From bhmerchant at gmail.com  Sun Feb  1 16:35:12 2015
From: bhmerchant at gmail.com (Brian Merchant)
Date: Sun, 1 Feb 2015 13:35:12 -0800
Subject: [SciPy-User] Need clarification on paper "The NumPy array: a
 structure for efficient numerical computation": what does "vectorize"
 really mean?
In-Reply-To: <CAF6FJisVs7uGh0mUYBRzPBYeRwk7wWm46tPYsZG2AQZW_3W4JQ@mail.gmail.com>
References: <CAMt_P4m7hBoh6azDamzuHxcxoo01zZqgSks6AQmi_EfNFMki=w@mail.gmail.com>
	<CAF6FJisVs7uGh0mUYBRzPBYeRwk7wWm46tPYsZG2AQZW_3W4JQ@mail.gmail.com>
Message-ID: <CAMt_P4k5U7-tKaWOg2X0=3fFvYLqtv5awSsN0BxmiCY=su=Fiw@mail.gmail.com>

Thanks! This clears things up.

On Sat, Jan 31, 2015 at 9:44 AM, Robert Kern <robert.kern at gmail.com> wrote:

> On Sat, Jan 31, 2015 at 4:49 PM, Brian Merchant <bhmerchant at gmail.com>
> wrote:
> >
> > In "The NumPy array: a structure for efficient numerical computation"
> (2011, http://arxiv.org/abs/1102.1523), the authors use the
> verb/adjective "vectorize" in such a way that I need clarification.
> >
> > On page 3, in subsection "Numerical operations on arrays:
> vectorization", I get the (perhaps incorrect?) impression that
> "vectorization" refers to "an operation that can be run using C for loops
> over C arrays". Already, the vocabulary seems a little weird to me, since
> if "vectorization" really just means "for loops in a low level language
> rather than a high level language"...why create a word for the concept
> based on the root word "vector"? Perhaps there is some history there that I
> am missing, but I can accept that definition. The answer to the following
> StackOverflow seems to suggest that "vectorization" means "implemented in a
> lower level language":
> http://stackoverflow.com/questions/17483042/explain-the-speed-difference-between-numpys-vectorized-function-application-vs
>
> Rather, it means that the loop over the array is implicit in the syntax of
> the language rather than explicit; that is, the language deals with arrays
> ("vectors") as first-class objects with their own mathematical operations
> rather than just containers of numbers that one must operate on
> independently. For example, Fortran 90 has vectorized operations, but it is
> not calling down to a lower level language to do it. It's just part of the
> language. E.g.
>
>   http://www.cs.uwm.edu/~cs151/Bacon/Lecture/HTML/ch11s12.html
>
> The use of the term "vector" for this does have long history in computing
> to refer to things like this:
>
>   http://en.wikipedia.org/wiki/Vector_processor#Early_work
>
> > However, on page 5, I see the following sentence: "In a non-vectorized
> language, no temporary arrays need to be allocated when the output values
> are calculated in a nested for-loop, e.g. (in C)". Hold on -- how does
> "vectorized" make sense here? Should I interpret it as "in a low level
> language, no temporary arrays need to be allocated when the output values
> are calculated..."? If yes, well...why would temporary arrays need to be
> allocated in a higher level language?
>
> This isn't true of all languages with vector operations (c.f. Fortran 90),
> just some high-level languages. As for Python, the temporaries come in
> because the operations are evaluated independently of the operations in the
> expression, and the loops happen inside of each operation. In numpy,
>
>   A = B * C + D
>
> (B*C) must be calculated first into a temporary before D can be added to
> it. Each one of those are a separate loop. Compare this to the typical
> implementation in C which would allocate the space for A and do a single
> loop:
>
>   for (i=0; i<length; i++) {
>     A[i] = B[i] * C[i] + D[i];
>   }
>
> Since Python does not generate machine code, it does not analyze
> expressions to see if it can optimize the expression like this. It just
> calls the function corresponding to the * operator and then the function
> corresponding to the + operator.
>
> --
> Robert Kern
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
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From dskgair at gmail.com  Mon Feb  2 03:19:43 2015
From: dskgair at gmail.com (David Kershaw)
Date: Mon, 2 Feb 2015 08:19:43 +0000 (UTC)
Subject: [SciPy-User] scipy.sparse.linalg.factorized
Message-ID: <loom.20150202T090556-13@post.gmane.org>

I have the Python(x,y)-2.7.9.0.exe installation of python(x,y) running on 
windows-7 OS. I want to use scipy.sparse.linalg.factorized to solve linear 
systems using Umfpack. As far as I can tell, the python(x,y) installation 
does not include the necessary Umfpack code. How do I install Umfpack and 
how can I tell that I'm getting Umfpack and not superLU when I call 
factorized?  The Microsoft Visual C++ Compiler Package for Python 2.7 was 
installed when I ran Python(x,y)-2.7.9.0.exe.



From dskgair at gmail.com  Mon Feb  2 03:46:36 2015
From: dskgair at gmail.com (David Kershaw)
Date: Mon, 2 Feb 2015 08:46:36 +0000 (UTC)
Subject: [SciPy-User] scipy.sparse.linalg.factorized
References: <loom.20150202T090556-13@post.gmane.org>
Message-ID: <loom.20150202T094118-393@post.gmane.org>

David Kershaw <dskgair <at> gmail.com> writes:

> 
> I have the Python(x,y)-2.7.9.0.exe installation of python(x,y) running on 
> windows-7 OS. I want to use scipy.sparse.linalg.factorized to solve 
linear 
> systems using Umfpack. As far as I can tell, the python(x,y) installation 
> does not include the necessary Umfpack code. How do I install Umfpack and 
> how can I tell that I'm getting Umfpack and not superLU when I call 
> factorized?  The Microsoft Visual C++ Compiler Package for Python 2.7 was 
> installed when I ran Python(x,y)-2.7.9.0.exe.
> 

The python(x,y) installation does include the cvxopt site-package and one 
of the files in the cvxopt folder is umfpack.pyd dated 9/28/2014.





From cmutel at gmail.com  Mon Feb  2 05:59:16 2015
From: cmutel at gmail.com (Christopher Mutel)
Date: Mon, 2 Feb 2015 11:59:16 +0100
Subject: [SciPy-User] scipy.sparse.linalg.factorized
In-Reply-To: <loom.20150202T090556-13@post.gmane.org>
References: <loom.20150202T090556-13@post.gmane.org>
Message-ID: <CAOc=QnKu0jRWFNXs0qCdBnoqTs=c1GphtS6AeFv7qt1Uv+G6PA@mail.gmail.com>

Hi David-

UMFPACK needs to be wrapped to work with scipy, and the wrapper was
removed because of incompatible licenses (SuiteSparse, of which
UMFPACK is a part, is GPL-licensed). The wrapper code was also
available as a scikit, which is now maintained by Robert Cimrman on
github: https://github.com/rc/scikit-umfpack

I have built scikit-umfpack as a wheel for OS X, but don't have enough
expertise to build it as a wheel for Windows. To install it on your
machine you will need to compile SuiteSparse, and then install
scikit-umfpack with a suitable config that shows where your UMFPACK
and other SuiteSparse libraries are.

It is possible that scikit-umfpack could use the library in cvxopt; I
don't know anything about this, but I guess it is not trivial.

If someone wanted to build scikit-umfpack as a wheel (which would
include the UMFPACK libraries, so no one else would have to figure out
how to compile them), that would be super awesome.

You can test if UMFPACK is being used by scipy with:

from scipy.sparse.linalg.dsolve.linsolve import useUmfpack

useUmfpack will be either True or False.

Yours,
-Chris

On 2 February 2015 at 09:19, David Kershaw <dskgair at gmail.com> wrote:
> I have the Python(x,y)-2.7.9.0.exe installation of python(x,y) running on
> windows-7 OS. I want to use scipy.sparse.linalg.factorized to solve linear
> systems using Umfpack. As far as I can tell, the python(x,y) installation
> does not include the necessary Umfpack code. How do I install Umfpack and
> how can I tell that I'm getting Umfpack and not superLU when I call
> factorized?  The Microsoft Visual C++ Compiler Package for Python 2.7 was
> installed when I ran Python(x,y)-2.7.9.0.exe.
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user



-- 
############################
Chris Mutel
Technology Assessment Group, LEA
Paul Scherrer Institut
OHSA D22
5232 Villigen PSI
Switzerland
http://chris.mutel.org
Telefon: +41 56 310 5787
############################


From dskgair at gmail.com  Mon Feb  2 15:36:56 2015
From: dskgair at gmail.com (David Kershaw)
Date: Mon, 2 Feb 2015 20:36:56 +0000 (UTC)
Subject: [SciPy-User] scipy.sparse.linalg.factorized
References: <loom.20150202T090556-13@post.gmane.org>
	<CAOc=QnKu0jRWFNXs0qCdBnoqTs=c1GphtS6AeFv7qt1Uv+G6PA@mail.gmail.com>
Message-ID: <loom.20150202T212411-699@post.gmane.org>

Christopher Mutel <cmutel <at> gmail.com> writes:

> 
> Hi David-
> 
> UMFPACK needs to be wrapped to work with scipy, and the wrapper was
> removed because of incompatible licenses (SuiteSparse, of which
> UMFPACK is a part, is GPL-licensed). The wrapper code was also
> available as a scikit, which is now maintained by Robert Cimrman on
> github: https://github.com/rc/scikit-umfpack
> 
> I have built scikit-umfpack as a wheel for OS X, but don't have enough
> expertise to build it as a wheel for Windows. To install it on your
> machine you will need to compile SuiteSparse, and then install
> scikit-umfpack with a suitable config that shows where your UMFPACK
> and other SuiteSparse libraries are.
> 
> It is possible that scikit-umfpack could use the library in cvxopt; I
> don't know anything about this, but I guess it is not trivial.
> 
> If someone wanted to build scikit-umfpack as a wheel (which would
> include the UMFPACK libraries, so no one else would have to figure out
> how to compile them), that would be super awesome.
> 
> You can test if UMFPACK is being used by scipy with:
> 
> from scipy.sparse.linalg.dsolve.linsolve import useUmfpack
> 
> useUmfpack will be either True or False.
> 
> Yours,
> -Chris

Thanks for your help Chris.

I just found at:
https://pypi.python.org/pypi/scikit-umfpack

a file for download:
File    Type    Py Version    Uploaded on    Size
scikit_umfpack-0.1-cp27-none-macosx_10_6_intel.whl (md5)   Python Wheel  
cp27  2015-01-21 875KB 

Is this "scikit-umfpack as a wheel" for python 2.7.9 and how do I add it to 
my existing python(x,y) installation? I don't have a clue how to install a 
python wheel.

Best regards,
David 


> 
> On 2 February 2015 at 09:19, David Kershaw <dskgair <at> gmail.com> wrote:
> > I have the Python(x,y)-2.7.9.0.exe installation of python(x,y) running 
on
> > windows-7 OS. I want to use scipy.sparse.linalg.factorized to solve 
linear
> > systems using Umfpack. As far as I can tell, the python(x,y) 
installation
> > does not include the necessary Umfpack code. How do I install Umfpack 
and
> > how can I tell that I'm getting Umfpack and not superLU when I call
> > factorized?  The Microsoft Visual C++ Compiler Package for Python 2.7 
was
> > installed when I ran Python(x,y)-2.7.9.0.exe.
> >
> > _______________________________________________
> > SciPy-User mailing list
> > SciPy-User <at> scipy.org
> > http://mail.scipy.org/mailman/listinfo/scipy-user
> 






From cmutel at gmail.com  Mon Feb  2 16:03:40 2015
From: cmutel at gmail.com (Christopher Mutel)
Date: Mon, 2 Feb 2015 22:03:40 +0100
Subject: [SciPy-User] scipy.sparse.linalg.factorized
In-Reply-To: <loom.20150202T212411-699@post.gmane.org>
References: <loom.20150202T090556-13@post.gmane.org>
	<CAOc=QnKu0jRWFNXs0qCdBnoqTs=c1GphtS6AeFv7qt1Uv+G6PA@mail.gmail.com>
	<loom.20150202T212411-699@post.gmane.org>
Message-ID: <CAOc=QnJ4iU=5wWBRyNSe8-hFJx_Uu8un-Csw2tKksZSWUtuemQ@mail.gmail.com>

On 2 February 2015 at 21:36, David Kershaw <dskgair at gmail.com> wrote:
> Christopher Mutel <cmutel <at> gmail.com> writes:
>
>>
>> Hi David-
>>
>> UMFPACK needs to be wrapped to work with scipy, and the wrapper was
>> removed because of incompatible licenses (SuiteSparse, of which
>> UMFPACK is a part, is GPL-licensed). The wrapper code was also
>> available as a scikit, which is now maintained by Robert Cimrman on
>> github: https://github.com/rc/scikit-umfpack
>>
>> I have built scikit-umfpack as a wheel for OS X, but don't have enough
>> expertise to build it as a wheel for Windows. To install it on your
>> machine you will need to compile SuiteSparse, and then install
>> scikit-umfpack with a suitable config that shows where your UMFPACK
>> and other SuiteSparse libraries are.
>>
>> It is possible that scikit-umfpack could use the library in cvxopt; I
>> don't know anything about this, but I guess it is not trivial.
>>
>> If someone wanted to build scikit-umfpack as a wheel (which would
>> include the UMFPACK libraries, so no one else would have to figure out
>> how to compile them), that would be super awesome.
>>
>> You can test if UMFPACK is being used by scipy with:
>>
>> from scipy.sparse.linalg.dsolve.linsolve import useUmfpack
>>
>> useUmfpack will be either True or False.
>>
>> Yours,
>> -Chris
>
> Thanks for your help Chris.
>
> I just found at:
> https://pypi.python.org/pypi/scikit-umfpack
>
> a file for download:
> File    Type    Py Version    Uploaded on    Size
> scikit_umfpack-0.1-cp27-none-macosx_10_6_intel.whl (md5)   Python Wheel
> cp27  2015-01-21 875KB
>
> Is this "scikit-umfpack as a wheel" for python 2.7.9 and how do I add it to
> my existing python(x,y) installation? I don't have a clue how to install a
> python wheel.
>
> Best regards,
> David

Python wheels (http://pythonwheels.com/) are a newish format for
distributing Python code, and can be installed with pip, I can run
`pip install scikit-umfpack` and have a running installation in under
a second. But they are OS and architecture specific when including
compiled libraries like SuiteSparse, so the Mac OS X wheel won't work
on your python(x,y) installation. So far you are stuck compiling
SuiteSparse yourself, I think.

