Sorry, but your pseudo code is just a little to pseudo. Without a clear understanding of the internals of the PDB::Atom objects and it's methods, I find it impossible to understand what is going on.

One casual comment though. In general, perl's objects carry a considerable performance penalty relative to it's standard hashes and array's. Iterating large volumes of data represented as objects will be much slower than processing that same data stored in a hash or an array.

This is no surprise, nor a critisism of Perl. Just s statement of fact. The extra levels of indirection and lookup are bound to carry a penalty, but when dealing with large volumes where speed is a criteria, it is best avoided.

Examine what is said, not who speaks.
"Efficiency is intelligent laziness." -David Dunham
"Think for yourself!" - Abigail
"Memory, processor, disk in that order on the hardware side. Algorithm, algoritm, algorithm on the code side." - tachyon

In reply to Re^2: Iteration speed by BrowserUk
in thread Iteration speed by seaver

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