Mailman 3 September 2012 - SciPy-Dev

Savitzky-Golay for scipy.signal
by thomash Sept. 13, 2012

Sept. 13, 2012

In my line of work, the Savitzky-Golay filter is one of the most useful filters, and I think it would be worth including it into scipy.signal. "rgommer" has already mentioned that he would support that notion, and I was wondering if it would be ok with the other developers if I go ahead with it? thomash

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ANN: SfePy 2012.3
by Robert Cimrman Sept. 12, 2012

Sept. 12, 2012

I am pleased to announce release 2012.3 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. The code is based on NumPy and SciPy packages. It is distributed under the new BSD license. Home page: http://sfepy.org Downloads, mailing list, wiki: http://code.google.com/p/sfepy/ Git (source) repository, issue tracker: http://github.com/sfepy Highlights of this release -------------------------- - several new terms - material parameters can be defined per region using region names - base function values can be defined per element - support for global options 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): Alec Kalinin, Vladimír Lukeš

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Re: [SciPy-Dev] scipy domains
by Travis Vaught Sept. 11, 2012

Sept. 11, 2012

On Sep 10, 2012, at 12:06 PM, Travis Vaught wrote: > Forwarding to scipy-user, since I've not had any thoughts out of scipy-dev on this. > > Maybe this is relevant to the naming discussion. > > Anyone? > > > Begin forwarded message: > >> From: Travis Vaught <travis(a)vaught.net> >> Subject: scipy domains >> Date: September 5, 2012 9:31:49 AM CDT >> To: "Scipy-Dev@Scipy. Org" <scipy-dev(a)scipy.org> >> >> All, >> >> In a fit of nostalgia, I began to renew the domains scipy.com and scipy.net this morning. >> >> I've no idea whether they have any real use other than brand protection, but I'm more than willing to fund the renewals for as long as I have the means to do so. (Note: even though I'm the listed administrator of these domains, I consider Enthought -- with which I'm no longer formally affiliated -- to be their capable caretaker). >> >> In the renewal process, the company from which I register the domains 'suggested' that there are other domains I might be interested in registering. Namely, scipy.info, scipy.us, and scipy.biz. Is there any use for these? I'm happy to add them to the bill if someone can make a case for their use/protection. >> >> Any thoughts are appreciated. >> >> Best, >> >> Travis > Alright, I'm feeling a bit neglected on this, so I'll just renew the scipy.net and scipy.com domains and leave it at that. If anyone needs to admin the domains going forward, let me know. Best, Travis

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Re: [SciPy-Dev] SciPy.org Website Move and Redesign
by Kyle Mandli Sept. 9, 2012

Sept. 9, 2012

I kind of dropped the ball on this as I have been traveling for the past month. I think we are ready to move forward on this and at least get the pieces in place. I am still not clear exactly what the current status of the scipy.org-new and scipy.github.com repos on github are. Can anyone speak to this? On a related topic, I have been searching out someone who may be able to do some redesign work on the site but was not successful (at least a free option). Any suggestions for someone with some design experience that could update the look of the site a bit please let us know. Kyle On Friday, August 24, 2012 at 10:00 AM, scipy-dev-request(a)scipy.org wrote: > On Fri, Jul 27, 2012 at 11:35 AM, Fernando Perez <fperez.net(a)gmail.com (mailto:fperez.net@gmail.com)> wrote: > > And precisely having the site moved over to a system where: > > > > - it's trivial to delegate website work to a separate team who can > > collaborate with the regular github flow (branches, PRs, etc) to > > manage the web content. > > > > - form and content are separated, with templates and CSS for all formal display > > Is this transition still on track? We should push it through, even if > it means living with a slightly outdated website for a week or two. > (I'm sure we'll all feel much more comfortable updating the web site > using PRs than whatever the current mechanism might be.) > > St?fan

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stats cleanup, attempt
by nicky van foreest Sept. 9, 2012

Sept. 9, 2012

Hi, Slowly but surely I am making some progress with respect to understanding the stats library. Hence I feel can start with making some contributions too. As a first attempt I would like to propose some clean up first. There is some code from https://github.com/scipy/scipy/blob/master/scipy/stats/distributions.py#L415 to https://github.com/scipy/scipy/blob/master/scipy/stats/distributions.py#L430 This is not used in distributions.py, and if I recall from a previous mail from Josef it not used at all anymore. Can I remove it? BTW: should I post a mail about proposals like this, or just remove it, and send a pull request with some explanation? Nicky

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ckdtree pull request
by Vincent Schut Sept. 9, 2012

Sept. 9, 2012

Hi all, there is this pull request with improvements for ckdtree (https://github.com/scipy/scipy/pull/262) that fixes quite some memory leaks for me. It saves me from the need to frequently restart my remote processing scripts, that use ckdtrees, and otherwise leak memory like a sieve... May I humbly request - as just a user who knows his place - this to be merged? Best, Vincent Schut.