Yours,
Chris


From p.zaffino at yahoo.it  Tue Feb  3 06:55:12 2015
From: p.zaffino at yahoo.it (Paolo Zaffino)
Date: Tue, 03 Feb 2015 12:55:12 +0100
Subject: [SciPy-User] News about EuroSciPy 2015?
Message-ID: <54D0B720.6020501@yahoo.it>

Dear all,
I would like to know if there is any news about EuroSciPy 2015.

Thank you very much.
Best regards.

Paolo Zaffino


From daan.wynen at inria.fr  Tue Feb  3 09:20:53 2015
From: daan.wynen at inria.fr (Daan Wynen)
Date: Tue, 03 Feb 2015 15:20:53 +0100
Subject: [SciPy-User] fmin_l_bfgs_b stdout gets mixed into following
 Python stdout
In-Reply-To: <CAHRdPFzEc-Agh=KA8_A3b1ayWBeK2TpiwJ7tsh_fWdKREr8mXQ@mail.gmail.com>
References: <54CA4AAE.6080309@inria.fr>	<CAB=suEkqDXhXHFA-703js2Qo08dawqHJrXmrzjCEgrodhRSq5w@mail.gmail.com>
	<CAHRdPFzEc-Agh=KA8_A3b1ayWBeK2TpiwJ7tsh_fWdKREr8mXQ@mail.gmail.com>
Message-ID: <54D0D945.1000606@inria.fr>

sadly, the -u flag doesn't help after all.
I guess for the moment at least I have to live with this... :/

On 01/29/2015 04:32 PM, Matthew Gidden wrote:
> If this works for you, not that you can also set the PYTHONUNBUFFERED 
> <https://docs.python.org/2/using/cmdline.html#envvar-PYTHONUNBUFFERED> 
> environment variable (in case you're running this via a testing 
> framework, for instance).
>
> On Thu, Jan 29, 2015 at 9:25 AM, Jaidev Deshpande 
> <deshpande.jaidev at gmail.com <mailto:deshpande.jaidev at gmail.com>> wrote:
>
>
>
>     On Thu, Jan 29, 2015 at 8:28 PM, Daan Wynen <daan.wynen at inria.fr
>     <mailto:daan.wynen at inria.fr>> wrote:
>
>         Hi,
>
>         I couldn't find anything about this issue, and it is not
>         critical but annoying.
>         Whenever I run the solver, the standard output order gets
>         mixed up.
>         What I want to see is the following (blank lines stripped out
>         for saving space):
>
>         ...
>         ME SAYS: Unoptimized objective: 0.947251976788
>
>         RUNNING THE L-BFGS-B CODE
>                    * * *
>         Machine precision = 2.220D-16
>          N =           50     M =           20
>         At X0         0 variables are exactly at the bounds
>         At iterate    0    f=  9.47252D-01    |proj g|=  1.04635D-01
>         At iterate    1    f=  7.95655D-01    |proj g|=  9.16550D-02
>         ...
>         At iterate 3769    f=  7.12543D-05    |proj g|=  2.07939D-05
>         At iterate 3770    f=  7.12527D-05    |proj g|=  1.51021D-04
>                    * * *
>         Tit   = total number of iterations
>         ...
>          Total User time 0.000E+00 seconds.
>
>         ME SAYS: After optimization: 7.1252665476e-05
>         ...
>
>
>         Instead, what I get is this:
>
>
>         ...
>         ME SAYS: Unoptimized objective: 0.947251976788
>
>         RUNNING THE L-BFGS-B CODE
>                    * * *
>         Machine precision = 2.220D-16
>          N =           50     M =           20
>         At X0         0 variables are exactly at the bounds
>         At iterate    0    f=  9.47252D-01    |proj g|=  1.04635D-01
>         At iterate    1    f=  7.95655D-01    |proj g|=  9.16550D-02
>         ...
>         At iterate 3147    f=  8.09457D-05    |proj g|=  5.97659D-05
>
>         ME SAYS: After optimization: 7.1252665476e-05
>         At iterate 3148    f=  8.09298D-05    |proj g|=  5.19516D-05
>         ...
>         At iterate 3769    f=  7.12543D-05    |proj g|=  2.07939D-05
>         At iterate 3770    f=  7.12527D-05    |proj g|=  1.51021D-04
>                    * * *
>         Tit   = total number of iterations
>         ...
>          Total User time 0.000E+00 seconds.
>         ...
>
>         Obviously, when I run an experiment, I would like to see the
>         result at the end, and not buried somewhere in the middle of
>         the iteration outputs.
>         I tried passing callback=lambda _: sys.stdout.flush() and
>         putting another flush after the whole optimization, but it
>         didn't help.
>         The example is on a very fast toy calculation, but this also
>         happens when each iteration takes multiple seconds.
>
>         I am using:
>         python 2.7.3 (virtualenv from Fedora 18 distribution)
>         scipy 0.14.1
>         numpy 1.9.1
>         But this also happens on Canopy.
>
>         Is this maybe just to be expected when interfacing with
>         fortran, or am I using this the wrong way?
>
>         Best Regards
>         Daan Wynen
>
>         _______________________________________________
>         SciPy-User mailing list
>         SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>         http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
>     Perhaps this can be fixed by running your Python script in the
>     unbuffered output mode, as
>
>     $ python -u foo.py
>
>     -- 
>     JD
>
>     _______________________________________________
>     SciPy-User mailing list
>     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>     http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
>
>
> -- 
> Matthew Gidden
> Ph.D. Candidate, Nuclear Engineering
> The University of Wisconsin -- Madison
> Ph. 225.892.3192
>
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user

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From almar.klein at gmail.com  Wed Feb  4 09:43:19 2015
From: almar.klein at gmail.com (Almar Klein)
Date: Wed, 04 Feb 2015 15:43:19 +0100
Subject: [SciPy-User] ANN: imageio v1.1
Message-ID: <54D23007.6060204@gmail.com>

Imageio is a Python library that provides an easy interface to read and 
write a wide range of image data, including animated images. video, 
volumetric data, and scientific formats. It is cross-platform, runs on 
Python 2.x and 3.x, and is easy to install.

More information: http://imageio.github.io/
Release notes: http://imageio.readthedocs.org/en/latest/releasenotes.html

Regards,
   Almar


From flying-sheep at web.de  Thu Feb  5 03:34:41 2015
From: flying-sheep at web.de (Philipp A.)
Date: Thu, 05 Feb 2015 08:34:41 +0000
Subject: [SciPy-User] ANN: imageio v1.1
References: <54D23007.6060204@gmail.com>
Message-ID: <CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>

this really fills a niche well. good job!

Almar Klein <almar.klein at gmail.com> schrieb am Wed Feb 04 2015 at 15:43:47:

> Imageio is a Python library that provides an easy interface to read and
> write a wide range of image data, including animated images. video,
> volumetric data, and scientific formats. It is cross-platform, runs on
> Python 2.x and 3.x, and is easy to install.
>
> More information: http://imageio.github.io/
> Release notes: http://imageio.readthedocs.org/en/latest/releasenotes.html
>
> Regards,
>    Almar
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>
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From projetmbc at gmail.com  Thu Feb  5 03:57:54 2015
From: projetmbc at gmail.com (Christophe Bal)
Date: Thu, 5 Feb 2015 09:57:54 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
References: <54D23007.6060204@gmail.com>
	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
Message-ID: <CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>

Hello.

This looks nice. Is there some perfomance issue ?


*Christophe BAL*
*Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
*---*
*French math teacher in a "Lyc?e" **and **Python **amateur developer*

2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de>:

> this really fills a niche well. good job!
>
> Almar Klein <almar.klein at gmail.com> schrieb am Wed Feb 04 2015 at
> 15:43:47:
>
> Imageio is a Python library that provides an easy interface to read and
>> write a wide range of image data, including animated images. video,
>> volumetric data, and scientific formats. It is cross-platform, runs on
>> Python 2.x and 3.x, and is easy to install.
>>
>> More information: http://imageio.github.io/
>> Release notes: http://imageio.readthedocs.org/en/latest/releasenotes.html
>>
>> Regards,
>>    Almar
>> _______________________________________________
>> SciPy-User mailing list
>> SciPy-User at scipy.org
>> http://mail.scipy.org/mailman/listinfo/scipy-user
>>
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
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From almar.klein at gmail.com  Thu Feb  5 04:29:55 2015
From: almar.klein at gmail.com (Almar Klein)
Date: Thu, 05 Feb 2015 10:29:55 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>
References: <54D23007.6060204@gmail.com>	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>
Message-ID: <54D33813.4010507@gmail.com>


> This looks nice. Is there some perfomance issue ?

How do you mean?

- Almar


>
>
> *Christophe BAL*
> *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
> *---*
> *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>
> 2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de
> <mailto:flying-sheep at web.de>>:
>
>     this really fills a niche well. good job!
>
>     Almar Klein <almar.klein at gmail.com <mailto:almar.klein at gmail.com>>
>     schrieb am Wed Feb 04 2015 at 15:43:47:
>
>         Imageio is a Python library that provides an easy interface to
>         read and
>         write a wide range of image data, including animated images. video,
>         volumetric data, and scientific formats. It is cross-platform,
>         runs on
>         Python 2.x and 3.x, and is easy to install.
>
>         More information: http://imageio.github.io/
>         Release notes:
>         http://imageio.readthedocs.__org/en/latest/releasenotes.__html
>         <http://imageio.readthedocs.org/en/latest/releasenotes.html>
>
>         Regards,
>             Almar
>         _________________________________________________
>         SciPy-User mailing list
>         SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>         http://mail.scipy.org/mailman/__listinfo/scipy-user
>         <http://mail.scipy.org/mailman/listinfo/scipy-user>
>
>
>     _______________________________________________
>     SciPy-User mailing list
>     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>     http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
>
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>


From projetmbc at gmail.com  Thu Feb  5 04:32:09 2015
From: projetmbc at gmail.com (Christophe Bal)
Date: Thu, 5 Feb 2015 10:32:09 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <54D33813.4010507@gmail.com>
References: <54D23007.6060204@gmail.com>
	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>
	<54D33813.4010507@gmail.com>
Message-ID: <CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>

Working with pictures can be slow with Python so I would like to know if
imageio is a fast, or a slow package, or a medium one ?


*Christophe BAL*
*Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
*---*
*French math teacher in a "Lyc?e" **and **Python **amateur developer*

2015-02-05 10:29 GMT+01:00 Almar Klein <almar.klein at gmail.com>:

>
> > This looks nice. Is there some perfomance issue ?
>
> How do you mean?
>
> - Almar
>
>
> >
> >
> > *Christophe BAL*
> > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
> > *---*
> > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
> >
> > 2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de
> > <mailto:flying-sheep at web.de>>:
> >
> >     this really fills a niche well. good job!
> >
> >     Almar Klein <almar.klein at gmail.com <mailto:almar.klein at gmail.com>>
> >     schrieb am Wed Feb 04 2015 at 15:43:47:
> >
> >         Imageio is a Python library that provides an easy interface to
> >         read and
> >         write a wide range of image data, including animated images.
> video,
> >         volumetric data, and scientific formats. It is cross-platform,
> >         runs on
> >         Python 2.x and 3.x, and is easy to install.
> >
> >         More information: http://imageio.github.io/
> >         Release notes:
> >         http://imageio.readthedocs.__org/en/latest/releasenotes.__html
> >         <http://imageio.readthedocs.org/en/latest/releasenotes.html>
> >
> >         Regards,
> >             Almar
> >         _________________________________________________
> >         SciPy-User mailing list
> >         SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >         http://mail.scipy.org/mailman/__listinfo/scipy-user
> >         <http://mail.scipy.org/mailman/listinfo/scipy-user>
> >
> >
> >     _______________________________________________
> >     SciPy-User mailing list
> >     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     http://mail.scipy.org/mailman/listinfo/scipy-user
> >
> >
> >
> >
> > _______________________________________________
> > SciPy-User mailing list
> > SciPy-User at scipy.org
> > http://mail.scipy.org/mailman/listinfo/scipy-user
> >
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>
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From almar.klein at gmail.com  Thu Feb  5 04:37:50 2015
From: almar.klein at gmail.com (Almar Klein)
Date: Thu, 05 Feb 2015 10:37:50 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>
References: <54D23007.6060204@gmail.com>	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>	<54D33813.4010507@gmail.com>
	<CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>
Message-ID: <54D339EE.2070102@gmail.com>

> Working with pictures can be slow with Python so I would like to know if
> imageio is a fast, or a slow package, or a medium one ?

Imageio only reads and writes images. It does that pretty fast. E.g. 
png/jpg and other common formats are handled via the FreeImage library. 
Video via ffmpeg.

When reading an image it yields a numpy array. For processing the data, 
you need to use other tools, e.g. scikit-image.

