- Clean up various attempts at automatically picking parameters in the
nonbonded lists. For now just have them be user setable.
With this patch, 'scons examples' always fails for me on synth, with
errors like:
scons: Building targets ...
builder_unit_test(["kernel/doc/examples/examples.passed"],
["bin/imppy.sh", "kernel/doc/examples/chain.py"])
cd /synth1/home/ben/imp/kernel/doc/examples &&
/synth1/home/ben/imp/bin/imppy.sh python chain.py > /dev/null
ERROR: Nonbonded list is missing (7) (5.34008, 3.38164, 5.22317) 1 and
(1) (7.81002, 2.4397, 4.51924)1 size is 75
Also, I don't think that functions which are not part of the API should
be given doxygen comments.
Didn't we have this discussion already? I prefer to mark such functions
as \internal. That makes it obvious that it's internal, not that you
just forgot to doxygenize your comments. And some users like the doxygen
indexing and interface to browse their internal functions too - they
have the option this way to just ask doxygen to include \internal
functions. They can't do that if such functions have non-doxygen comments.
Ben
--
http://salilab.org/~ben/
"It is a capital mistake to theorize before one has data."
- Sir Arthur Conan Doyle