🌐 Mailman 3 August 2007 - Python-list - python.org

Re: Python doesn't see the directories I create
by Marc 'BlackJack' Rintsch Aug. 30, 2007

Aug. 30, 2007

On Thu, 30 Aug 2007 07:28:52 -0400, Steve Holden wrote: > Bruno Desthuilliers wrote: >> Steve Holden a écrit : >> Indeed. But I doubt a path starting with 'C:' will work fine on a >> unix-like environment anyway !-) > > Just to be contrarian: > > sholden@bigboy ~/Projects/python.org/build > $ ls C:/Steve/ > Apache SANSsecurityOverview.pdf > Apache2 SQLServer.txt > ... > Resume.odt todo.txt > Resume.pdf untitled-1.py > > sholden@bigboy ~/Projects/python.org/build > > That's Cygwin, of course. Is that sufficiently "unix-like"? Though I > have to admit that the different utilities all take different approaches > to the use of Windows paths, and some just won't take them at all. Even on Unix it shouldn't be a problem on most file systems to create a directory named 'C:' bj@s8n:~$ mkdir C: bj@s8n:~$ touch C:/test.txt bj@s8n:~$ ls -l C: total 0 -rw-r--r-- 1 bj bj 0 2007-08-30 14:38 test.txt :-) Ciao, Marc 'BlackJack' Rintsch

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Re: IDE for Python
by Ali Aug. 30, 2007

Aug. 30, 2007

On Aug 21, 11:00 am, Joel Andres Granados <joel.grana...(a)gmail.com> wrote: > Hello list: > > I have tried various times to use an IDE for python put have always been > disapointed. > I haven't revisited the idea in about a year and was wondering what the > python people > use. > I have also found http://pida.co.uk/main as a possible solution. Anyone > tried it yet? PIDA (http://pida.co.uk/), in my humble opinion, is the One True IDE*. It will embed the editor of your choice, use the version control system of your choice, and integrate the tools of your choice. In short, it integrates your development tools into a single environment. Hence the tag: "One True IDE". Ali * Emacs is pretty good at this, but since PIDA can embed Emacs anyway, and adds features to it...

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Embedding the python interpreter
by Tom Gur Aug. 30, 2007

Aug. 30, 2007

Hey, Do you know an easy way to embed the python interpreter in a python program (so a non-technical user, which has no idea how to install the python interpreter would be able to run the script as an executable) ?

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Re: Python molecular viewer
by Paul McGuire Aug. 30, 2007

Aug. 30, 2007

On Aug 29, 8:31 am, Andy Cheesman <Andy.chees...(a)bristol.ac.uk> wrote: > Dear People, > > I was wondering if people could recommend a simple molecular viewing > package written in python. I'm working in Theoretical chemistry and I'm > not after an all-singing dancing molecular rendering package(pymol does > that rather well) but a program which reads XYZ files and displays > simple structures which can be rotated in 3D > > Thanks > > Andy slut is an OpenGL wrapper that I found to be very intuitive to use, and comes with some simple "moving ball" animations, but the animations also can be panned, zoomed, and rotated. In your case, you wouldn't need to do the animation, just plot the balls in 3D and then pan and zoom to your heart's content. Here is a simple program that plots a series of points on a sphere: from slut import * # points on a sphere data = [ (1.0, 0.0, 0.0), (0.945, 0.0, -0.325), (0.789, 0.0, -0.613), (0.547, 0.0, -0.836), (0.246, 0.0, -0.968), (-0.083, 0.0, -0.997), (-0.402, 0.0, -0.916), (-0.677, 0.0, -0.735), ... (-0.078, 0.027, 0.997), (0.232, -0.080, 0.968), (0.517, -0.177, 0.836), (0.746, -0.256, 0.613), (0.895, -0.307, 0.325), (0.945, -0.325, 0.0) ] from slut import * class SphereViewer(World): def onSetup(self): self.width = 400 self.height = 400 self.name = "Points on a Sphere" def onDraw(self): # draw translucent sphere glColor4f(0.7, 0.7, 0.7, 0.5) sphere(0, 0, 0, 1.0) glColor4f(0.3, 0.3, 0.4, 1.0) # plot points on surface glPointSize(4) for d in data: point(*d) # connect points with path glLineWidth(1.5) lastd = data[-1] for d in data: line( *(lastd + d) ) lastd = d viewer = SphereViewer() viewer.run() And here is a short Wink video showing me working with a simplified version of this sphere: http://www.geocities.com/ptmcg/python/sphere1.htm. If you have your molecules' 3D coordinates, you should be able to just plot them, and then use slut to view the molecule. -- Paul

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replacing xml elements with other elements using lxml
by Ultrus Aug. 30, 2007