- Almar



>
> *Christophe BAL*
> *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
> *---*
> *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>
> 2015-02-05 10:29 GMT+01:00 Almar Klein <almar.klein at gmail.com
> <mailto:almar.klein at gmail.com>>:
>
>
>     > This looks nice. Is there some perfomance issue ?
>
>     How do you mean?
>
>     - Almar
>
>
>      >
>      >
>      > *Christophe BAL*
>      > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
>     amateur*
>      > *---*
>      > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>     >
>     > 2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de <mailto:flying-sheep at web.de>
>      > <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>>:
>     >
>     >     this really fills a niche well. good job!
>     >
>      >     Almar Klein <almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com> <mailto:almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com>>>
>     >     schrieb am Wed Feb 04 2015 at 15:43:47:
>     >
>     >         Imageio is a Python library that provides an easy interface to
>     >         read and
>     >         write a wide range of image data, including animated images. video,
>     >         volumetric data, and scientific formats. It is cross-platform,
>     >         runs on
>     >         Python 2.x and 3.x, and is easy to install.
>     >
>     >         More information:http://imageio.github.io/
>     >         Release notes:
>      > http://imageio.readthedocs.__org/en/latest/releasenotes.__html
>      >         <http://imageio.readthedocs.org/en/latest/releasenotes.html>
>      >
>      >         Regards,
>      >             Almar
>      >         _________________________________________________
>      >         SciPy-User mailing list
>      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>      > http://mail.scipy.org/mailman/__listinfo/scipy-user
>     >         <http://mail.scipy.org/mailman/listinfo/scipy-user>
>     >
>     >
>     >     _______________________________________________
>     >     SciPy-User mailing list
>      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>      > http://mail.scipy.org/mailman/listinfo/scipy-user
>      >
>      >
>      >
>      >
>      > _______________________________________________
>      > SciPy-User mailing list
>      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>      > http://mail.scipy.org/mailman/listinfo/scipy-user
>      >
>     _______________________________________________
>     SciPy-User mailing list
>     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>     http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
>
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>


From projetmbc at gmail.com  Thu Feb  5 04:40:16 2015
From: projetmbc at gmail.com (Christophe Bal)
Date: Thu, 5 Feb 2015 10:40:16 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <54D339EE.2070102@gmail.com>
References: <54D23007.6060204@gmail.com>
	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>
	<54D33813.4010507@gmail.com>
	<CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>
	<54D339EE.2070102@gmail.com>
Message-ID: <CAAb4jGkeufBvaoLXrSkRdHBEhUb4jWSGXyFFLX4_+OUpfjMCrQ@mail.gmail.com>

That's a very good point so I will play with your library which has a so
easy to use interface (I really like the way to walk through the frames of
video).

Thanks a lot for your answers !


*Christophe BAL*
*Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
*---*
*French math teacher in a "Lyc?e" **and **Python **amateur developer*

2015-02-05 10:37 GMT+01:00 Almar Klein <almar.klein at gmail.com>:

> > Working with pictures can be slow with Python so I would like to know if
> > imageio is a fast, or a slow package, or a medium one ?
>
> Imageio only reads and writes images. It does that pretty fast. E.g.
> png/jpg and other common formats are handled via the FreeImage library.
> Video via ffmpeg.
>
> When reading an image it yields a numpy array. For processing the data,
> you need to use other tools, e.g. scikit-image.
>
> - Almar
>
>
>
> >
> > *Christophe BAL*
> > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
> > *---*
> > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
> >
> > 2015-02-05 10:29 GMT+01:00 Almar Klein <almar.klein at gmail.com
> > <mailto:almar.klein at gmail.com>>:
> >
> >
> >     > This looks nice. Is there some perfomance issue ?
> >
> >     How do you mean?
> >
> >     - Almar
> >
> >
> >      >
> >      >
> >      > *Christophe BAL*
> >      > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
> >     amateur*
> >      > *---*
> >      > *French math teacher in a "Lyc?e" **and **Python **amateur
> developer*
> >     >
> >     > 2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de <mailto:
> flying-sheep at web.de>
> >      > <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>>:
> >     >
> >     >     this really fills a niche well. good job!
> >     >
> >      >     Almar Klein <almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com> <mailto:almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com>>>
> >     >     schrieb am Wed Feb 04 2015 at 15:43:47:
> >     >
> >     >         Imageio is a Python library that provides an easy
> interface to
> >     >         read and
> >     >         write a wide range of image data, including animated
> images. video,
> >     >         volumetric data, and scientific formats. It is
> cross-platform,
> >     >         runs on
> >     >         Python 2.x and 3.x, and is easy to install.
> >     >
> >     >         More information:http://imageio.github.io/
> >     >         Release notes:
> >      > http://imageio.readthedocs.__org/en/latest/releasenotes.__html
> >      >         <
> http://imageio.readthedocs.org/en/latest/releasenotes.html>
> >      >
> >      >         Regards,
> >      >             Almar
> >      >         _________________________________________________
> >      >         SciPy-User mailing list
> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
> >      > http://mail.scipy.org/mailman/__listinfo/scipy-user
> >     >         <http://mail.scipy.org/mailman/listinfo/scipy-user>
> >     >
> >     >
> >     >     _______________________________________________
> >     >     SciPy-User mailing list
> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
> >      > http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >
> >      >
> >      >
> >      >
> >      > _______________________________________________
> >      > SciPy-User mailing list
> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >      > http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >
> >     _______________________________________________
> >     SciPy-User mailing list
> >     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     http://mail.scipy.org/mailman/listinfo/scipy-user
> >
> >
> >
> >
> > _______________________________________________
> > SciPy-User mailing list
> > SciPy-User at scipy.org
> > http://mail.scipy.org/mailman/listinfo/scipy-user
> >
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>
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From hturesson at gmail.com  Thu Feb  5 11:54:02 2015
From: hturesson at gmail.com (Hjalmar Turesson)
Date: Thu, 5 Feb 2015 13:54:02 -0300
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <CAAb4jGkeufBvaoLXrSkRdHBEhUb4jWSGXyFFLX4_+OUpfjMCrQ@mail.gmail.com>
References: <54D23007.6060204@gmail.com>
	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>
	<54D33813.4010507@gmail.com>
	<CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>
	<54D339EE.2070102@gmail.com>
	<CAAb4jGkeufBvaoLXrSkRdHBEhUb4jWSGXyFFLX4_+OUpfjMCrQ@mail.gmail.com>
Message-ID: <CAA7EFhTtm8AzVS4QgNv8pE7JNueJA_9AtDDgMYVeR9Z80WvyHQ@mail.gmail.com>

Hi,

It looks and works beautifully.
But... is there a way of setting the frame rate for webcams? I see that one
can set fps for a writer, but I cannot find a way to set fps for a reader.
And when using a webcam it makes sense to be able to control the fps.

Thanks a lot!
Hjalmar

On Thu, Feb 5, 2015 at 6:40 AM, Christophe Bal <projetmbc at gmail.com> wrote:

> That's a very good point so I will play with your library which has a so
> easy to use interface (I really like the way to walk through the frames of
> video).
>
> Thanks a lot for your answers !
>
>
> *Christophe BAL*
> *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
> *---*
> *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>
> 2015-02-05 10:37 GMT+01:00 Almar Klein <almar.klein at gmail.com>:
>
>> > Working with pictures can be slow with Python so I would like to know if
>> > imageio is a fast, or a slow package, or a medium one ?
>>
>> Imageio only reads and writes images. It does that pretty fast. E.g.
>> png/jpg and other common formats are handled via the FreeImage library.
>> Video via ffmpeg.
>>
>> When reading an image it yields a numpy array. For processing the data,
>> you need to use other tools, e.g. scikit-image.
>>
>> - Almar
>>
>>
>>
>> >
>> > *Christophe BAL*
>> > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
>> > *---*
>> > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>> >
>> > 2015-02-05 10:29 GMT+01:00 Almar Klein <almar.klein at gmail.com
>> > <mailto:almar.klein at gmail.com>>:
>> >
>> >
>> >     > This looks nice. Is there some perfomance issue ?
>> >
>> >     How do you mean?
>> >
>> >     - Almar
>> >
>> >
>> >      >
>> >      >
>> >      > *Christophe BAL*
>> >      > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
>> >     amateur*
>> >      > *---*
>> >      > *French math teacher in a "Lyc?e" **and **Python **amateur
>> developer*
>> >     >
>> >     > 2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de
>> <mailto:flying-sheep at web.de>
>> >      > <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>>:
>> >     >
>> >     >     this really fills a niche well. good job!
>> >     >
>> >      >     Almar Klein <almar.klein at gmail.com
>> >     <mailto:almar.klein at gmail.com> <mailto:almar.klein at gmail.com
>> >     <mailto:almar.klein at gmail.com>>>
>> >     >     schrieb am Wed Feb 04 2015 at 15:43:47:
>> >     >
>> >     >         Imageio is a Python library that provides an easy
>> interface to
>> >     >         read and
>> >     >         write a wide range of image data, including animated
>> images. video,
>> >     >         volumetric data, and scientific formats. It is
>> cross-platform,
>> >     >         runs on
>> >     >         Python 2.x and 3.x, and is easy to install.
>> >     >
>> >     >         More information:http://imageio.github.io/
>> >     >         Release notes:
>> >      > http://imageio.readthedocs.__org/en/latest/releasenotes.__html
>> >      >         <
>> http://imageio.readthedocs.org/en/latest/releasenotes.html>
>> >      >
>> >      >         Regards,
>> >      >             Almar
>> >      >         _________________________________________________
>> >      >         SciPy-User mailing list
>> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>> >      > http://mail.scipy.org/mailman/__listinfo/scipy-user
>> >     >         <http://mail.scipy.org/mailman/listinfo/scipy-user>
>> >     >
>> >     >
>> >     >     _______________________________________________
>> >     >     SciPy-User mailing list
>> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>> >      > http://mail.scipy.org/mailman/listinfo/scipy-user
>> >      >
>> >      >
>> >      >
>> >      >
>> >      > _______________________________________________
>> >      > SciPy-User mailing list
>> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>> >      > http://mail.scipy.org/mailman/listinfo/scipy-user
>> >      >
>> >     _______________________________________________
>> >     SciPy-User mailing list
>> >     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>> >     http://mail.scipy.org/mailman/listinfo/scipy-user
>> >
>> >
>> >
>> >
>> > _______________________________________________
>> > SciPy-User mailing list
>> > SciPy-User at scipy.org
>> > http://mail.scipy.org/mailman/listinfo/scipy-user
>> >
>> _______________________________________________
>> SciPy-User mailing list
>> SciPy-User at scipy.org
>> http://mail.scipy.org/mailman/listinfo/scipy-user
>>
>
>
> _______________________________________________
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> http://mail.scipy.org/mailman/listinfo/scipy-user
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>
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From jl_.+2 at redwoodscientific.com  Thu Feb  5 13:49:07 2015
From: jl_.+2 at redwoodscientific.com (John Lawless)
Date: Thu, 5 Feb 2015 10:49:07 -0800
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <54D23007.6060204@gmail.com>
References: <54D23007.6060204@gmail.com>
Message-ID: <20150205184907.GA14881@redwoodscientific.com>

It looks like a nice library.

How does Imageio compare (features, performance, etc.) with
OpenCV's corresponding functions (imread, imwrite, VideoCapture)?

Regards,

John

On Wed, Feb 04, 2015 at 03:43:19PM +0100, Almar Klein wrote:
> Imageio is a Python library that provides an easy interface to read and 
> write a wide range of image data, including animated images. video, 
> volumetric data, and scientific formats. It is cross-platform, runs on 
> Python 2.x and 3.x, and is easy to install.
> 
> More information: http://imageio.github.io/
> Release notes: http://imageio.readthedocs.org/en/latest/releasenotes.html
> 
> Regards,
>    Almar
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user


From almar.klein at gmail.com  Thu Feb  5 16:33:24 2015
From: almar.klein at gmail.com (Almar Klein)
Date: Thu, 05 Feb 2015 22:33:24 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <CAA7EFhTtm8AzVS4QgNv8pE7JNueJA_9AtDDgMYVeR9Z80WvyHQ@mail.gmail.com>
References: <54D23007.6060204@gmail.com>	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>	<54D33813.4010507@gmail.com>	<CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>	<54D339EE.2070102@gmail.com>	<CAAb4jGkeufBvaoLXrSkRdHBEhUb4jWSGXyFFLX4_+OUpfjMCrQ@mail.gmail.com>
	<CAA7EFhTtm8AzVS4QgNv8pE7JNueJA_9AtDDgMYVeR9Z80WvyHQ@mail.gmail.com>
Message-ID: <54D3E1A4.5060101@gmail.com>

Hi Hjalmar,

Currently, there is no way to set fps for the webcam directly. You can 
set the size though, which is likely to affect the fps (smaller size -> 
higher fps. Just add e.g. ``size='768x576'`` to the arguments. Similarly 
you can set the pixelformat. See 
http://imageio.readthedocs.org/en/latest/format_ffmpeg.html

I am not sure if setting fps directly is possible via ffmepg. You could 
look into it. I welcome a PR :)

