Re: [MMTK] [PyMOL] improving interoperability between python molecule toolkits (fwd)

2002-12-12 Thread Gustavo Mercier
Hi! I think the comments below are right on the money. I believe that a molecular modeling package powered by Python is a great idea, particularly for those who would like to teach computational chemistry. For example, many popular modeling packages allow the students to perform simulations usin

Re: [MMTK] [PyMOL] improving interoperability between python molecule toolkits (fwd)

2002-12-12 Thread Konrad Hinsen
Eugen Leitl writes: > It seems to be in everyone's interest to allow easy interoperation > between the toolkits. However, in my experience it is a frustrating and > difficult task, even for relatively simple tasks. True. > I believe that a common set of core modules is required. The most Not

Re: [MMTK] [PyMOL] improving interoperability between python molecule toolkits (fwd)

2002-12-13 Thread Konrad Hinsen
Gustavo Mercier writes: > to the chemistry of a problem. In advanced undergraduate course, an > instructor may wish to breakthrough the "black box". The scripting *Should* wish to do so. Understanding what one is doing is the difference between a scientist and a lab technician. > this effort. U

Re: [MMTK] [PyMOL] improving interoperability between python molecule toolkits (fwd)

2002-12-13 Thread Richard Muller
On Thursday, December 12, 2002, at 11:31 PM, Konrad Hinsen wrote: The question is whether the will exists to do this? Many of the toolkits On my side, yes. As well as on mine (PyQuante). Rick Muller r...@wag.caltech.edu http://wag.caltech.edu/home/rpm

Re: CCL:[MMTK] [PyMOL] improving interoperability between python molecule toolkits (fwd)

2002-12-19 Thread Peter Murray-Rust
At 10:41 13/12/2002 +0100, Konrad Hinsen wrote: Gustavo Mercier writes: >As a suggestion, let's consider the chemistry implementation of XML -- CML. Whatever the details of the object "molecule", it >would be beneficial to input and output to/from CML. A specification of "molecule" based on

Re: [Pyquante-users] Re: [MMTK] [PyMOL] improving interoperability between python molecule toolkits (fwd)

2002-12-13 Thread Richard Muller
On Friday, December 13, 2002, at 01:41 AM, Konrad Hinsen wrote: As a suggestion, let's consider the chemistry implementation of XML -- CML. Whatever the details of the object "molecule", it would be beneficial to input and output to/from CML. A specification of I don't agree. I looked at CML

Re: [Pyquante-users] Re: [MMTK] [PyMOL] improving interoperability between python molecule toolkits (fwd)

2002-12-13 Thread Konrad Hinsen
> Thanks for the reminder about FSAtom. Maybe we should start a > discussion somewhere about what needs to be included in either a common > file format or a common interface. That would be a good occasion to start real activity on the FSAtom mailing list. Anyone can subscribe at http://w