solves a variety of problems that gcc (mainly the c++11 as default)
throws at us.

changes:

-GetPrincipalAxes in Vec3List
 Results with Eigen3 have been verified with 10 randomly picked pdb structures.
 Differences only occur with changing signs of the vectors.

-CalcPrincipalAxis in BoundingBox
 No difference in algorithm, the SelfAdjointEigenSolver no lives in
 Eigenvalues. Does in principal the same thing as the function above,
 just using different functionality.

-SVD superposer
 Unit tests still run through with the changes introduced for Eigen3
 and also manual testing seems to work well.

-CartoonRenderer
 Principal axes calculation for rendering helices as cylinders had to be
 adapted. Rendering looks exactly the same...

-SuperposeFrames
 Not yet tested...

ToDo:
numeric.h and levenberg_marquardt.h in the img/alg module have to be
ported. This will be done in the next few days.

Tjaart de Beer authored 10 years ago and Bienchen committed 10 years ago

Signed-off-by: Stefan Bienert <stefan.bienert@unibas.ch>

Andreas Schenk authored 10 years ago and BIOPZ-Johner Niklaus committed 10 years ago

patch by Mark Livingstone

wrong branch, big sorry

This reverts commit e77d08a6.

Andreas Schenk authored 10 years ago and BIOPZ-Johner Niklaus committed 10 years ago

patch by Mark Livingstone

patch by Mark Livingstone

A circular dependency caused the gfx.Objects to be retained
forever. Breaking the circular dependency solves the problem.
As part of the bug-finding process, rewrite large parts of
the Scene Window to make it both simpler and saner

thanks to Ansgar

fixed some ambiguous fmods and fabs
changed class Bitmap to struct Bitmap in fw decl to be consistent

fixed return type for GetSolidColor in vertex_arrray.hh
re-added accidentally deleted function declaration in chain_type.hh

in vsc++ 2010

and rad2 are already defined as constants in vc++

Profiling has shown that setting the opacity after the VA has been
created is really slow as we have to loop over all vertices in the
VA. Instead, overwrite opacity color when adding the vertex to the
array.