Aug. 30, 2007

Hello, I'm attempting to generate a random story using xml as the document, and lxml as the parser. I want the document to be simplified before processing it further, and am very close to accomplishing my goal. Below is what I have so far. Any ideas on how to move forward? The goal: read and edit xml file, replacing random elements with randomly picked content from within Completed: [x] read xml [x] access first random tag [x] pick random content within random item [o] need to replace <random> tag with picked contents xml sample: <contents>Here is some content.</contents> <random> <item><contents>Here is some random content.</contents></item> <item><contents>Here is some more random content.</contents></item> </random> <contents>Here is some content.</contents> Python code: from lxml import etree from StringIO import StringIO import random theXml = "<contents>Here is some content.</ contents><random><item><contents>Here is some random content.</ contents></item><item><contents>Here is some more random content.</ contents></item></random><contents>Here is some content.</contents>" f = StringIO(theXml) tree = etree.parse(f) r = tree.xpath('//random') if len(r) > 0: randInt = random.randInt(0,(len(r[0]) - 1)) randContents = r[0][randInt][0] #replace parent random tag with picked content here now that I have the contents tag randomly chosen, how do I delete the parent <random> tag, and replace it to look like this: final xml sample (goal): <contents>Here is some content.</contents> <contents>Here is some random content.</contents> <contents>Here is some content.</contents> Any idea on how to do this? So close! Thanks for the help in advance. :)

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Re: We need PIGs :)
by Carl Banks Aug. 30, 2007

Aug. 30, 2007

On Thu, 30 Aug 2007 07:10:47 +0200, Martin Marcher wrote: > My idea was to define "Python Implementation Guidelines" (PIGs) that > specify a problem formalize it enough so that implementations are > interchangeable (in this example create a module that has an > "authenticate(username, password)" method so that one could easily take > that module for any given app and then authenticate against postgres, > and also against my plaintext file (which was the original - quite > useless - implementation). > > Does that sound like a good idea or would that be over formalization? The Python community already did something for web applications (WSGI, I think). Not sure how well that's working out. Doing this kind of thing is not, of course, something that can be done in general for all problems. It would only help if there's enough demand for interoperability that developers make the effort to adhere to the guidelines (which are rarely ideal for any particular situation). Although there are some informal standards that Python programmers often observe (for example, the interface of file-like objects), there isn't too much demand to standardize them. I believe the Python language itself makes formal guidelines less helpful, because its dynamicism (among other things) makes is so good at interfacing. That is, if you have two pieces of code that don't work together, it's easy to connect them. Many people often call Python a good "glue" language for this reason. And when you have a good "glue" language, formal interface guidelines aren't so important. Carl Banks

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self extracting zipefile (windows) and (standard module) zipefile
by Werner Aug. 30, 2007

Aug. 30, 2007

Hi, I try to read (and extract) some "self extracting" zipefiles on a Windows system. The standard module zipefile seems not to be able to handle this. >>> fName = r"C:\tmp\mySelfExtratingFile.exe" >>> import zipfile >>> zipefile.is_zipfile(fName)) False Is there a wrapper or has some one experience with other libaries to extract those files? Thanks in advance Werner

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We need PIGs :)
by Martin Marcher Aug. 30, 2007

Aug. 30, 2007

Hello, having worked quite a bit with python in the last months (some Java before, and some C++ before that) I was very impressed by an idea the Java people had. Explanation: the JSRs define how to implement certain services and or features in Java so that they can be reused. I haven't found such a thing for python yet. Say I have the problem of authentication. Now I can implement authentication against a text file with a "key : value" format. However someone may find it more suitable to implement a authentication backend for exactly this app that can use postgres. Who else can use the authentication for my program created by a third party in his or her own app/package/module? To my knowledge noone as there's nothing you could at least theoretically keep to. My idea was to define "Python Implementation Guidelines" (PIGs) that specify a problem formalize it enough so that implementations are interchangeable (in this example create a module that has an "authenticate(username, password)" method so that one could easily take that module for any given app and then authenticate against postgres, and also against my plaintext file (which was the original - quite useless - implementation). Does that sound like a good idea or would that be over formalization? Personally I think that would be great as I could search the PIGs at (hopefully) python.org find out the number and search at koders.com or code.google.com for python code that has "PIG: XXX" in the metadata docstring or wherever - maybe even a __pig__ = XXX variable. any input is welcome (also point me to the place where that can be found if it already exists) martin

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Re: Python molecular viewer
by Scott David Daniels Aug. 30, 2007

Aug. 30, 2007

Andy Cheesman wrote: > Dear People, > > I was wondering if people could recommend a simple molecular viewing > package written in python. I'm working in Theoretical chemistry and I'm > not after an all-singing dancing molecular rendering package(pymol does > that rather well) but a program which reads XYZ files and displays > simple structures which can be rotated in 3D You could use VPython if you know how to convert XYZ files to ball and stick locations to cartesian coordinates.

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Re: Python molecular viewer
by Greg Couch Aug. 30, 2007

Aug. 30, 2007

Andy Cheesman <Andy.cheesman(a)bristol.ac.uk> writes: >Dear People, >I was wondering if people could recommend a simple molecular viewing >package written in python. I'm working in Theoretical chemistry and I'm >not after an all-singing dancing molecular rendering package(pymol does >that rather well) but a program which reads XYZ files and displays >simple structures which can be rotated in 3D >Thanks >Andy Check out http://www.cgl.ucsf.edu/chimera/. Unlike PyMol, all of the molecular data is accesible from Python. It still might be too much of an all-singing dancing molecular rendering package for you though. Greg Couch UCSF Computer Graphics Lab

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