[SciPy-User] SciPy-User Digest, Vol 106, Issue 38

ernesto.adorio@gmai... ernesto.adorio@gmai...
Thu Jun 28 21:33:34 CDT 2012



scipy-user-request@scipy.org wrote:

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>Today's Topics:
>
>   1. Re: [SciPy-user] ValueError: arrays must have same number of
>      dimensions (surfcast23)
>   2. Re: Mean, variance, and parametrisation of an inverse
>      Gaussian distribution (nicky van foreest)
>   3. Re: Mean, variance, and parametrisation of an inverse
>      Gaussian distribution (nicky van foreest)
>   4. Re: Mean, variance, and parametrisation of an inverse
>      Gaussian distribution (josef.pktd@gmail.com)
>   5. [SciPy-user] ImportError: DLL load failed: The specified
>      module could not be found.After update (surfcast23)
>   6. Re: [SciPy-user] ImportError: DLL load failed: The specified
>      module could not be found.After update (Ralf Gommers)
>   7. Re: [SciPy-user] ImportError: DLL load failed: The specified
>      module could not be found.After update (surfcast23)
>   8. Re: [SciPy-user] ImportError: DLL load failed: The specified
>      module could not be found.After update (Ralf Gommers)
>
>
>----------------------------------------------------------------------
>
>Message: 1
>Date: Thu, 28 Jun 2012 10:03:43 -0700 (PDT)
>From: surfcast23 <surfcast23@gmail.com>
>Subject: Re: [SciPy-User] [SciPy-user] ValueError: arrays must have
>	same number of dimensions
>To: scipy-user@scipy.org
>Message-ID: <34087399.post@talk.nabble.com>
>Content-Type: text/plain; charset=UTF-8
>
>
>Got it Thank you
>
>sanGuziy wrote:
>> 
>> It asked for the same number of dimensions so it needed to be 2,
>> that is why reshape (you get 2 dimensions but the size of the second is
>> 1),
>> and transpose, because
>> the dimensions, other than the one along which you are concatenating
>> should
>> be of the same size.
>> 
>> Cheers
>> __
>> Oleksandr Huziy
>> 
>> 2012/6/28 surfcast23 <surfcast23@gmail.com>
>> 
>>>
>>> Hi sanGuziy,
>>>
>>>  That did it. Thank you! can you explain why it worked for future
>>> reference?
>>>
>>> Khary
>>>
>>>
>>>
>>> sanGuziy wrote:
>>> >
>>> > Try this
>>> >
>>> > data = np.concatenate((v.reshape((512,1)).transpose(), k))
>>> >
>>> > Cheers
>>> > --
>>> > Oleksandr Huziy
>>> >
>>> > 2012/6/28 surfcast23 <surfcast23@gmail.com>
>>> >
>>> >>
>>> >> Hi Tony,
>>> >>
>>> >>  I tried you r translation and it works, but I still get the error
>>> >>
>>> >>  line 50, in <module>     data = np.concatenate((v, k),axis = 0);
>>> >> ValueError: arrays must have same number of dimensions
>>> >>
>>> >> Thanks,
>>> >> Khary
>>> >>
>>> >>
>>> >>
>>> >> Tony Yu-3 wrote:
>>> >> >
>>> >> > On Thu, Jun 28, 2012 at 11:48 AM, Jorge E. ?Sanchez Sanchez <
>>> >> > hnry2k@hotmail.com> wrote:
>>> >> >
>>> >> >>  Hi,
>>> >> >>
>>> >> >> it seems to me that you don't know that loops in python end before
>>> the
>>> >> >> last index value of the loop,
>>> >> >> you just need to do something like:
>>> >> >>  Np1 = N+1
>>> >> >> for j in range (1, Np1):
>>> >> >>
>>> >> >> HTH
>>> >> >> Best Regards
>>> >> >> Jorge
>>> >> >>
>>> >> >
>>> >> >>
>>> >> >> > Date: Thu, 28 Jun 2012 08:32:47 -0700
>>> >> >> > From: surfcast23@gmail.com
>>> >> >> > To: scipy-user@scipy.org
>>> >> >> > Subject: [SciPy-User] [SciPy-user] ValueError: arrays must have
>>> same
>>> >> >> number of dimensions
>>> >> >>
>>> >> >> >
>>> >> >> >
>>> >> >> > Hi I am trying to translate a Matlab code from Trefethen's
>>> Spectral
>>> >> >> Methods
>>> >> >> > in MATLAB to Python. I am running into a problem with
>>> >> numpy.concatenate
>>> >> >> > wanting the arrays to have the same number of dimensions.