- Almar


On 05-02-15 17:54, Hjalmar Turesson wrote:
> Hi,
>
> It looks and works beautifully.
> But... is there a way of setting the frame rate for webcams? I see that
> one can set fps for a writer, but I cannot find a way to set fps for a
> reader. And when using a webcam it makes sense to be able to control the
> fps.
>
> Thanks a lot!
> Hjalmar
>
> On Thu, Feb 5, 2015 at 6:40 AM, Christophe Bal <projetmbc at gmail.com
> <mailto:projetmbc at gmail.com>> wrote:
>
>     That's a very good point so I will play with your library which has
>     a so easy to use interface (I really like the way to walk through
>     the frames of video).
>
>     Thanks a lot for your answers !
>
>
>     *Christophe BAL*
>     *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
>     *---*
>     *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>
>     2015-02-05 10:37 GMT+01:00 Almar Klein <almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com>>:
>
>         > Working with pictures can be slow with Python so I would like to know if
>         > imageio is a fast, or a slow package, or a medium one ?
>
>         Imageio only reads and writes images. It does that pretty fast. E.g.
>         png/jpg and other common formats are handled via the FreeImage
>         library.
>         Video via ffmpeg.
>
>         When reading an image it yields a numpy array. For processing
>         the data,
>         you need to use other tools, e.g. scikit-image.
>
>         - Almar
>
>
>
>         >
>         > *Christophe BAL*
>         > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
>         > *---*
>         > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>         >
>         > 2015-02-05 10:29 GMT+01:00 Almar Klein <almar.klein at gmail.com <mailto:almar.klein at gmail.com>
>          > <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>>:
>         >
>         >
>         >     > This looks nice. Is there some perfomance issue ?
>         >
>         >     How do you mean?
>         >
>         >     - Almar
>         >
>         >
>         >      >
>         >      >
>         >      > *Christophe BAL*
>         >      > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
>         >     amateur*
>         >      > *---*
>         >      > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>         >     >
>         >     > 2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de <mailto:flying-sheep at web.de>
>         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>
>          >      > <mailto:flying-sheep at web.de
>         <mailto:flying-sheep at web.de> <mailto:flying-sheep at web.de
>         <mailto:flying-sheep at web.de>>>>:
>         >     >
>         >     >     this really fills a niche well. good job!
>         >     >
>         >      >     Almar Klein <almar.klein at gmail.com <mailto:almar.klein at gmail.com>
>          >     <mailto:almar.klein at gmail.com
>         <mailto:almar.klein at gmail.com>> <mailto:almar.klein at gmail.com
>         <mailto:almar.klein at gmail.com>
>         >     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>>>
>         >     >     schrieb am Wed Feb 04 2015 at 15:43:47:
>         >     >
>         >     >         Imageio is a Python library that provides an easy interface to
>         >     >         read and
>         >     >         write a wide range of image data, including animated images. video,
>         >     >         volumetric data, and scientific formats. It is cross-platform,
>         >     >         runs on
>         >     >         Python 2.x and 3.x, and is easy to install.
>         >     >
>         >     >         More information:http://imageio.github.io/
>         >     >         Release notes:
>         >      >http://imageio.readthedocs.__org/en/latest/releasenotes.__html
>         >      >         <http://imageio.readthedocs.org/en/latest/releasenotes.html>
>         >      >
>         >      >         Regards,
>         >      >             Almar
>         >      >         _________________________________________________
>         >      >         SciPy-User mailing list
>         >      >SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>         <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>          >     <mailto:SciPy-User at scipy.org
>         <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
>         <mailto:SciPy-User at scipy.org>>>
>         >      >http://mail.scipy.org/mailman/__listinfo/scipy-user
>         >     >         <http://mail.scipy.org/mailman/listinfo/scipy-user>
>         >     >
>         >     >
>         >     >     _______________________________________________
>         >     >     SciPy-User mailing list
>         >      >SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>         <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>          >     <mailto:SciPy-User at scipy.org
>         <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
>         <mailto:SciPy-User at scipy.org>>>
>          >      > http://mail.scipy.org/mailman/listinfo/scipy-user
>          >      >
>          >      >
>          >      >
>          >      >
>          >      > _______________________________________________
>          >      > SciPy-User mailing list
>          >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>         <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>          >      > http://mail.scipy.org/mailman/listinfo/scipy-user
>          >      >
>          >     _______________________________________________
>          >     SciPy-User mailing list
>          > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>         <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
>          > http://mail.scipy.org/mailman/listinfo/scipy-user
>          >
>          >
>          >
>          >
>          > _______________________________________________
>          > SciPy-User mailing list
>          > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>          > http://mail.scipy.org/mailman/listinfo/scipy-user
>          >
>         _______________________________________________
>         SciPy-User mailing list
>         SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>         http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
>
>     _______________________________________________
>     SciPy-User mailing list
>     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
>     http://mail.scipy.org/mailman/listinfo/scipy-user
>
>
>
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>


From almar.klein at gmail.com  Thu Feb  5 16:39:02 2015
From: almar.klein at gmail.com (Almar Klein)
Date: Thu, 05 Feb 2015 22:39:02 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <20150205184907.GA14881@redwoodscientific.com>
References: <54D23007.6060204@gmail.com>
	<20150205184907.GA14881@redwoodscientific.com>
Message-ID: <54D3E2F6.5050501@gmail.com>

> How does Imageio compare (features, performance, etc.) with
> OpenCV's corresponding functions (imread, imwrite, VideoCapture)?

Frankly, I have hardly any experience with OpenCV. What I can say is 
that imageio is much easier to install.

Further, I expect image reading to be comparatively fast, assuming that 
the freeImage folks did a good job at writing fast code.

As for video, imageio calls the ffmpeg executable and the image data is 
transferred to Python via a pipe. Although this is fast enough for 
realtime video streaming (even HD), it is hardly the most efficient method.

There is also the AVBIN plugin that can read video directly (using the 
avbin library, via ctypes). I expect this to be very efficient, but it 
has a few minor issues (e.g. the first few frames are always black).

- Almar

>
> On Wed, Feb 04, 2015 at 03:43:19PM +0100, Almar Klein wrote:
>> Imageio is a Python library that provides an easy interface to read and
>> write a wide range of image data, including animated images. video,
>> volumetric data, and scientific formats. It is cross-platform, runs on
>> Python 2.x and 3.x, and is easy to install.
>>
>> More information: http://imageio.github.io/
>> Release notes: http://imageio.readthedocs.org/en/latest/releasenotes.html
>>
>> Regards,
>>     Almar
>> _______________________________________________
>> SciPy-User mailing list
>> SciPy-User at scipy.org
>> http://mail.scipy.org/mailman/listinfo/scipy-user
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>


From jni.soma at gmail.com  Thu Feb  5 20:29:15 2015
From: jni.soma at gmail.com (Juan Nunez-Iglesias)
Date: Fri, 6 Feb 2015 12:29:15 +1100
Subject: [SciPy-User] Call for code nominations for Elegant SciPy!
Message-ID: <CA+JHcKTs_SY1uQRTTAUFDTtidJvkASfRdqt7GLQRyTNcqwEYsA@mail.gmail.com>

Hi all,

Sorry for cross posting but we are trying to get as many great submissions
as possible! I'll keep things short with Raniere Silva's summary:

*Long version:*
http://ilovesymposia.com/2015/02/04/call-for-code-nominations-for-elegant-scipy/
.

*Short version:*
Harriet Dashnow, St?fan van der Walt, and I will be writing an O'Reilly
book about the SciPy library and the surrounding ecosystem. (...)

So, if you recently came across scientific Python code that made you go
"Wow!" with its elegance, simplicity, cleverness, or power, please point us
to it! (...)

*How to submit*
Reach @hdashnow, @stefanvdwalt or @jnuneziglesias on Twitter or just
comment on the blog post,
http://ilovesymposia.com/2015/02/04/call-for-code-nominations-for-elegant-scipy/

Thanks!

Juan.
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From jjhelmus at gmail.com  Fri Feb  6 11:00:57 2015
From: jjhelmus at gmail.com (Jonathan Helmus)
Date: Fri, 06 Feb 2015 10:00:57 -0600
Subject: [SciPy-User] Call for code nominations for Elegant SciPy!
In-Reply-To: <CA+JHcKTs_SY1uQRTTAUFDTtidJvkASfRdqt7GLQRyTNcqwEYsA@mail.gmail.com>
References: <CA+JHcKTs_SY1uQRTTAUFDTtidJvkASfRdqt7GLQRyTNcqwEYsA@mail.gmail.com>
Message-ID: <54D4E539.1030609@gmail.com>

Juan,

     Just wanted to say that how excited it is to hear about a new book 
on SciPy. I'm looking forward to seeing it in print.  If I recall or 
come across some elegant examples of SciPy usage I'll be sure to forward 
them along.

Cheers,

     - Jonathan Helmus

On 02/05/2015 07:29 PM, Juan Nunez-Iglesias wrote:
> Hi all,
>
> Sorry for cross posting but we are trying to get as many great 
> submissions as possible! I'll keep things short with Raniere Silva's 
> summary:
>
> *Long version:*
> http://ilovesymposia.com/2015/02/04/call-for-code-nominations-for-elegant-scipy/.
>
> *Short version:*
> Harriet Dashnow, St?fan van der Walt, and I will be writing an 
> O?Reilly book about the SciPy library and the surrounding ecosystem. (...)
>
> So, if you recently came across scientific Python code that made you 
> go ?Wow!? with its elegance, simplicity, cleverness, or power, please 
> point us to it! (...)
>
> *How to submit*
> Reach @hdashnow, @stefanvdwalt or @jnuneziglesias on Twitter or just 
> comment on the blog post, 
> http://ilovesymposia.com/2015/02/04/call-for-code-nominations-for-elegant-scipy/
>
> Thanks!
>
> Juan.
>
>
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user

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From hturesson at gmail.com  Fri Feb  6 16:42:54 2015
From: hturesson at gmail.com (Hjalmar Turesson)
Date: Fri, 6 Feb 2015 18:42:54 -0300
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <54D3E1A4.5060101@gmail.com>
References: <54D23007.6060204@gmail.com>
	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>
	<54D33813.4010507@gmail.com>
	<CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>
	<54D339EE.2070102@gmail.com>
	<CAAb4jGkeufBvaoLXrSkRdHBEhUb4jWSGXyFFLX4_+OUpfjMCrQ@mail.gmail.com>
	<CAA7EFhTtm8AzVS4QgNv8pE7JNueJA_9AtDDgMYVeR9Z80WvyHQ@mail.gmail.com>
	<54D3E1A4.5060101@gmail.com>
Message-ID: <CAA7EFhQ1vXQvxEdjWTw1+NTboS7HNyD-Z4MoRZNEJVSECAKC_g@mail.gmail.com>

Hi Almar,

At least on linux it is definitively possible to set the fps via ffmpeg.
The following command works fine on my computer:
hkt at HP-Z200:~/.imageio/ffmpeg$ ./ffmpeg.linux64 -f v4l2 *-framerate 25*
-video_size 640x480 -i /dev/video0 output.mkv

I found the information at https://trac.ffmpeg.org/wiki/Capture/Webcam.
It looks like it should work on windows too. But, I'm less certain about OS
X.

Best regards,
Hjalmar


On Thu, Feb 5, 2015 at 6:33 PM, Almar Klein <almar.klein at gmail.com> wrote:

> Hi Hjalmar,
>
> Currently, there is no way to set fps for the webcam directly. You can
> set the size though, which is likely to affect the fps (smaller size ->
> higher fps. Just add e.g. ``size='768x576'`` to the arguments. Similarly
> you can set the pixelformat. See
> http://imageio.readthedocs.org/en/latest/format_ffmpeg.html
>
> I am not sure if setting fps directly is possible via ffmepg. You could
> look into it. I welcome a PR :)
>
> - Almar
>
>
> On 05-02-15 17:54, Hjalmar Turesson wrote:
> > Hi,
> >
> > It looks and works beautifully.
> > But... is there a way of setting the frame rate for webcams? I see that
> > one can set fps for a writer, but I cannot find a way to set fps for a
> > reader. And when using a webcam it makes sense to be able to control the
> > fps.
> >
> > Thanks a lot!
> > Hjalmar
> >
> > On Thu, Feb 5, 2015 at 6:40 AM, Christophe Bal <projetmbc at gmail.com
> > <mailto:projetmbc at gmail.com>> wrote:
> >
> >     That's a very good point so I will play with your library which has
> >     a so easy to use interface (I really like the way to walk through
> >     the frames of video).
> >
> >     Thanks a lot for your answers !
> >
> >
> >     *Christophe BAL*
> >     *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
> amateur*
> >     *---*
> >     *French math teacher in a "Lyc?e" **and **Python **amateur developer*
> >
> >     2015-02-05 10:37 GMT+01:00 Almar Klein <almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com>>:
> >
> >         > Working with pictures can be slow with Python so I would like
> to know if
> >         > imageio is a fast, or a slow package, or a medium one ?
> >
> >         Imageio only reads and writes images. It does that pretty fast.
> E.g.
> >         png/jpg and other common formats are handled via the FreeImage
> >         library.
> >         Video via ffmpeg.
> >
> >         When reading an image it yields a numpy array. For processing
> >         the data,
> >         you need to use other tools, e.g. scikit-image.
> >
> >         - Almar
> >
> >
> >
> >         >
> >         > *Christophe BAL*
> >         > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
> amateur*
> >         > *---*
> >         > *French math teacher in a "Lyc?e" **and **Python **amateur
> developer*
> >         >
> >         > 2015-02-05 10:29 GMT+01:00 Almar Klein <almar.klein at gmail.com
> <mailto:almar.klein at gmail.com>
> >          > <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com
> >>>:
> >         >
> >         >
> >         >     > This looks nice. Is there some perfomance issue ?
> >         >
> >         >     How do you mean?
> >         >
> >         >     - Almar
> >         >
> >         >
> >         >      >
> >         >      >
> >         >      > *Christophe BAL*
> >         >      > *Enseignant de math?matiques en Lyc?e **et d?veloppeur
> Python
> >         >     amateur*
> >         >      > *---*
> >         >      > *French math teacher in a "Lyc?e" **and **Python
> **amateur developer*
> >         >     >
> >         >     > 2015-02-05 9:34 GMT+01:00 Philipp A. <
> flying-sheep at web.de <mailto:flying-sheep at web.de>
> >         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>
> >          >      > <mailto:flying-sheep at web.de
> >         <mailto:flying-sheep at web.de> <mailto:flying-sheep at web.de
> >         <mailto:flying-sheep at web.de>>>>:
> >         >     >
> >         >     >     this really fills a niche well. good job!
> >         >     >
> >         >      >     Almar Klein <almar.klein at gmail.com <mailto:
> almar.klein at gmail.com>
> >          >     <mailto:almar.klein at gmail.com
> >         <mailto:almar.klein at gmail.com>> <mailto:almar.klein at gmail.com
> >         <mailto:almar.klein at gmail.com>
> >         >     <mailto:almar.klein at gmail.com <mailto:
> almar.klein at gmail.com>>>>
> >         >     >     schrieb am Wed Feb 04 2015 at 15:43:47:
> >         >     >
> >         >     >         Imageio is a Python library that provides an
> easy interface to
> >         >     >         read and
> >         >     >         write a wide range of image data, including
> animated images. video,
> >         >     >         volumetric data, and scientific formats. It is
> cross-platform,
> >         >     >         runs on
> >         >     >         Python 2.x and 3.x, and is easy to install.
> >         >     >
> >         >     >         More information:http://imageio.github.io/
> >         >     >         Release notes:
> >         >      >http://imageio.readthedocs.
> __org/en/latest/releasenotes.__html
> >         >      >         <
> http://imageio.readthedocs.org/en/latest/releasenotes.html>
> >         >      >
> >         >      >         Regards,
> >         >      >             Almar
> >         >      >
>  _________________________________________________
> >         >      >         SciPy-User mailing list
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> http://mail.scipy.org/mailman/listinfo/scipy-user>
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From ralf.gommers at gmail.com  Sat Feb  7 03:47:35 2015
From: ralf.gommers at gmail.com (Ralf Gommers)
Date: Sat, 7 Feb 2015 09:47:35 +0100
Subject: [SciPy-User] News about EuroSciPy 2015?
In-Reply-To: <54D0B720.6020501@yahoo.it>
References: <54D0B720.6020501@yahoo.it>
Message-ID: <CABL7CQiSZcLL4GpXJDwyOXtHGbVF89Nca=kEuNiQVsJCgh7pEg@mail.gmail.com>

