use of abs is dangerous as on some systems this refers to
the C library function abs, which operates on ints and thus
truncates the floating point part of a number.

removed some unnecessary pow()

A minimalistic OST (no info, no gfx, no gui, no img) compiles
and links with a default CentOS installation. Only eigen2 is
required as an additional dependency. But since that's header
only library that's not a problem for bundling a standalone OST.

Tested on CentOS 5.5 with boost 1.33.1 and MacOS X with boost
1.46.

The boost.python library gets implictly include with
gosty when buildinga full bundle, but we were
missing it when building a minimal bundle.

Ansgar Philippsen authored 12 years ago and Bienchen committed 12 years ago

fixed buggy dcd unit cell import
fixed missing dcd unit cell export
added unit cell for dcd io
some code cleanup for dcd export
some code cleanup for CoordFrame and Vec3List

Release 1.2 was never completed so we are going to reuse this one. This means,
in contrast to best practice, we are merging current develop branch into branch
release-1.2.

silencing warnings during testing; swapping std::cout for LOG_WARNING when there is a chain with no MOL_ID assigned

when loading the ost format, value strings were split even if they
were quoted, which made it impossible to load certain files

The order of the positions didn't match the order of atoms in the AtomList.

in the python module structure_analysis.py

the two C++ functions associated when it was called with just one entity
as SuperposeFrames(t,eh).