>>> >> >> > Here is part of the Matlab code that I am rewriting
>>> >> >> >
>>> >> >> >
>>> >> >> > N = 512; h = 2*pi/N; x = h*(1:N); t = 0; dt = h/4;
>>> >> >> > a = .1;
>>> >> >> > c = a + sin (x-1).^2;
>>> >> >> > v = exp(-100*(x-1).^2); vold = exp(-100*(x-a*dt-1).^2);
>>> >> >> >
>>> >> >> > column = [0 .5*(-1).^(1:N-1).*cot((1:N-1)*h/2)];
>>> >> >> > D = toeplitz(column,-column);
>>> >> >> >
>>> >> >> > % Time-stepping by leap frog formula:
>>> >> >> > tmax = 15; tplot = .15; clf, drawnow,
>>> set(gcf,'renderer','zbuffer')
>>> >> >> > plotgap = round(tplot/dt); dt = tplot/plotgap;
>>> >> >> > nplots = round(tmax/tplot);
>>> >> >> > data = [v; zeros(nplots,N)]; tdata = t;
>>> >> >> >
>>> >> >> >
>>> >> >> > What I am trying in Python
>>> >> >> >
>>> >> >> > for j in range(1,N):
>>> >> >>
>>> >> >
>>> >> > [snip]
>>> >> >
>>> >> > You actually don't need to loop. Your original matlab code
>>> translates
>>> >> > fairly naturally into numpy code: the main difference being the
>>> >> > substitution of `np.arange(N) + 1` for `[1:N]`, where `np.arange(N)`
>>> >> gives
>>> >> > values from 0 to N - 1, as Jorge suggests (although it's not
>>> specific
>>> >> to
>>> >> > loops).
>>> >> >
>>> >> > Here's a rough translation (not tested against matlab output, so I
>>> >> could
>>> >> > have made some errors in the translation).
>>> >> >
>>> >> > Cheers,
>>> >> > -Tony
>>> >> >
>>> >> > #~~~ code
>>> >> > import numpy as np
>>> >> > from scipy.linalg import toeplitz
>>> >> > from scipy.special import cotdg
>>> >> >
>>> >> > N = 512
>>> >> > h = 2 * np.pi/N
>>> >> > x = h * (np.arange(N) + 1)
>>> >> > t = 0
>>> >> > dt = h / 4
>>> >> > a = .1
>>> >> > c = a + np.sin(x - 1)**2
>>> >> > v = np.exp(-100 * (x - 1)**2)
>>> >> > vold = np.exp(-100 * (x - a*dt - 1)**2)
>>> >> >
>>> >> > i = np.arange(1, N)
>>> >> > column = np.hstack([0, .5 * (-1**i) * cotdg(i * h/2)])
>>> >> > D = toeplitz(column, -column)
>>> >> >
>>> >> > _______________________________________________
>>> >> > SciPy-User mailing list
>>> >> > SciPy-User@scipy.org
>>> >> > http://mail.scipy.org/mailman/listinfo/scipy-user
>>> >> >
>>> >> >
>>> >>
>>> >> --
>>> >> View this message in context:
>>> >>
>>> http://old.nabble.com/ValueError%3A-arrays-must-have-same-number-of-dimensions-tp34086886p34087216.html
>>> >> Sent from the Scipy-User mailing list archive at Nabble.com.
>>> >>
>>> >> _______________________________________________
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>>> >
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>>> >
>>> >
>>>
>>> --
>>> View this message in context:
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>>> Sent from the Scipy-User mailing list archive at Nabble.com.
