Keren Lasker wrote:
> It is just not fully clear to me if em_fit should be part of helper
> or em ?
Well, it was a hypothetical application, but... neither. Calculation of
an EM fit should go in the IMP.em module, of course. But if you wanted
to write a little command line application that took a PDB and a density
map from the user and reported the CCF, for example, that would go in
the 'applications' directory, not in the IMP.em module. (The important
point is that the bulk of the functionality - i.e. reading a PDB file,
reading an EM map, calculating the CCF - should stay in IMP.atom and
IMP.em where it currently is, so that other applications or modules can
use it.) I don't think anything EM-related should go in IMP.helper,
since we don't want to end up with too many interdependencies between
the modules.
Ben
--
http://salilab.org/~ben/
"It is a capital mistake to theorize before one has data."
- Sir Arthur Conan Doyle