On Tue, Feb 3, 2015 at 12:55 PM, Paolo Zaffino <p.zaffino at yahoo.it> wrote:

> Dear all,
> I would like to know if there is any news about EuroSciPy 2015.
>

Hi Paolo, there should be an announcement shortly, but as usual it should
be the last week of August.

Cheers,
Ralf
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From almar.klein at gmail.com  Sat Feb  7 11:20:17 2015
From: almar.klein at gmail.com (Almar Klein)
Date: Sat, 07 Feb 2015 17:20:17 +0100
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <CAA7EFhQ1vXQvxEdjWTw1+NTboS7HNyD-Z4MoRZNEJVSECAKC_g@mail.gmail.com>
References: <54D23007.6060204@gmail.com>	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>	<54D33813.4010507@gmail.com>	<CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>	<54D339EE.2070102@gmail.com>	<CAAb4jGkeufBvaoLXrSkRdHBEhUb4jWSGXyFFLX4_+OUpfjMCrQ@mail.gmail.com>	<CAA7EFhTtm8AzVS4QgNv8pE7JNueJA_9AtDDgMYVeR9Z80WvyHQ@mail.gmail.com>	<54D3E1A4.5060101@gmail.com>
	<CAA7EFhQ1vXQvxEdjWTw1+NTboS7HNyD-Z4MoRZNEJVSECAKC_g@mail.gmail.com>
Message-ID: <54D63B41.20707@gmail.com>


> At least on linux it is definitively possible to set the fps via ffmpeg.
> The following command works fine on my computer:
> hkt at HP-Z200:~/.imageio/ffmpeg$ ./ffmpeg.linux64 -f v4l2 *-framerate 25*
> -video_size 640x480 -i /dev/video0 output.mkv

Great! Do you feel like submitting a pull request for this? Should be a 
relatively easy one. The code should be somewhere in 
imageio/plugins/ffmpeg.py.

Otherwise I can do it up when I have a chance.

- Almar

>
> I found the information at https://trac.ffmpeg.org/wiki/Capture/Webcam.
> It looks like it should work on windows too. But, I'm less certain about
> OS X.
>
> Best regards,
> Hjalmar
>
>
> On Thu, Feb 5, 2015 at 6:33 PM, Almar Klein <almar.klein at gmail.com
> <mailto:almar.klein at gmail.com>> wrote:
>
>     Hi Hjalmar,
>
>     Currently, there is no way to set fps for the webcam directly. You can
>     set the size though, which is likely to affect the fps (smaller size ->
>     higher fps. Just add e.g. ``size='768x576'`` to the arguments. Similarly
>     you can set the pixelformat. See
>     http://imageio.readthedocs.org/en/latest/format_ffmpeg.html
>
>     I am not sure if setting fps directly is possible via ffmepg. You could
>     look into it. I welcome a PR :)
>
>     - Almar
>
>
>     On 05-02-15 17:54, Hjalmar Turesson wrote:
>     > Hi,
>     >
>     > It looks and works beautifully.
>     > But... is there a way of setting the frame rate for webcams? I see that
>     > one can set fps for a writer, but I cannot find a way to set fps for a
>     > reader. And when using a webcam it makes sense to be able to control the
>     > fps.
>     >
>     > Thanks a lot!
>     > Hjalmar
>     >
>     > On Thu, Feb 5, 2015 at 6:40 AM, Christophe Bal <projetmbc at gmail.com <mailto:projetmbc at gmail.com>
>     > <mailto:projetmbc at gmail.com <mailto:projetmbc at gmail.com>>> wrote:
>     >
>     >     That's a very good point so I will play with your library which has
>     >     a so easy to use interface (I really like the way to walk through
>     >     the frames of video).
>     >
>     >     Thanks a lot for your answers !
>     >
>     >
>     >     *Christophe BAL*
>     >     *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
>     >     *---*
>     >     *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>     >
>     >     2015-02-05 10:37 GMT+01:00 Almar Klein <almar.klein at gmail.com <mailto:almar.klein at gmail.com>
>      >     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>>:
>     >
>     >         > Working with pictures can be slow with Python so I would like to know if
>     >         > imageio is a fast, or a slow package, or a medium one ?
>     >
>     >         Imageio only reads and writes images. It does that pretty fast. E.g.
>     >         png/jpg and other common formats are handled via the FreeImage
>     >         library.
>     >         Video via ffmpeg.
>     >
>     >         When reading an image it yields a numpy array. For processing
>     >         the data,
>     >         you need to use other tools, e.g. scikit-image.
>     >
>     >         - Almar
>     >
>     >
>     >
>     >         >
>     >         > *Christophe BAL*
>     >         > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python amateur*
>     >         > *---*
>     >         > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>     >         >
>     >         > 2015-02-05 10:29 GMT+01:00 Almar Klein <almar.klein at gmail.com <mailto:almar.klein at gmail.com>
>     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>
>      >          > <mailto:almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com> <mailto:almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com>>>>:
>     >         >
>     >         >
>     >         >     > This looks nice. Is there some perfomance issue ?
>     >         >
>     >         >     How do you mean?
>     >         >
>     >         >     - Almar
>     >         >
>     >         >
>     >         >      >
>     >         >      >
>     >         >      > *Christophe BAL*
>     >         >      > *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
>     >         >     amateur*
>     >         >      > *---*
>     >         >      > *French math teacher in a "Lyc?e" **and **Python **amateur developer*
>     >         >     >
>     >         >     > 2015-02-05 9:34 GMT+01:00 Philipp A. <flying-sheep at web.de <mailto:flying-sheep at web.de>
>     <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>
>     >         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>
>     <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>>
>     >          >      > <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>
>     >         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>
>     <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>
>     >         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>>>>:
>     >         >     >
>     >         >     >     this really fills a niche well. good job!
>     >         >     >
>     >         >      >     Almar Klein <almar.klein at gmail.com <mailto:almar.klein at gmail.com>
>     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>
>     >          >     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>
>      >         <mailto:almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com>>> <mailto:almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com>
>      >         <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>
>      >         >     <mailto:almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com> <mailto:almar.klein at gmail.com
>     <mailto:almar.klein at gmail.com>>>>>
>      >         >     >     schrieb am Wed Feb 04 2015 at 15:43:47:
>      >         >     >
>      >         >     >         Imageio is a Python library that provides
>     an easy interface to
>      >         >     >         read and
>      >         >     >         write a wide range of image data,
>     including animated images. video,
>      >         >     >         volumetric data, and scientific formats.
>     It is cross-platform,
>      >         >     >         runs on
>      >         >     >         Python 2.x and 3.x, and is easy to install.
>      >         >     >
>      >         >     >         More information:http://imageio.github.io/
>      >         >     >         Release notes:
>      >         >
>      >http://imageio.readthedocs.__org/en/latest/releasenotes.__html
>      >         >      >
>       <http://imageio.readthedocs.org/en/latest/releasenotes.html>
>      >         >      >
>      >         >      >         Regards,
>      >         >      >             Almar
>      >         >      >
>       _________________________________________________
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From hturesson at gmail.com  Mon Feb  9 07:26:27 2015
From: hturesson at gmail.com (Hjalmar Turesson)
Date: Mon, 9 Feb 2015 09:26:27 -0300
Subject: [SciPy-User] ANN: imageio v1.1
In-Reply-To: <54D63B41.20707@gmail.com>
References: <54D23007.6060204@gmail.com>
	<CAN8d9gm=H8QB+u7D4QF2PbbmUHsjW+atVOS0kkJrDX1swPG4Hw@mail.gmail.com>
	<CAAb4jGmimgaWuYPivv12i8MCqR9Jx_iYcD4dp7txe7GGPs64mw@mail.gmail.com>
	<54D33813.4010507@gmail.com>
	<CAAb4jGk8+dwxV3EjMqkVjPJ-e7iN3j=ZN6fwi5zvW6_x4iZBtg@mail.gmail.com>
	<54D339EE.2070102@gmail.com>
	<CAAb4jGkeufBvaoLXrSkRdHBEhUb4jWSGXyFFLX4_+OUpfjMCrQ@mail.gmail.com>
	<CAA7EFhTtm8AzVS4QgNv8pE7JNueJA_9AtDDgMYVeR9Z80WvyHQ@mail.gmail.com>
	<54D3E1A4.5060101@gmail.com>
	<CAA7EFhQ1vXQvxEdjWTw1+NTboS7HNyD-Z4MoRZNEJVSECAKC_g@mail.gmail.com>
	<54D63B41.20707@gmail.com>
Message-ID: <CAA7EFhRfM0Y5U3MTwB36zTNbkhyw+q4SN-aHDk_vJpsAwBWCsA@mail.gmail.com>

I'll submit a pull request.

Best,
Hjalmar

On Sat, Feb 7, 2015 at 1:20 PM, Almar Klein <almar.klein at gmail.com> wrote:

>
> > At least on linux it is definitively possible to set the fps via ffmpeg.
> > The following command works fine on my computer:
> > hkt at HP-Z200:~/.imageio/ffmpeg$ ./ffmpeg.linux64 -f v4l2 *-framerate 25*
> > -video_size 640x480 -i /dev/video0 output.mkv
>
> Great! Do you feel like submitting a pull request for this? Should be a
> relatively easy one. The code should be somewhere in
> imageio/plugins/ffmpeg.py.
>
> Otherwise I can do it up when I have a chance.
>
> - Almar
>
> >
> > I found the information at https://trac.ffmpeg.org/wiki/Capture/Webcam.
> > It looks like it should work on windows too. But, I'm less certain about
> > OS X.
> >
> > Best regards,
> > Hjalmar
> >
> >
> > On Thu, Feb 5, 2015 at 6:33 PM, Almar Klein <almar.klein at gmail.com
> > <mailto:almar.klein at gmail.com>> wrote:
> >
> >     Hi Hjalmar,
> >
> >     Currently, there is no way to set fps for the webcam directly. You
> can
> >     set the size though, which is likely to affect the fps (smaller size
> ->
> >     higher fps. Just add e.g. ``size='768x576'`` to the arguments.
> Similarly
> >     you can set the pixelformat. See
> >     http://imageio.readthedocs.org/en/latest/format_ffmpeg.html
> >
> >     I am not sure if setting fps directly is possible via ffmepg. You
> could
> >     look into it. I welcome a PR :)
> >
> >     - Almar
> >
> >
> >     On 05-02-15 17:54, Hjalmar Turesson wrote:
> >     > Hi,
> >     >
> >     > It looks and works beautifully.
> >     > But... is there a way of setting the frame rate for webcams? I see
> that
> >     > one can set fps for a writer, but I cannot find a way to set fps
> for a
> >     > reader. And when using a webcam it makes sense to be able to
> control the
> >     > fps.
> >     >
> >     > Thanks a lot!
> >     > Hjalmar
> >     >
> >     > On Thu, Feb 5, 2015 at 6:40 AM, Christophe Bal <
> projetmbc at gmail.com <mailto:projetmbc at gmail.com>
> >     > <mailto:projetmbc at gmail.com <mailto:projetmbc at gmail.com>>> wrote:
> >     >
> >     >     That's a very good point so I will play with your library
> which has
> >     >     a so easy to use interface (I really like the way to walk
> through
> >     >     the frames of video).
> >     >
> >     >     Thanks a lot for your answers !
> >     >
> >     >
> >     >     *Christophe BAL*
> >     >     *Enseignant de math?matiques en Lyc?e **et d?veloppeur Python
> amateur*
> >     >     *---*
> >     >     *French math teacher in a "Lyc?e" **and **Python **amateur
> developer*
> >     >
> >     >     2015-02-05 10:37 GMT+01:00 Almar Klein <almar.klein at gmail.com
> <mailto:almar.klein at gmail.com>
> >      >     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com
> >>>:
> >     >
> >     >         > Working with pictures can be slow with Python so I would
> like to know if
> >     >         > imageio is a fast, or a slow package, or a medium one ?
> >     >
> >     >         Imageio only reads and writes images. It does that pretty
> fast. E.g.
> >     >         png/jpg and other common formats are handled via the
> FreeImage
> >     >         library.
> >     >         Video via ffmpeg.
> >     >
> >     >         When reading an image it yields a numpy array. For
> processing
> >     >         the data,
> >     >         you need to use other tools, e.g. scikit-image.
> >     >
> >     >         - Almar
> >     >
> >     >
> >     >
> >     >         >
> >     >         > *Christophe BAL*
> >     >         > *Enseignant de math?matiques en Lyc?e **et d?veloppeur
> Python amateur*
> >     >         > *---*
> >     >         > *French math teacher in a "Lyc?e" **and **Python
> **amateur developer*
> >     >         >
> >     >         > 2015-02-05 10:29 GMT+01:00 Almar Klein <
> almar.klein at gmail.com <mailto:almar.klein at gmail.com>
> >     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>
> >      >          > <mailto:almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com> <mailto:almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com>>>>:
> >     >         >
> >     >         >
> >     >         >     > This looks nice. Is there some perfomance issue ?
> >     >         >
> >     >         >     How do you mean?
> >     >         >
> >     >         >     - Almar
> >     >         >
> >     >         >
> >     >         >      >
> >     >         >      >
> >     >         >      > *Christophe BAL*
> >     >         >      > *Enseignant de math?matiques en Lyc?e **et
> d?veloppeur Python
> >     >         >     amateur*
> >     >         >      > *---*
> >     >         >      > *French math teacher in a "Lyc?e" **and **Python
> **amateur developer*
> >     >         >     >
> >     >         >     > 2015-02-05 9:34 GMT+01:00 Philipp A. <
> flying-sheep at web.de <mailto:flying-sheep at web.de>
> >     <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>
> >     >         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>
> >     <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>>
> >     >          >      > <mailto:flying-sheep at web.de <mailto:
> flying-sheep at web.de>
> >     >         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>>
> >     <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de>
> >     >         <mailto:flying-sheep at web.de <mailto:flying-sheep at web.de
> >>>>>:
> >     >         >     >
> >     >         >     >     this really fills a niche well. good job!
> >     >         >     >
> >     >         >      >     Almar Klein <almar.klein at gmail.com <mailto:
> almar.klein at gmail.com>
> >     <mailto:almar.klein at gmail.com <mailto:almar.klein at gmail.com>>
> >     >          >     <mailto:almar.klein at gmail.com <mailto:
> almar.klein at gmail.com>
> >      >         <mailto:almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com>>> <mailto:almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com>
> >      >         <mailto:almar.klein at gmail.com <mailto:
> almar.klein at gmail.com>>
> >      >         >     <mailto:almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com> <mailto:almar.klein at gmail.com
> >     <mailto:almar.klein at gmail.com>>>>>
> >      >         >     >     schrieb am Wed Feb 04 2015 at 15:43:47:
> >      >         >     >
> >      >         >     >         Imageio is a Python library that provides
> >     an easy interface to
> >      >         >     >         read and
> >      >         >     >         write a wide range of image data,
> >     including animated images. video,
> >      >         >     >         volumetric data, and scientific formats.
> >     It is cross-platform,
> >      >         >     >         runs on
> >      >         >     >         Python 2.x and 3.x, and is easy to
> install.
> >      >         >     >
> >      >         >     >         More information:
> http://imageio.github.io/
> >      >         >     >         Release notes:
> >      >         >
> >      >http://imageio.readthedocs.__org/en/latest/releasenotes.__html
> >      >         >      >
> >       <http://imageio.readthedocs.org/en/latest/releasenotes.html>
> >      >         >      >
> >      >         >      >         Regards,
> >      >         >      >             Almar
> >      >         >      >
> >       _________________________________________________
> >      >         >      >         SciPy-User mailing list
> >      >         >      >SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>>
> >      >         <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>>>
> >      >          >     <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>
> >      >         <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>
> >      >         <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org
> >>>>
> >      >         >      >
> http://mail.scipy.org/mailman/__listinfo/scipy-user
> >      >         >     >
> >       <http://mail.scipy.org/mailman/listinfo/scipy-user>
> >      >         >     >
> >      >         >     >
> >      >         >     >
>  _______________________________________________
> >      >         >     >     SciPy-User mailing list
> >      >         >      >SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>>
> >      >         <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>>>
> >      >          >     <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>
> >      >         <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>
> >      >         <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org
> >>>>
> >      >          >      >
> http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >          >      >
> >      >          >      >
> >      >          >      >
> >      >          >      >
> >      >          >      > _______________________________________________
> >      >          >      > SciPy-User mailing list
> >      >          >      > SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>>
> >      >         <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>>>
> >      >          >      >
> http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >          >      >
> >      >          >     _______________________________________________
> >      >          >     SciPy-User mailing list
> >      >          > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
> >      >         <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org> <mailto:SciPy-User at scipy.org
> >     <mailto:SciPy-User at scipy.org>>>
> >      >          > http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >          >
> >      >          >
> >      >          >
> >      >          >
> >      >          > _______________________________________________
> >      >          > SciPy-User mailing list
> >      >          > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
> >      >          > http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >          >
> >      >         _______________________________________________
> >      >         SciPy-User mailing list
> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
> >      > http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >
> >      >
> >      >
> >      >     _______________________________________________
> >      >     SciPy-User mailing list
> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     <mailto:SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>>
> >      > http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >
> >      >
> >      >
> >      >
> >      > _______________________________________________
> >      > SciPy-User mailing list
> >      > SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >      > http://mail.scipy.org/mailman/listinfo/scipy-user
> >      >
> >     _______________________________________________
> >     SciPy-User mailing list
> >     SciPy-User at scipy.org <mailto:SciPy-User at scipy.org>
> >     http://mail.scipy.org/mailman/listinfo/scipy-user
> >
> >
> >
> >
> > _______________________________________________
> > SciPy-User mailing list
> > SciPy-User at scipy.org
> > http://mail.scipy.org/mailman/listinfo/scipy-user
> >
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>
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From jni.soma at gmail.com  Wed Feb 11 06:36:22 2015
From: jni.soma at gmail.com (Juan Nunez-Iglesias)
Date: Wed, 11 Feb 2015 03:36:22 -0800 (PST)
Subject: [SciPy-User] Sign or weights reversal in ndimage.convolve?
Message-ID: <1423654581913.e2b6fb89@Nodemailer>

Hi,


Can someone clear up exactly what ndimage.convolve does with the weights input? Here's an example session:


In [1]: sig = np.array([0, 0, 1, 1, 0, 0])
In [2]: w = np.array([-1, 1])
In [3]: from scipy import ndimage as nd
In [4]: nd.convolve(sig, w)
Out[4]: array([ 0, -1,? 0,? 1,? 0,? 0])


I would have expected the output to be [0, 1, 0, -1, 0, 0]. ie:


out[1] = sig[1]w[0] + sig[2]w[1] = 0 * -1 + 1 * 1 = 1.


Where am I going wrong?


Thanks!


Juan.
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From jni.soma at gmail.com  Wed Feb 11 06:51:09 2015
From: jni.soma at gmail.com (Juan Nunez-Iglesias)
Date: Wed, 11 Feb 2015 03:51:09 -0800 (PST)
Subject: [SciPy-User] Sign or weights reversal in ndimage.convolve?
In-Reply-To: <1423654581913.e2b6fb89@Nodemailer>
References: <1423654581913.e2b6fb89@Nodemailer>
Message-ID: <1423655469380.8f53dd2f@Nodemailer>

Erm, never mind, a quick trip to Wikipedia shows that I was confusing convolution with cross-correlation. Sorry for the noise! =)




http://en.wikipedia.org/wiki/Convolution

On Wed, Feb 11, 2015 at 10:36 PM, Juan Nunez-Iglesias <jni.soma at gmail.com>
wrote:

> Hi,
> Can someone clear up exactly what ndimage.convolve does with the weights input? Here's an example session:
> In [1]: sig = np.array([0, 0, 1, 1, 0, 0])
> In [2]: w = np.array([-1, 1])
> In [3]: from scipy import ndimage as nd
> In [4]: nd.convolve(sig, w)
> Out[4]: array([ 0, -1,? 0,? 1,? 0,? 0])
> I would have expected the output to be [0, 1, 0, -1, 0, 0]. ie:
> out[1] = sig[1]w[0] + sig[2]w[1] = 0 * -1 + 1 * 1 = 1.
> Where am I going wrong?
> Thanks!
> Juan.
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From daan.wynen at inria.fr  Tue Feb 17 04:35:14 2015
From: daan.wynen at inria.fr (Daan Wynen)
Date: Tue, 17 Feb 2015 10:35:14 +0100
Subject: [SciPy-User] Scale Volume to Specific Size
Message-ID: <54E30B52.6030906@inria.fr>

Hi All,

just checking I am not missing sth here (usually I am).

I am trying to scale a 4D array (1 time dimension, 2 space dimensions, 1
color channel dimension) to a specific size.
That is, the last dimension remain unchanged.

The way I see it, misc.imresize() only handles images, and
ndimage.zoom() doesn't allow to pass the resulting shape but only the
scaling factors.
Are there any other functions that do that, or should I just go ahead
and calculate the appropriate scales for zoom()?

Thanks
/Daan


From almar.klein at gmail.com  Wed Feb 18 05:33:02 2015
From: almar.klein at gmail.com (Almar Klein)
Date: Wed, 18 Feb 2015 11:33:02 +0100
Subject: [SciPy-User] ANN: IEP v3.6 (and also Pyzo 2015a)
Message-ID: <54E46A5E.1070306@gmail.com>

Hi all,

I am pleased to announce a new release of the Interactive Editor for 
Python (IEP).

Some notable improvements are support for Jython, a new command history 
tool, and smart copy-pasting. For a complete list of fixes and 
improvements see https://bitbucket.org/iep-project/iep/wiki/Release%20notes

IEP is available on Pypi, and as always, binary downloads are available 
at http://www.iep-project.org/downloads.html

We also build a new version of Pyzo, a conda-based scientific Python 
distribution that uses IEP as its IDE.

Happy coding!
   Almar


From ghisvail at gmail.com  Wed Feb 18 14:36:54 2015
From: ghisvail at gmail.com (Ghislain Antony Vaillant)
Date: Wed, 18 Feb 2015 19:36:54 +0000 (UTC)
Subject: [SciPy-User] ANN: IEP v3.6 (and also Pyzo 2015a)
References: <54E46A5E.1070306@gmail.com>
Message-ID: <loom.20150218T203413-989@post.gmane.org>

Almar Klein <almar.klein <at> gmail.com> writes:

> 
> Hi all,
> 
> I am pleased to announce a new release of the Interactive Editor for 
> Python (IEP).
> 
> Some notable improvements are support for Jython, a new command history 
> tool, and smart copy-pasting. For a complete list of fixes and 
> improvements see https://bitbucket.org/iep-project/iep/wiki/Release%20notes
> 
> IEP is available on Pypi, and as always, binary downloads are available 
> at http://www.iep-project.org/downloads.html
> 
> We also build a new version of Pyzo, a conda-based scientific Python 
> distribution that uses IEP as its IDE.
> 
> Happy coding!
>    Almar
> 


Good job Almar,

I'll update the PPA [1] at some point during the week.

I have been using IEP for over a month and I am loving it. 

Thanks,

Ghis

[1] https://launchpad.net/~ghisvail/+archive/ubuntu/iep



From raniere at ime.unicamp.br  Thu Feb 19 07:04:09 2015
From: raniere at ime.unicamp.br (Raniere Silva)
Date: Thu, 19 Feb 2015 10:04:09 -0200
Subject: [SciPy-User] Google Summer of Code and NumFOCUS
Message-ID: <20150219120408.GB16143@pupunha>

Hi,

NumFOCUS has promotes and supports the ongoing research and development of
open-source computing tools including SciPy.

This year NumFOCUS want to try be a Google Summer of Code
"umbrella" mentoring organization,

    Umbrella organizations are mentoring organizations accepted into the Google
    Summer of Code program that have other open source organizations working
    "under" them. Sometime organizations that work very closely or have very
    similar goals or communities may get put together under an "umbrella."
    Google stills expects all organizations under the umbrella, whether accepted
    into the program under their title or not, to adhere to all the rules and
    regulations of the program.

    From https://www.google-melange.com/gsoc/document/show/gsoc_program/google/gsoc2015/help_page#umbrella_organization

To help promote and support SciPy.

We encourage SciPy to apply to Google Summer of Code under your own title
and will be very happy if you can also do with us.
If you are interested, please check https://github.com/swcarpentry/gsoc2015
and https://github.com/swcarpentry/gsoc2015/blob/master/CONTRIBUTING.md.

If you have any question, please email me directly.

Thanks in advance,
Raniere
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From thomas.robitaille at gmail.com  Thu Feb 19 10:18:00 2015
From: thomas.robitaille at gmail.com (Thomas Robitaille)
Date: Thu, 19 Feb 2015 15:18:00 +0000
Subject: [SciPy-User] ANN: Astropy v1.0 released
Message-ID: <CAGMHX_0mn0Cs0opwmj2d5VMMhUMhvxFEXPV2QBs+VS4PfmGKEg@mail.gmail.com>

Dear colleagues,

We are very happy to announce the fourth major public release (v1.0)
of the astropy package, a core Python package for Astronomy:

     http://www.astropy.org

Astropy is a community-driven Python package intended to contain much
of the core functionality and common tools needed for astronomy and
astrophysics.