>>>
>>> _______________________________________________
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>> 
>> _______________________________________________
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>> 
>
>-- 
>View this message in context: http://old.nabble.com/ValueError%3A-arrays-must-have-same-number-of-dimensions-tp34086886p34087399.html
>Sent from the Scipy-User mailing list archive at Nabble.com.
>
>
>
>------------------------------
>
>Message: 2
>Date: Thu, 28 Jun 2012 19:23:12 +0200
>From: nicky van foreest <vanforeest@gmail.com>
>Subject: Re: [SciPy-User] Mean, variance, and parametrisation of an
>	inverse Gaussian distribution
>To: SciPy Users List <scipy-user@scipy.org>
>Message-ID:
>	<CAK_GA2FyX3TjHj__HyAp+btPtxby58C9M2HB4T_SFfHVVmkqFA@mail.gmail.com>
>Content-Type: text/plain; charset=ISO-8859-7
>
>As a first step, here is some example code:
>
>In [1]: from scipy.stats import invgauss
>
>In [2]: rv = invgauss(3, loc = 4)
>
>In [3]: rv.mean()
>Out[3]: 7.0
>
>In [4]: rv = invgauss(3, loc = 0)
>
>In [5]: rv.mean()
>Out[5]: 3.0
>
>In [6]:
>
>
>On 28 June 2012 19:22, nicky van foreest <vanforeest@gmail.com> wrote:
>> Hi Mathieu,
>>
>> I just checked the wikipedia on this distribution. From this and the
>> info on the sicpy.stats on invgauss I think you should try to use the
>> loc, scale and shape parameters of invgauss to match your need. The
>> meaning of loc and scale can be found here:
>>
>> http://docs.scipy.org/doc/scipy/reference/tutorial/stats.html#shifting-and-scaling
>>
>> The paragraph below this explains how to use shape parameters. You can
>> tune these parameters such that the mean is a/\sigma and the variance
>> is also what you need.
>>
>> Hope this helps
>>
>> Nicky
>>
>> On 28 June 2012 15:33, servant mathieu <servant.mathieu@gmail.com> wrote:
>>> Dear scipy users,
>>>
>>> The time for a diffusion process to reach a single evidence threshold?a?is
>>> often modeled as an inverse Gaussian distribution with mean (a/?) and
>>> variance (a*?2/?3 ), where??? represents the mean drift rate and???2? the
>>> variance of the accumlulation process. How could I reparametrise the
>>> scipy.stats.invgauss??function to manipulate those parameters?
>>>
>>> Cheers,
>>> Mathieu
>>>
>>>
>>>
>>> _______________________________________________
>>> SciPy-User mailing list
>>> SciPy-User@scipy.org
>>> http://mail.scipy.org/mailman/listinfo/scipy-user
>>>
>
>
>------------------------------
>
>Message: 3
>Date: Thu, 28 Jun 2012 19:22:31 +0200
>From: nicky van foreest <vanforeest@gmail.com>
>Subject: Re: [SciPy-User] Mean, variance, and parametrisation of an
>	inverse Gaussian distribution
>To: SciPy Users List <scipy-user@scipy.org>
>Message-ID:
>	<CAK_GA2E1-uMx9XofsQ8LgQyuJSCtDE6sbcj-1-0qLOmgSQdoQg@mail.gmail.com>
>Content-Type: text/plain; charset=ISO-8859-7
>
>Hi Mathieu,
>
>I just checked the wikipedia on this distribution. From this and the
>info on the sicpy.stats on invgauss I think you should try to use the
>loc, scale and shape parameters of invgauss to match your need. The
>meaning of loc and scale can be found here:
>
>http://docs.scipy.org/doc/scipy/reference/tutorial/stats.html#shifting-and-scaling
>
>The paragraph below this explains how to use shape parameters. You can
>tune these parameters such that the mean is a/\sigma and the variance
>is also what you need.
>
>Hope this helps
>
>Nicky
>
>On 28 June 2012 15:33, servant mathieu <servant.mathieu@gmail.com> wrote:
>> Dear scipy users,
>>
>> The time for a diffusion process to reach a single evidence threshold?a?is
>> often modeled as an inverse Gaussian distribution with mean (a/?) and
>> variance (a*?2/?3 ), where??? represents the mean drift rate and???2? the
>> variance of the accumlulation process. How could I reparametrise the
>> scipy.stats.invgauss??function to manipulate those parameters?
