Mailman 3 May 2008 - SciPy-Dev

hyper1f1, ticket #659
by Moritz Helias 29 May '08

29 May '08

Hi, I found some strange behavior of the hypergeometric function with real arguments (hyp1f1). I do not know, who is the specialist on this subject, but could somebody please try to reproduce it (see ticket #659, attached .py file): For large negative x, the function becomes quite jagged. I also described a possible reason and a workaround in the ticket. My work relies on this function, so currently I have to patch each of my scipy installations to continue working. If the bug can be reproduced by others, is there the possibility that I provide a patch? Thanks in advance, greetings, Moritz

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scikits.learn: manifold learning does not build
by David Cournapeau 29 May '08

29 May '08

Hi, The package manifold learning does not build cleanly on Linux, and I don't think it would on any other platform because of some directories mispelling at least. I could not make it work in a few minutes, and instead of messing with a package which is not mine, I have disabled it in the setup.py for the moment. Please make sure that a package is at least buildable when adding something in scikits.learn, otherwise, every user of scikits.learn is affected, even when they do not use the package. Thank you, David

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Documentation Project - Tables
by Alan Jackson 24 May '08

24 May '08

Unless I'm doing something wrong (always a real possibility) the table functionality doesn't seem to be working in the wiki. Example in the kaiser windowing function. -- ----------------------------------------------------------------------- | Alan K. Jackson | To see a World in a Grain of Sand | | alan(a)ajackson.org | And a Heaven in a Wild Flower, | | www.ajackson.org | Hold Infinity in the palm of your hand | | Houston, Texas | And Eternity in an hour. - Blake | -----------------------------------------------------------------------

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[ANN] Mayavi sprint in July 2008
by Prabhu Ramachandran 23 May '08

23 May '08

Hi, This is to announce a Mayavi sprint between 2nd July to 9th July, 2008. The sprint will be held at the Enthought Office, Austin Texas. Here are the details: Dates: 2nd July 2008 to 9th July 2008 Location: Enthought Office at Austin, TX Please do join us -- even if it is only for a few days. Both Gaël Varoquaux and myself will be at the sprint on all days and there will be developers from Enthought joining us as well. Enthought is graciously hosting the sprint at their office. The agenda for the sprint is yet to be decided. Please contact me off-list if you plan on attending. Thanks! About Mayavi ------------ Mayavi seeks to provide easy and interactive visualization of 3D data. It is distributed under the terms of the new BSD license. It is built atop the Enthought Tool Suite and VTK. It provides an optional rich UI and a clean Pythonic API with native support for numpy arrays. Mayavi strives to be a reusable tool that can be embedded in your applications in different ways or combined with the envisage application-building framework to assemble domain-specific tools. For more information see here: http://code.enthought.com/projects/mayavi/ cheers, -- Prabhu Ramachandran http://www.aero.iitb.ac.in/~prabhu

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Duplicated docstring in Scipy Doc Wiki
by Pauli Virtanen 22 May '08

22 May '08

Hi all, to, 2008-05-22 kello 21:50 +0300, Pauli Virtanen kirjoitti: > to, 2008-05-22 kello 11:28 -0700, joep kirjoitti: > [clip] > > However, when I do a search on the DocWiki for example for arccos (or > > log, log10, exp, tan,...), I see it 9 times, and it is not clear which > > ones refer to the same docstring and where several imports of the same > > function are picked up separately, and which ones refer to actually > > different functions in the source. > [clip] > > A recommendation for docstring editing might be to verify duplicates > > and copy doc strings if the function is (almost) duplicated or > > triplicated in the numpy source and possibly cross link different > > versions. > > This is a problem with the tool on handling extension objects and > Pyrex-generated classes, and the editors shouldn't have to concern > themselves with it. I'll fix it and remove any unedited duplicates from > the wiki. I corrected this problem on the Scipy Doc Wiki today. You can see many automated changes in RecentChanges, but these only add links to the Numpy source codes (as requested by Joe, IIRC) and I verified manually that any real work wasn't clobbered. Pauli

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stderr missing in IPython + Emacs + WinXP
by Joe Covalesky 22 May '08