New and improved major functionality in this release includes:

* Support for Altitude/Azimuth and Galactocentric coordinates in
astropy.coordinates
* A new astropy.visualization sub-package
* A new astropy.analytic_functions sub-package
* Compound models in astropy.modeling may now be created using
arithmetic expressions, and the resulting models support fitting.
* Significantly faster C-based readers/writers for astropy.io.ascii
* Support for a new enhanced CSV ASCII table format
* A refactored Table class with improved performance when
adding/removing columns
* Support for using Time, Quantity, or SkyCoord arrays as Table columns

In addition, hundreds of smaller improvements and fixes have been
made. An overview of the changes is provided at:

     http://docs.astropy.org/en/stable/whatsnew/1.0.html

Astropy v1.0 is a special release that we are denoting a Long Term
Support (LTS) release, which means that we will be supporting it with
bug fixes for the next two years, rather than the usual six months.
More information about this can be found at the link above.

Instructions for installing Astropy are provided on our website, and
extensive documentation can be found at:

     http://docs.astropy.org

In particular, if you use the Anaconda Python Distribution, you can
update to v1.0 with:

    conda update astropy

Whereas if you usually use pip, you can do:

    pip install astropy --upgrade

Please report any issues, or request new features via our GitHub repository:

     https://github.com/astropy/astropy/issues

Over 122 developers have contributed code to Astropy so far, and you
can find out more about the team behind Astropy here:

     http://www.astropy.org/team.html

If you use Astropy directly for your work, or as a dependency to
another package, please remember to include the following
acknowledgment at the end of papers:

"""
This research made use of Astropy, a community-developed core Python
package for Astronomy (Astropy Collaboration, 2013).
"""

where (Astropy Collaboration, 2013) is a reference to the Astropy paper:

     http://dx.doi.org/10.1051/0004-6361/201322068

Please feel free to forward this announcement to anyone you think
might be interested in this release.

We hope that you enjoy using Astropy as much as we enjoyed developing it!

Thomas Robitaille, Erik Tollerud, and Perry Greenfield
on behalf of The Astropy Collaboration


From josh at levykramer.co.uk  Thu Feb 19 10:35:51 2015
From: josh at levykramer.co.uk (Josh Levy-Kramer)
Date: Thu, 19 Feb 2015 15:35:51 +0000
Subject: [SciPy-User] Symmetric sparse matrix
Message-ID: <CAOUYwzpQS8Do320DGthS48AP0KjVxKjOf1gFG2K51C8Rgj4xOQ@mail.gmail.com>

Hi,

When constructing spares matrices it would be very useful to have a
built-in functionality for symmetric matrices. For a symmetric matrix this
could roughly half the memory usage. It seems strange that such a feature
dosn't already exist in Numpy/Scipy, as symmetric matrices are common in
scientific work.

I would like to request this feature to be built into Scipy. I am aware
this has been asked before on the mailing list and my response is that my
matrices are 'positively gigantic'. See:
http://article.gmane.org/gmane.comp.python.scientific.user/21973

Many thanks,
Josh
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From eptune at gmail.com  Thu Feb 19 11:22:17 2015
From: eptune at gmail.com (Erik Petigura)
Date: Thu, 19 Feb 2015 08:22:17 -0800
Subject: [SciPy-User] ANN: Astropy v1.0 released
In-Reply-To: <CAGMHX_0mn0Cs0opwmj2d5VMMhUMhvxFEXPV2QBs+VS4PfmGKEg@mail.gmail.com>
References: <CAGMHX_0mn0Cs0opwmj2d5VMMhUMhvxFEXPV2QBs+VS4PfmGKEg@mail.gmail.com>
Message-ID: <4AB5E0D2-F488-4FA1-BE46-0C94F62B148C@gmail.com>

Dear Astropy Team,

Thanks for all your hard work developing this extraordinary package. I use it extensively in my research involving extrasolar planets. 

Many Thanks,

Erik


On Feb 19, 2015, at 7:18 AM, Thomas Robitaille <thomas.robitaille at gmail.com> wrote:

> Dear colleagues,
> 
> We are very happy to announce the fourth major public release (v1.0)
> of the astropy package, a core Python package for Astronomy:
> 
>     http://www.astropy.org
> 
> Astropy is a community-driven Python package intended to contain much
> of the core functionality and common tools needed for astronomy and
> astrophysics.
> 
> New and improved major functionality in this release includes:
> 
> * Support for Altitude/Azimuth and Galactocentric coordinates in
> astropy.coordinates
> * A new astropy.visualization sub-package
> * A new astropy.analytic_functions sub-package
> * Compound models in astropy.modeling may now be created using
> arithmetic expressions, and the resulting models support fitting.
> * Significantly faster C-based readers/writers for astropy.io.ascii
> * Support for a new enhanced CSV ASCII table format
> * A refactored Table class with improved performance when
> adding/removing columns
> * Support for using Time, Quantity, or SkyCoord arrays as Table columns
> 
> In addition, hundreds of smaller improvements and fixes have been
> made. An overview of the changes is provided at:
> 
>     http://docs.astropy.org/en/stable/whatsnew/1.0.html
> 
> Astropy v1.0 is a special release that we are denoting a Long Term
> Support (LTS) release, which means that we will be supporting it with
> bug fixes for the next two years, rather than the usual six months.
> More information about this can be found at the link above.
> 
> Instructions for installing Astropy are provided on our website, and
> extensive documentation can be found at:
> 
>     http://docs.astropy.org
> 
> In particular, if you use the Anaconda Python Distribution, you can
> update to v1.0 with:
> 
>    conda update astropy
> 
> Whereas if you usually use pip, you can do:
> 
>    pip install astropy --upgrade
> 
> Please report any issues, or request new features via our GitHub repository:
> 
>     https://github.com/astropy/astropy/issues
> 
> Over 122 developers have contributed code to Astropy so far, and you
> can find out more about the team behind Astropy here:
> 
>     http://www.astropy.org/team.html
> 
> If you use Astropy directly for your work, or as a dependency to
> another package, please remember to include the following
> acknowledgment at the end of papers:
> 
> """
> This research made use of Astropy, a community-developed core Python
> package for Astronomy (Astropy Collaboration, 2013).
> """
> 
> where (Astropy Collaboration, 2013) is a reference to the Astropy paper:
> 
>     http://dx.doi.org/10.1051/0004-6361/201322068
> 
> Please feel free to forward this announcement to anyone you think
> might be interested in this release.
> 
> We hope that you enjoy using Astropy as much as we enjoyed developing it!
> 
> Thomas Robitaille, Erik Tollerud, and Perry Greenfield
> on behalf of The Astropy Collaboration
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user



From L.J.Buitinck at uva.nl  Fri Feb 20 09:41:51 2015
From: L.J.Buitinck at uva.nl (Lars Buitinck)
Date: Fri, 20 Feb 2015 15:41:51 +0100
Subject: [SciPy-User] [Symmetric sparse matrix]
Message-ID: <CAKz-xUfxvRZ2xtH5zLmsLW1MpcGph9gUzah0R9V9N72ZLTKt9w@mail.gmail.com>

2015-02-19 19:00 GMT+01:00  <scipy-user-request at scipy.org>:
> Date: Thu, 19 Feb 2015 15:35:51 +0000
> From: Josh Levy-Kramer <josh at levykramer.co.uk>
> Subject: [SciPy-User] Symmetric sparse matrix
> To: scipy-user at scipy.org
> Message-ID:
>         <CAOUYwzpQS8Do320DGthS48AP0KjVxKjOf1gFG2K51C8Rgj4xOQ at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Hi,
>
> When constructing spares matrices it would be very useful to have a
> built-in functionality for symmetric matrices. For a symmetric matrix this
> could roughly half the memory usage. It seems strange that such a feature
> dosn't already exist in Numpy/Scipy, as symmetric matrices are common in
> scientific work.
>
> I would like to request this feature to be built into Scipy. I am aware
> this has been asked before on the mailing list and my response is that my
> matrices are 'positively gigantic'. See:
> http://article.gmane.org/gmane.comp.python.scientific.user/21973


Maybe scipy.sparse.linalg [1] could help here:


In [1]: A = np.tril(arange(100).reshape(10, 10))

In [2]: A
Out[2]:
array([[ 0,  0,  0,  0,  0,  0,  0,  0,  0,  0],
       [10, 11,  0,  0,  0,  0,  0,  0,  0,  0],
       [20, 21, 22,  0,  0,  0,  0,  0,  0,  0],
       [30, 31, 32, 33,  0,  0,  0,  0,  0,  0],
       [40, 41, 42, 43, 44,  0,  0,  0,  0,  0],
       [50, 51, 52, 53, 54, 55,  0,  0,  0,  0],
       [60, 61, 62, 63, 64, 65, 66,  0,  0,  0],
       [70, 71, 72, 73, 74, 75, 76, 77,  0,  0],
       [80, 81, 82, 83, 84, 85, 86, 87, 88,  0],
       [90, 91, 92, 93, 94, 95, 96, 97, 98, 99]])

In [3]: from scipy.sparse.linalg import aslinearoperator

In [4]: Asymm = aslinearoperator(A) + aslinearoperator(A.T)

In [5]: v = np.random.randn(10)

In [6]: v
Out[6]:
array([-1.57187455,  0.29586824,  0.78213675, -0.81203632, -0.8434431 ,
       -0.54530479,  0.1875532 , -0.19030021,  1.92867268,  0.89577576])

In [7]: Asymm.dot(v)
Out[7]:
array([ 166.08317475,  155.31790208,  157.91335086,  109.59136522,
         87.65096238,   75.55360192,   93.79904031,   44.33055552,
        204.55730816,  116.72440766])

In [8]: A.dot(v) + A.T.dot(v)
Out[8]:
array([ 166.08317475,  155.31790208,  157.91335086,  109.59136522,
         87.65096238,   75.55360192,   93.79904031,   44.33055552,
        204.55730816,  116.72440766])


aslinearoperator(A) + aslinearoperator(A.T) only allocates a tiny new
object that offloads dot products to its summands and combines the
result. The example uses arrays, but the package can also use sparse
matrices. Also, the dot product is computed twice, but you can build
custom linear operators that only compute the result once.


[1] http://docs.scipy.org/doc/scipy/reference/sparse.linalg.html --
note that the package was recently expanded and fixed in various
places (by yours truly), but the new docs are not online yet.


From ralf.gommers at gmail.com  Fri Feb 20 10:53:05 2015
From: ralf.gommers at gmail.com (Ralf Gommers)
Date: Fri, 20 Feb 2015 16:53:05 +0100
Subject: [SciPy-User] [Numpy-discussion] Google Summer of Code and
	NumFOCUS
In-Reply-To: <20150219120315.GA16143@pupunha>
References: <20150219120315.GA16143@pupunha>
Message-ID: <CABL7CQhdZBZ9q5QDz7aHC3tF5O8OV8LDC3eAyjmGDPksMAMFdg@mail.gmail.com>

Hi Raniere,


On Thu, Feb 19, 2015 at 1:03 PM, Raniere Silva <raniere at ime.unicamp.br>
wrote:

> Hi,
>
> NumFOCUS has promotes and supports the ongoing research and development of
> open-source computing tools including NumPy.
>
> This year NumFOCUS want to try be a Google Summer of Code
> "umbrella" mentoring organization,
>
>     Umbrella organizations are mentoring organizations accepted into the
> Google
>     Summer of Code program that have other open source organizations
> working
>     "under" them. Sometime organizations that work very closely or have
> very
>     similar goals or communities may get put together under an "umbrella."
>     Google stills expects all organizations under the umbrella, whether
> accepted
>     into the program under their title or not, to adhere to all the rules
> and
>     regulations of the program.
>
>     From
> https://www.google-melange.com/gsoc/document/show/gsoc_program/google/gsoc2015/help_page#umbrella_organization
>
> To help promote and support NumPy.
>
> We encourage NumPy to apply to Google Summer of Code under your own title
> and will be very happy if you can also do with us.
> If you are interested, please check
> https://github.com/swcarpentry/gsoc2015
> and https://github.com/swcarpentry/gsoc2015/blob/master/CONTRIBUTING.md.
>
> If you have any question, please email me directly.
>

Thanks for the enthusiasm in getting Numfocus set up as a new mentoring org
- I'm sure that this will be useful for the long term. I'm not sure if
you're aware that Numpy, Scipy and many other scientific Python projects
have been participating under the umbrella of the PSF for a number of years
already (see https://wiki.python.org/moin/SummerOfCode/2014). For this year
we'd like to keep it that way. I'll email you privately with more details
and to see if I can help you in any way.

Cheers,
Ralf
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From raniere at ime.unicamp.br  Fri Feb 20 11:19:00 2015
From: raniere at ime.unicamp.br (Raniere Silva)
Date: Fri, 20 Feb 2015 14:19:00 -0200
Subject: [SciPy-User] [Numpy-discussion] Google Summer of Code and
	NumFOCUS
In-Reply-To: <CABL7CQhdZBZ9q5QDz7aHC3tF5O8OV8LDC3eAyjmGDPksMAMFdg@mail.gmail.com>
References: <20150219120315.GA16143@pupunha>
	<CABL7CQhdZBZ9q5QDz7aHC3tF5O8OV8LDC3eAyjmGDPksMAMFdg@mail.gmail.com>
Message-ID: <20150220161900.GF12853@pupunha>

Hi Ralf,

> Thanks for the enthusiasm in getting Numfocus set up as a new mentoring org
> - I'm sure that this will be useful for the long term.

Thanks for your email.

> I'm not sure if
> you're aware that Numpy, Scipy and many other scientific Python projects
> have been participating under the umbrella of the PSF for a number of years
> already (see https://wiki.python.org/moin/SummerOfCode/2014).

Yes, I'm aware of it.
I only care that every project have the opportunity to participate at GSoC
and participants have fun during it. =)

> For this year we'd like to keep it that way.