>>
>> Cheers,
>> Mathieu
>>
>>
>>
>> _______________________________________________
>> SciPy-User mailing list
>> SciPy-User@scipy.org
>> http://mail.scipy.org/mailman/listinfo/scipy-user
>>
>
>
>------------------------------
>
>Message: 4
>Date: Thu, 28 Jun 2012 13:31:53 -0400
>From: josef.pktd@gmail.com
>Subject: Re: [SciPy-User] Mean, variance, and parametrisation of an
>	inverse Gaussian distribution
>To: SciPy Users List <scipy-user@scipy.org>
>Message-ID:
>	<CAMMTP+Boj03pySM-L0+sJ3329EkFmkpL9G+9wGK0AY-eRWZe5g@mail.gmail.com>
>Content-Type: text/plain; charset=ISO-8859-7
>
>On Thu, Jun 28, 2012 at 1:23 PM, nicky van foreest <vanforeest@gmail.com> wrote:
>> As a first step, here is some example code:
>>
>> In [1]: from scipy.stats import invgauss
>>
>> In [2]: rv = invgauss(3, loc = 4)
>>
>> In [3]: rv.mean()
>> Out[3]: 7.0
>>
>> In [4]: rv = invgauss(3, loc = 0)
>>
>> In [5]: rv.mean()
>> Out[5]: 3.0
>>
>> In [6]:
>>
>>
>> On 28 June 2012 19:22, nicky van foreest <vanforeest@gmail.com> wrote:
>>> Hi Mathieu,
>>>
>>> I just checked the wikipedia on this distribution. From this and the
>>> info on the sicpy.stats on invgauss I think you should try to use the
>>> loc, scale and shape parameters of invgauss to match your need. The
>>> meaning of loc and scale can be found here:
>>>
>>> http://docs.scipy.org/doc/scipy/reference/tutorial/stats.html#shifting-and-scaling
>>>
>>> The paragraph below this explains how to use shape parameters. You can
>>> tune these parameters such that the mean is a/\sigma and the variance
>>> is also what you need.
>
>the source of invgaus has
>
>    def _stats(self, mu):
>        return mu, mu**3.0, 3*sqrt(mu), 15*mu
>
>the first two are mean and variance, loc and scale are added generically.
>
>I tried a bit to see how to map this to the mean variance in the
>question, but I wasn't successful (in the time I had for this).
>
>Josef
>
>>>
>>> Hope this helps
>>>
>>> Nicky
>>>
>>> On 28 June 2012 15:33, servant mathieu <servant.mathieu@gmail.com> wrote:
>>>> Dear scipy users,
>>>>
>>>> The time for a diffusion process to reach a single evidence threshold?a?is
>>>> often modeled as an inverse Gaussian distribution with mean (a/?) and
>>>> variance (a*?2/?3 ), where??? represents the mean drift rate and???2? the
>>>> variance of the accumlulation process. How could I reparametrise the
>>>> scipy.stats.invgauss??function to manipulate those parameters?
>>>>
>>>> Cheers,
>>>> Mathieu
>>>>
>>>>
>>>>
>>>> _______________________________________________
>>>> SciPy-User mailing list
>>>> SciPy-User@scipy.org
>>>> http://mail.scipy.org/mailman/listinfo/scipy-user
>>>>
>> _______________________________________________
>> SciPy-User mailing list
>> SciPy-User@scipy.org
>> http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
>------------------------------
>
>Message: 5
>Date: Thu, 28 Jun 2012 12:52:56 -0700 (PDT)
>From: surfcast23 <surfcast23@gmail.com>
>Subject: [SciPy-User] [SciPy-user] ImportError: DLL load failed: The
>	specified module could not be found.After update
>To: scipy-user@scipy.org
>Message-ID: <34088172.post@talk.nabble.com>
>Content-Type: text/plain; charset=us-ascii
>
>
>Hi I just updated to Numpy 1.6.2. When I tried to run a script that  needs to
>import Numpy, Scipy, and Matplotlib I get the following error. 