22 May '08

I'm using: WinXP Pro SP2 Emacs 22.1.1 ipython.el 2927 python-mode.el 4.75 I can get ipython nominally working in emacs ok so long as I use pyreadline 1.3. If I use more recent releases of pyreadline, none of the output prompts/ stdout shows up. Even with pyreadline1.3 (or with -noreadline), stderr doesn't show up, e.g.: In [2]: from sys import stderr,stdout In [3]: stdout.write('\nfoo\n') foo In [4]: stderr.write('\nbar\n') In [5]: Outside of emacs, this works just fine. Any ideas? Joe

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building issue in Windows
by Igor Sylvester 22 May '08

22 May '08

Hi. I am trying to build scipy in Windows. I am using binutils/mingw and get the following link error. How is the official scipy distribution built? What version of gcc/g77/g++ is used? I am using the following binutils. gcc-core-3.4.5-20060117-1.tar.gz gcc-g77-3.4.5-20060117-1.tar.gz gcc-g++-3.4.5-20060117-1.tar.gz mingw-runtime-3.12.tar.gz w32api-3.9.tar.gz Thanks for your help! compile options: '-IPython2.5\include -Inumpy\core\src -Inumpy\core\inclue -IPython2.5\include -IPython2.5\C -c' gcc -mno-cygwin -O2 -Wall -Wstrict-prototypes -IPython2.5\include -Inumpycore\src -Inumpy\core\include -IPython2.5\include -IPython2.5\PC -c _configtest.c -o _configtest.o Found executable binutils\bin\gcc.exe g++ -mno-cygwin _configtest.o -LPython2.5\lib -LC:\ -LPython2.5\libs -lmsvcr71 -o _configtest.exe Found executable binutils\bin\g++.exe Unknown option: -Bdynamic (ignored) libmingw32.a(pseudo-reloc.o) : error LNK2019: unresolved external symbol __image_base__ referenced in function _pei386_runtime_relocator _configtest.exe : fatal error LNK1120: 1 unresolved externals collect2: ld returned 96 exit status failure. removing: _configtest.c _configtest.o

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about data sets
by Johann Cohen-Tanugi 22 May '08

22 May '08

hello, well I apologize in advance for jumping ahead, this email can anyway always be set aside for later.... I just had the opportunity to use loadtxt today and looked for the docstring with the marathon in mind. And of course it is a non working example as the data file that it is supposed to load does not exist.... I noticed some time ago that David Cournapeau (I think) had started a discussion about this at http://scipy.org/scipy/scikits/wiki/DataSets .... I agree with him that loadable datasets in R are a big plus of this software. I guess that in principle I could create a buffer to read back with loadtxt in the example, but given the long term goals of this doc marathon, I thought that it might be useful to raise this issue right away.... best, Johann

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Re: [SciPy-dev] ANN: NumPy/SciPy Documentation Marathon 2008
by Scott Sinclair 21 May '08

21 May '08

Hi, My user name registered on the Wiki is ScottSinclair. I can offer to review and edit (items 2 & 3 below) and will also have a go at a few docstrings and doctests (items 1 & 4). Cheers, Scott >>> Joe Harrington <jh(a)physics.ucf.edu> 05/17/08 7:45 AM >>> NUMPY/SCIPY DOCUMENTATION MARATHON 2008 <snip...> There are several ways you can help: 1. Write some docstrings on the wiki! Many people can do this, many more than can write code for the package itself. However, you must know numpy, the function group, and the function you are writing well. You should be familiar with the concept of a reference page and write in that concise style. We'll do tutorial docs in another project at a later date. See the instructions on the wiki for guidelines and format. 2. Review others' docstrings and leave comments on their wiki pages. 3. Proofread docstrings. Make sure they are correct, complete, and concise. Fix grammar. 4. Write examples ("doctests"). Even if you are not a top-notch English writer, you can help by producing a code snippet of a few lines that demonstrates a function. It is fine for them to go into the docstring templates before the actual text. 5. Write a new help function that optionally produces ASCII or points the user's PDF or HTML reader to the right page (either local or global). 6. If you are in a position to hire someone, such as a knowledgeable student or short-term consultant, hire them to work on the tasks above for the summer. We can provide supervision to them or guidance to you if you like. The home for this project is here: http://scipy.org/Developer_Zone/DocMarathon2008 This is not a sprint. It is a marathon, and this time we are going to finish. We hope you will join us! Please find our Email Disclaimer here: http://www.ukzn.ac.za/disclaimer/

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_nanmedian
by Keith Goodman 21 May '08

21 May '08

I think _nanmedian in stats.py uses an unnecessary sort. Perhaps it is left over from a time when _nanmedian calculated the median instead of calling median.

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