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extended functionality of max/min ufuncs
by Tom Grydeland Sept. 8, 2012

Sept. 8, 2012

Hi all, I'm working on a system to translate (EXELIS/ITTVIS/RSI) IDL to Python/Numpy. The results are close to usable for many purposes, but some simple constructs are causing snags I was hoping you could help me with. IDL's MAX function supports a second (output) argument which will contain the index of the maximum value. One can write PRINT, MAX(x, id), id to get the value and index of the maximum element. In Numpy, I could do id = np.argmax(x); print x[id], id to get the same results in two statements. However, I can give MAX an extra keyword /NAN to tell it to ignore NaN and infinities. In Numpy, I have np.nanmax, but no np.nanargmax. In addition, MAX has the output keywords MIN=value and SUBSCRIPT_MIN=index to return the minimum value and its index from the same function call. Similarly, MIN has output keywords MAX=value and SUBSCRIPT_MAX=index, so I can get max/min values and their indices (ignoring NaNs) in a single call -- in Numpy I would need two calls, two indexing operations, one temporary array of values and one of indices. Would it be hard to add similar functionality to Numpy's min() and max() functions? Is it desirable? Regards, -- Tom Grydeland <Tom.Grydeland(a)(gmail.com)>

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Re: [SciPy-Dev] [SciPy-User] ANN: SciPy 0.11.0 release candidate 2
by Ralf Gommers Sept. 8, 2012

Sept. 8, 2012

On Tue, Aug 14, 2012 at 12:09 AM, Christoph Gohlke <cgohlke(a)uci.edu> wrote: > On 8/13/2012 11:30 AM, Ralf Gommers wrote: > > Hi, > > > > I am pleased to announce the availability of the second release > > candidate of SciPy 0.11.0. For this release many new features have been > > added, and over 120 tickets and pull requests have been closed. Also > > noteworthy is that the number of contributors for this release has risen > > to over 50. Some of the highlights are: > > > > - A new module, sparse.csgraph, has been added which provides a > > number of common sparse graph algorithms. > > - New unified interfaces to the existing optimization and root > > finding functions have been added. > > > > Sources and binaries can be found at > > http://sourceforge.net/projects/scipy/files/scipy/0.11.0rc2/, release > > notes are copied below. > > > > For this release candidate all known issues (with the exception of one > > Qhull issue on Debian, s390x platform) have been solved. In the meantime > > also OS X 10.8 was released, this RC contains a few build fixes for that > > platform. > > > > If no more serious issues are reported, the final release will be in one > > week. > > > > Cheers, > > Ralf > > > Hi Ralf, > > test_qz_double_sort is now failing in all msvc9/MKL builds (Python 2.6 > to 3.2, 32 and 64 bit): > Hmm, I think that that excludes anything compiler or ATLAS specific. This is the only test which really checks the results are correct for float input, almost all the other test only check that the output of qz is self-consistent (no hard-coded expected output). It seems that a couple more tests would be helpful. This issue has held up the release for too long already, so unless someone has time to get it resolved this week, I propose the following: 1. Figure out if the problem is the sort function or something else. 2. If it's sort, disable it. Otherwise remove the qz function from the 0.11.x branch. Ralf > > FAIL: test_qz_double_sort (test_decomp.TestQZ) > ---------------------------------------------------------------------- > Traceback (most recent call last): > File > "X:\Python32\lib\site-packages\scipy\linalg\tests\test_decomp.py", line > 1728, in test_qz_double_sort > [ 0. , 0. , 0. , -12.8217]]), 4) > File "X:\Python32\lib\site-packages\numpy\testing\utils.py", line > 800, in assert_array_almost_equal > header=('Arrays are not almost equal to %d decimals' % decimal)) > File "X:\Python32\lib\site-packages\numpy\testing\utils.py", line > 636, in assert_array_compare > raise AssertionError(msg) > AssertionError: > Arrays are not almost equal to 4 decimals > > (mismatch 62.5%) > x: array([[-14.66007968, -27.25220511, -31.55732717, -29.0823765 ], > [ 0. , 30.23027809, 42.47668118, 52.55438253], > [ 0. , 0. , 0.71600413, -2.77147791], > [ 0. , 0. , 0. , 2.50096525]]) > y: array([[ 3.57864000e+01, -8.09061000e+01, -1.20629000e+01, > -9.49800000e+00], > [ 0.00000000e+00, 2.76380000e+00, -2.35050000e+00,... > > > Christoph > > _______________________________________________ > SciPy-User mailing list > SciPy-User(a)scipy.org > http://mail.scipy.org/mailman/listinfo/scipy-user >

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John Hunter's memorial service: Oct 1, 2012
by Fernando Perez Sept. 7, 2012

Sept. 7, 2012

Hi all, I have just received the following information from John's family regarding the memorial service: John's memorial service will be held on Monday, October 1, 2012, at 11.a.m. at Rockefeller Chapel at the University of Chicago. The exact address is 5850 S. Woodlawn Ave, Chicago, IL 60615. The service is open to the public. The service will be fully planned and scripted with no room for people to eulogize, however, we will have a reception after the service, hosted by Tradelink, where people can talk. Regards, f

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