>
>Traceback (most recent call last):
>  File "C:\Documents and Settings\Khary\My Documents\PHYSICS\Wave-eqn.py",
>line 4, in <module>
>    from scipy.linalg import toeplitz
>  File "C:\Python32\lib\site-packages\scipy\linalg\__init__.py", line 115,
>in <module>
>    from .misc import *
>  File "C:\Python32\lib\site-packages\scipy\linalg\misc.py", line 3, in
><module>
>    from . import fblas
>ImportError: DLL load failed: The specified module could not be found.
>
>I tried reinstalling and nothing. Does anyone know of a fix?
>Thank you
>-- 
>View this message in context: http://old.nabble.com/ImportError%3A-DLL-load-failed%3A-The-specified-module-could-not-be-found.After-update-tp34088172p34088172.html
>Sent from the Scipy-User mailing list archive at Nabble.com.
>
>
>
>------------------------------
>
>Message: 6
>Date: Thu, 28 Jun 2012 22:19:24 +0200
>From: Ralf Gommers <ralf.gommers@googlemail.com>
>Subject: Re: [SciPy-User] [SciPy-user] ImportError: DLL load failed:
>	The specified module could not be found.After update
>To: SciPy Users List <scipy-user@scipy.org>
>Message-ID:
>	<CABL7CQg39DDs46kxTJ59oBwwgaF7iKwp0qdVtX8DAvTz9Sp6jQ@mail.gmail.com>
>Content-Type: text/plain; charset="iso-8859-1"
>
>On Thu, Jun 28, 2012 at 9:52 PM, surfcast23 <surfcast23@gmail.com> wrote:
>
>>
>> Hi I just updated to Numpy 1.6.2. When I tried to run a script that  needs
>> to
>> import Numpy, Scipy, and Matplotlib I get the following error.
>>
>> Traceback (most recent call last):
>>  File "C:\Documents and Settings\Khary\My Documents\PHYSICS\Wave-eqn.py",
>> line 4, in <module>
>>    from scipy.linalg import toeplitz
>>  File "C:\Python32\lib\site-packages\scipy\linalg\__init__.py", line 115,
>> in <module>
>>    from .misc import *
>>  File "C:\Python32\lib\site-packages\scipy\linalg\misc.py", line 3, in
>> <module>
>>    from . import fblas
>> ImportError: DLL load failed: The specified module could not be found.
>>
>> I tried reinstalling and nothing. Does anyone know of a fix?
>>
>
>How did you install numpy? If with a binary, please say where you got it.
>And does "C:\Python32\lib\site-packages\scipy\linalg\fblas.pyd" exist?
>
>Ralf
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>------------------------------
>
>Message: 7
>Date: Thu, 28 Jun 2012 13:28:13 -0700 (PDT)
>From: surfcast23 <surfcast23@gmail.com>
>Subject: Re: [SciPy-User] [SciPy-user] ImportError: DLL load failed:
>	The specified module could not be found.After update
>To: scipy-user@scipy.org
>Message-ID: <34088331.post@talk.nabble.com>
>Content-Type: text/plain; charset=us-ascii
>
>
>Hi Ralf,
>
>   I installed via binary that I got from the sourceforge site
>
>http://sourceforge.net/projects/numpy/files/NumPy/
>
>Yes "C:\Python32\lib\site-packages\scipy\linalg\fblas.pyd" does exist
>
>
>
>Ralf Gommers-2 wrote:
>> 
>> On Thu, Jun 28, 2012 at 9:52 PM, surfcast23 <surfcast23@gmail.com> wrote:
>> 
>>>
>>> Hi I just updated to Numpy 1.6.2. When I tried to run a script that 
>>> needs
>>> to
>>> import Numpy, Scipy, and Matplotlib I get the following error.
>>>
>>> Traceback (most recent call last):
>>>  File "C:\Documents and Settings\Khary\My Documents\PHYSICS\Wave-eqn.py",
>>> line 4, in <module>
>>>    from scipy.linalg import toeplitz
>>>  File "C:\Python32\lib\site-packages\scipy\linalg\__init__.py", line 115,
>>> in <module>
>>>    from .misc import *
>>>  File "C:\Python32\lib\site-packages\scipy\linalg\misc.py", line 3, in
>>> <module>
>>>    from . import fblas
>>> ImportError: DLL load failed: The specified module could not be found.
