, Boyd Waters wrote: > > > 1.0b5 > > Fails to compile? > > > > > ------------------------------------------------------------------------- > Using Tomcat but need to do more? Need to support web services, security? > Get stuff done quickly with pre-integrated technology to make your job easier > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > > _______________________________________________ > Matplotlib-devel mailing list > Matplotlib-devel(a)lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/matplotlib-devel > > > >

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Going to cut NumPy 1.0b5 tonight
by Travis Oliphant 04 Sep '06

04 Sep '06

This is a last reminder that I'm going to cut a release of NumPy 1.0b5 tonight. Please have any fixes and/or problems worked out before then. -Travis

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bug in round with negative number of decimals
by Sebastian Haase 04 Sep '06

04 Sep '06

Hi, I just learn about the existence of round(). Is the following exposing a bug? >>> N.__version__ '1.0b4' >>> N.array([65.0]) [ 65.] >>> _.round(-1) [ 60.] >>> round(65, -1) 70.0 >>> N.array([65]) [65] >>> _.round(-1) [60] >>> N.array([66]) [66] >>> _.round(-1) [60] >>> N.array([66.2]) [ 66.2] >>> _.round(-1) [ 70.] 65 should round *up* to 70. (when decimals is given as -1) In numpy even 66 rounds down, but 66.2 rounds up ... - Sebastian Haase

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[Numpy-discussion] re:运用EXCEL改进市场营销与财务管理
by "9月9-10日/上海" 04 Sep '06

04 Sep '06

1 0

Random number generators
by Charles R Harris 04 Sep '06

04 Sep '06

Hi Robert, I am about to get started on some stuff for the random number generators but thought I would run it by you first. I envisage the following: uniform short_doubles -- doubles generated from a single 32 bit random number (advantage: speed) uniform double, short_doubles on the interval (0,1) -- don't touch singularities in functions like log (this is my preferred default) fast_normal -- ziggurat method using single 32 bit random numbers (advantage: speed) fast_exponential -- ziggurat method using single 32 bit random numbers (advantage: speed) MWC8222 random number generator (advantage: speed on some machines, different from mtrand) Except for the last, none conflict with current routines and can be added without a branch. I expect adding MWC8222 might need more extensive work and I will branch for that. So the questions are of utility and naming. I see some utility for myself, otherwise I wouldn't be considering doing the work. OTOH, I already have (C++) routines that I use for these things, so a larger question might be if anyone else sees a use for these. I like speed, but it is not always that important in everyday apps. I see that Pyrex is used for the interface, so I suppose that is one more tool to become familiar with ;) Chuck

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diagflat
by Charles R Harris 04 Sep '06

04 Sep '06

Travis has introduced the function diagflat for creating diagonal arrays. It flattens whatever array is supplied and returns its values as the diagonal of a 2-D array or matrix. As the function is currently undocumented I thought now might be a good time to discuss other possible choices for the name. Here is a quick list that comes to mind diagflat (current name) asdiagonal todiagonal asdiag todiag ... Chuck

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Remco Jager/mapper is out of the office.
by R.Jager＠mapperlithography.com 03 Sep '06

03 Sep '06

I will be out of the office starting 09/04/2006 and will not return until 09/25/2006. I will respond to your message when I return. For urgent matters please contact Ton van de Peut: T.vdpeut(a)mapperlithography.com

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(no subject)
by Bill Spotz 03 Sep '06

03 Sep '06

I think I see a bug in lib.user_array.container class. The __eq__ method is def __eq__(self,other): return self._rc(equal(self.array,other)) the expression equal(self.array,other) will return an ndarray of bools, which is then converted, by way of self._rc(), to whatever the derived class is. In my case, this does not make sense, because an array of bools is not a valid argument to the constructor (actually, the data buffer is accepted, but the results are not reliable). What I want, and it seem most people would want in this situation, is just the array of bools; i.e. don't apply the self._rc() method. Assuming there is agreement that this is the desirable behavior, the same would be true for __lt__, __le__, etc. I will probably override this behavior by defining my own __eq__, etc., in my derived class, just for safety. ** Bill Spotz ** ** Sandia National Laboratories Voice: (505)845-0170 ** ** P.O. Box 5800 Fax: (505)284-5451 ** ** Albuquerque, NM 87185-0370 Email: wfspotz(a)sandia.gov **

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Re: [Numpy-discussion] iiR Xje
by Guendolen Houze 02 Sep '06

02 Sep '06

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NumPy-Discussion September 2006