No problem for me.
I hope that we can work together on this next year.

Raniere
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From daniele at grinta.net  Fri Feb 20 11:34:53 2015
From: daniele at grinta.net (Daniele Nicolodi)
Date: Fri, 20 Feb 2015 17:34:53 +0100
Subject: [SciPy-User] Bug in interpolate.splrep() or am I doing something
	wrong?
Message-ID: <54E7622D.2050402@grinta.net>

Hello,

reading the documentation, I would expect this to work:

>     x = np.linspace(0, 2.0 * np.pi, 1000)
>     y = np.sin(x) + np.random.randn(x.shape[0]) * 0.2
>     tck0 = interpolate.splrep(x, y, task=0, w=np.ones(x.shape[0])/0.2)
>     tck1 = interpolate.splrep(x, y, task=1, w=np.ones(x.shape[0])/0.1)

however, the second splrep() call fails:

> Traceback (most recent call last):
>   File "test-splrep.py", line 17, in <module>
>     main()
>   File "test-splrep.py", line 9, in main
>     tck1 = interpolate.splrep(x, y, task=1, w=np.ones(x.shape[0])/0.1)
>   File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/interpolate/fitpack.py", line 495, in splrep
>     t = _curfit_cache['t']
> UnboundLocalError: local variable '_curfit_cache' referenced before assignment


This is with scipy 0.15.1.

Cheers,
Daniele


From evgeny.burovskiy at gmail.com  Fri Feb 20 11:45:19 2015
From: evgeny.burovskiy at gmail.com (Evgeni Burovski)
Date: Fri, 20 Feb 2015 16:45:19 +0000
Subject: [SciPy-User] Bug in interpolate.splrep() or am I doing
	something wrong?
In-Reply-To: <54E7622D.2050402@grinta.net>
References: <54E7622D.2050402@grinta.net>
Message-ID: <CAMRo0ivk3ozWKuG5LSbvoUqLuzXfPwbQyGqaO0RHzeex=q=Q9A@mail.gmail.com>

Hi Daniele,


There is a pull request, but it stalled:

https://github.com/scipy/scipy/pull/2884

The PR and the associated issue have some guidance on how to proceed
for fixing this.

HTH,

Evgeni



On Fri, Feb 20, 2015 at 4:34 PM, Daniele Nicolodi <daniele at grinta.net> wrote:
> Hello,
>
> reading the documentation, I would expect this to work:
>
>>     x = np.linspace(0, 2.0 * np.pi, 1000)
>>     y = np.sin(x) + np.random.randn(x.shape[0]) * 0.2
>>     tck0 = interpolate.splrep(x, y, task=0, w=np.ones(x.shape[0])/0.2)
>>     tck1 = interpolate.splrep(x, y, task=1, w=np.ones(x.shape[0])/0.1)
>
> however, the second splrep() call fails:
>
>> Traceback (most recent call last):
>>   File "test-splrep.py", line 17, in <module>
>>     main()
>>   File "test-splrep.py", line 9, in main
>>     tck1 = interpolate.splrep(x, y, task=1, w=np.ones(x.shape[0])/0.1)
>>   File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/scipy/interpolate/fitpack.py", line 495, in splrep
>>     t = _curfit_cache['t']
>> UnboundLocalError: local variable '_curfit_cache' referenced before assignment
>
>
> This is with scipy 0.15.1.
>
> Cheers,
> Daniele
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user


From Roger.Robinson at evotec.com  Tue Feb 24 11:11:11 2015
From: Roger.Robinson at evotec.com (Robinson, Roger)
Date: Tue, 24 Feb 2015 16:11:11 +0000
Subject: [SciPy-User] Scipy with pip compliation problems on Centos 6.6
Message-ID: <9A317C39B8EE234EA5DAEE7D27DA80274E1272D2@uk-abi-sma05.evotecoai.com>

Hi,

I am on CentOS 6.6. I have compiled BLAS+ATLAS+LAPACK separately on a network drive.

I have python 2.7.9 compiled.

Im using this command to install + complie scipy
pip install --target=/apps_shared/python/scipy/scipy-0.15.1 scipy

I get this error

Python 2.7.9 (default, Feb 16 2015, 11:29:23)
[GCC 4.4.7 20120313 (Red Hat 4.4.7-11)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> from scipy.stats import genextreme
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/apps_shared/python/scipy/current/scipy/stats/__init__.py", line 338, in <module>
    from .stats import *
  File "/apps_shared/python/scipy/current/scipy/stats/stats.py", line 184, in <module>
    import scipy.special as special
  File "/apps_shared/python/scipy/current/scipy/special/__init__.py", line 586, in <module>
    from ._ufuncs import *
ImportError: /apps_shared/python/scipy/current/scipy/special/_ufuncs.so: undefined symbol: dstevr_

Any advice ?

Thanks Roger
[EvotecLogoMail.png]
Dr Roger Robinson
My Linkedin Profile<https://www.linkedin.com/profile/view?id=40177586&trk=nav_responsive_tab_profile>
Systems Developer
Computational Chemistry & Cheminformatics
+44 (0)1235 441424  (direct)
roger.robinson at evotec.com<mailto:roger.robinson at evotec.com>
www.evotec.com<blocked::http://www.evotec.com>


Evotec(UK) Ltd
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Milton Park
Abingdon
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Evotec (UK) Ltd is a limited company registered in England and Wales. Registration number:2674265. Registered office: 114 Innovation Drive, Milton Park, Abingdon, Oxfordshire, OX14 4RZ, United Kingdom.
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From jmsachs at gmail.com  Tue Feb 24 15:16:42 2015
From: jmsachs at gmail.com (Jason Sachs)
Date: Tue, 24 Feb 2015 13:16:42 -0700
Subject: [SciPy-User] library for GF(2) Galois Fields
Message-ID: <CAOo6sOMQZqWJzWd1Xr6wGCe5pnMSM-4+cqWb797inK3DjqMTyw@mail.gmail.com>

Is there any Python library that can deal with Galois fields,
specifically the binary GF(2)? This comes up a lot in communications
theory and for linear-feedback shift registers. I would really like to
use a library that has things like arithmetic and matrix operations.
MATLAB offers this in their Communications Toolbox
http://www.mathworks.com/help/comm/galois-field-computations.html

I have a rudimentary library for some arithmetic that I've
open-sourced (https://bitbucket.org/jason_s/libgf2), but it's not
vectorized and it's really not up to the standard of numpy/scipy I
think.


From rnelsonchem at gmail.com  Tue Feb 24 16:05:00 2015
From: rnelsonchem at gmail.com (Ryan Nelson)
Date: Tue, 24 Feb 2015 16:05:00 -0500
Subject: [SciPy-User] library for GF(2) Galois Fields
In-Reply-To: <CAOo6sOMQZqWJzWd1Xr6wGCe5pnMSM-4+cqWb797inK3DjqMTyw@mail.gmail.com>
References: <CAOo6sOMQZqWJzWd1Xr6wGCe5pnMSM-4+cqWb797inK3DjqMTyw@mail.gmail.com>
Message-ID: <CAFbt6dceT+o8be1FMfjAOiFo=jebOT87nxJMBnMWe73pG5Z0zQ@mail.gmail.com>

You might want to look at Sage:
http://www.sagemath.org/doc/reference/rings_standard/sage/rings/finite_rings/constructor.html
Sage itself is very large, but SageMathCloud is a convenient (free) way to
test things out:
https://cloud.sagemath.com/
Ryan

On Tue, Feb 24, 2015 at 3:16 PM, Jason Sachs <jmsachs at gmail.com> wrote:

> Is there any Python library that can deal with Galois fields,
> specifically the binary GF(2)? This comes up a lot in communications
> theory and for linear-feedback shift registers. I would really like to
> use a library that has things like arithmetic and matrix operations.
> MATLAB offers this in their Communications Toolbox
> http://www.mathworks.com/help/comm/galois-field-computations.html
>
> I have a rudimentary library for some arithmetic that I've
> open-sourced (https://bitbucket.org/jason_s/libgf2), but it's not
> vectorized and it's really not up to the standard of numpy/scipy I
> think.
> _______________________________________________
> SciPy-User mailing list
> SciPy-User at scipy.org
> http://mail.scipy.org/mailman/listinfo/scipy-user
>
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From ralf.gommers at gmail.com  Wed Feb 25 01:28:03 2015
From: ralf.gommers at gmail.com (Ralf Gommers)
Date: Wed, 25 Feb 2015 07:28:03 +0100
Subject: [SciPy-User] Scipy with pip compliation problems on Centos 6.6
In-Reply-To: <9A317C39B8EE234EA5DAEE7D27DA80274E1272D2@uk-abi-sma05.evotecoai.com>
References: <9A317C39B8EE234EA5DAEE7D27DA80274E1272D2@uk-abi-sma05.evotecoai.com>
Message-ID: <CABL7CQj5Hgk9_Lj7vB=eGNBi5K_SdrCq4u-tr3QmuO8b9KcFCw@mail.gmail.com>

On Tue, Feb 24, 2015 at 5:11 PM, Robinson, Roger <Roger.Robinson at evotec.com>
wrote:

>  Hi,
>
>
>
> I am on CentOS 6.6. I have compiled BLAS+ATLAS+LAPACK separately on a
> network drive.
>
>
>
> I have python 2.7.9 compiled.
>
>
>
> Im using this command to install + complie scipy
>
> pip install --target=/apps_shared/python/scipy/scipy-0.15.1 scipy
>
>
>
> I get this error
>
>
>
> Python 2.7.9 (default, Feb 16 2015, 11:29:23)
>
> [GCC 4.4.7 20120313 (Red Hat 4.4.7-11)] on linux2
>
> Type "help", "copyright", "credits" or "license" for more information.
>
> >>> from scipy.stats import genextreme
>
> Traceback (most recent call last):
>
>   File "<stdin>", line 1, in <module>
>
>   File "/apps_shared/python/scipy/current/scipy/stats/__init__.py", line
> 338, in <module>
>
>     from .stats import *
>
>   File "/apps_shared/python/scipy/current/scipy/stats/stats.py", line 184,
> in <module>
>
>     import scipy.special as special
>
>   File "/apps_shared/python/scipy/current/scipy/special/__init__.py", line
> 586, in <module>
>
>     from ._ufuncs import *
>
> ImportError: /apps_shared/python/scipy/current/scipy/special/_ufuncs.so:
> undefined symbol: dstevr_
>
>
>
> Any advice ?
>

Looks like a problem with the LAPACK (or ATLAS) you compiled. I'm not sure
if the network drive and unusual pip command have anything to do with it.
To test that, you could first try compiling scipy against a precompiled
ATLAS binary for your distribution that is known to work.

 Ralf
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From cimrman3 at ntc.zcu.cz  Thu Feb 26 11:12:51 2015
From: cimrman3 at ntc.zcu.cz (Robert Cimrman)
Date: Thu, 26 Feb 2015 17:12:51 +0100
Subject: [SciPy-User] ANN: SfePy 2015.1
Message-ID: <54EF4603.8090300@ntc.zcu.cz>

I am pleased to announce release 2015.1 of SfePy.

Description
-----------

SfePy (simple finite elements in Python) is a software for solving systems of
coupled partial differential equations by the finite element method or by the
isogeometric analysis (preliminary support). It is distributed under the new
BSD license.

Home page: http://sfepy.org
Mailing list: http://groups.google.com/group/sfepy-devel
Git (source) repository, issue tracker, wiki: http://github.com/sfepy

Highlights of this release
--------------------------

- support for multiple fields in isogeometric analysis
- redesigned handling of solver parameters
- new modal analysis example

For full release notes see http://docs.sfepy.org/doc/release_notes.html#id1
(rather long and technical).

Best regards,
Robert Cimrman and Contributors (*)

(*) Contributors to this release (alphabetical order):

Lubos Kejzlar, Vladimir Lukes


From rishabh.sharma at students.iiit.ac.in  Fri Feb 27 13:40:45 2015
From: rishabh.sharma at students.iiit.ac.in (rishabh.sharma)
Date: Sat, 28 Feb 2015 00:10:45 +0530
Subject: [SciPy-User] Hierarchical clustering query
Message-ID: <516226d00d15c0c7e84be33f69683bd9@students.iiit.ac.in>

hello
I have this question,could someone help?

I am using scipy.cluster.hiearchical
***I have a distance matrix in squareform  't' as
array([[  0.00000000e+00,   3.44600000e+03,   6.75000000e+02,
           2.06000000e+03,   2.24205600e+06],
        [  3.44600000e+03,   0.00000000e+00,   2.77300000e+03,
           1.75000000e+03,   2.23959500e+06],
        [  6.75000000e+02,   2.77300000e+03,   0.00000000e+00,
           1.49100000e+03,   2.24154200e+06],
        [  2.06000000e+03,   1.75000000e+03,   1.49100000e+03,
           0.00000000e+00,   2.24127000e+06],
        [  2.24205600e+06,   2.23959500e+06,   2.24154200e+06,
           2.24127000e+06,   0.00000000e+00]])

***I used this cmd
z=linkage(t,method='complete') //t is the above matrix
z
array([[  0.00000000e+00,   2.00000000e+00,   1.39718861e+03,
           2.00000000e+00],
        [  1.00000000e+00,   3.00000000e+00,   3.53484724e+03,
           2.00000000e+00],
        [  5.00000000e+00,   6.00000000e+00,   5.85696654e+03,
           4.00000000e+00],
        [  4.00000000e+00,   7.00000000e+00,   5.00927065e+06,
           5.00000000e+00]])

**Question: why in the first row of z where objects 0,2 are merged the 
distance is shown as 1.397e+3[3rd element of 1st row] whereas it should 
the distance given by t[0][2] as in distance matrix(these objects are 
original objects/leaf nodes)

Thanks