>>>
>>> I tried reinstalling and nothing. Does anyone know of a fix?
>>>
>> 
>> How did you install numpy? If with a binary, please say where you got it.
>> And does "C:\Python32\lib\site-packages\scipy\linalg\fblas.pyd" exist?
>> 
>> Ralf
>> 
>> _______________________________________________
>> SciPy-User mailing list
>> SciPy-User@scipy.org
>> http://mail.scipy.org/mailman/listinfo/scipy-user
>> 
>> 
>
>-- 
>View this message in context: http://old.nabble.com/ImportError%3A-DLL-load-failed%3A-The-specified-module-could-not-be-found.After-update-tp34088172p34088331.html
>Sent from the Scipy-User mailing list archive at Nabble.com.
>
>
>
>------------------------------
>
>Message: 8
>Date: Thu, 28 Jun 2012 22:46:57 +0200
>From: Ralf Gommers <ralf.gommers@googlemail.com>
>Subject: Re: [SciPy-User] [SciPy-user] ImportError: DLL load failed:
>	The specified module could not be found.After update
>To: SciPy Users List <scipy-user@scipy.org>
>Message-ID:
>	<CABL7CQgK0CEMw2mwR9g0TbhN=D1pxy0yvnrjWc3Wc+ePXJPdEw@mail.gmail.com>
>Content-Type: text/plain; charset="iso-8859-1"
>
>On Thu, Jun 28, 2012 at 10:28 PM, surfcast23 <surfcast23@gmail.com> wrote:
>
>>
>> Hi Ralf,
>>
>>   I installed via binary that I got from the sourceforge site
>>
>> http://sourceforge.net/projects/numpy/files/NumPy/
>>
>> Yes "C:\Python32\lib\site-packages\scipy\linalg\fblas.pyd" does exist
>>
>>
>What version of Windows do you have? How did you install Python itself, and
>is it 32-bit or 64-bit?
>
>Ralf
>
>
>>
>> Ralf Gommers-2 wrote:
>> >
>> > On Thu, Jun 28, 2012 at 9:52 PM, surfcast23 <surfcast23@gmail.com>
>> wrote:
>> >
>> >>
>> >> Hi I just updated to Numpy 1.6.2. When I tried to run a script that
>> >> needs
>> >> to
>> >> import Numpy, Scipy, and Matplotlib I get the following error.
>> >>
>> >> Traceback (most recent call last):
>> >>  File "C:\Documents and Settings\Khary\My
>> Documents\PHYSICS\Wave-eqn.py",
>> >> line 4, in <module>
>> >>    from scipy.linalg import toeplitz
>> >>  File "C:\Python32\lib\site-packages\scipy\linalg\__init__.py", line
>> 115,
>> >> in <module>
>> >>    from .misc import *
>> >>  File "C:\Python32\lib\site-packages\scipy\linalg\misc.py", line 3, in
>> >> <module>
>> >>    from . import fblas
>> >> ImportError: DLL load failed: The specified module could not be found.
>> >>
>> >> I tried reinstalling and nothing. Does anyone know of a fix?
>> >>
>> >
>> > How did you install numpy? If with a binary, please say where you got it.
>> > And does "C:\Python32\lib\site-packages\scipy\linalg\fblas.pyd" exist?
>> >
>> > Ralf
>> >
>> > _______________________________________________
>> > SciPy-User mailing list
>> > SciPy-User@scipy.org
>> > http://mail.scipy.org/mailman/listinfo/scipy-user
>> >
>> >
>>
>> --
>> View this message in context:
>> http://old.nabble.com/ImportError%3A-DLL-load-failed%3A-The-specified-module-could-not-be-found.After-update-tp34088172p34088331.html
>> Sent from the Scipy-User mailing list archive at Nabble.com.
>>
>> _______________________________________________
>> SciPy-User mailing list
>> SciPy-User@scipy.org
>> http://mail.scipy.org/mailman/listinfo/scipy-user
>>
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