there are now three startup files; ost_startup.py (former init_cl.py) initializes non-gui ost; dng_startup (former init.py) initializes dng; and gosty_startup initializes gosty (some issues remain what to put into dng_startup as opposed to gosty_startup). also, files are now properly placed into site-packages/ost (on osx and linux)

The Transform class was moved from the mol module to the geom module. A typedef
was put into the mol namespace in C++, and a similar alias was put into the
mol python module, with an added deprecation warning.

move ClashScore to mol.alg, AminoAcid to conop

This finishes changes started in the mem-optimize branch to
remove the AtomProp class from the public interface.

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2666 5a81b35b-ba03-0410-adc8-b2c5c5119f08

added QueryFlags handling to mol::QueryViewWrapper
fixed empty pov output (caused by multiple renderer problem in gfx::Entity impl)
removed GLEW_VERSION_2_0 tokens
various tiny gfx tweaks
added stereo toggling key to gui ('=')
added residue reordering to mol::EntityEditor

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2616 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2614 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2543 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2524 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2514 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2513 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2511 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2508 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2507 5a81b35b-ba03-0410-adc8-b2c5c5119f08

removing examples dir, has been replaced with "demos/" for most attractive demos and "code_fragments" for small/lowlevel scripts

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2498 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2445 5a81b35b-ba03-0410-adc8-b2c5c5119f08

Now they open in the MDI and throw no exceptions

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2429 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2428 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2424 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2397 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2396 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/branches/new_shell@2368 5a81b35b-ba03-0410-adc8-b2c5c5119f08

Disable them. I also added a test example to show the use of the sequence
viewer from Python.

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2331 5a81b35b-ba03-0410-adc8-b2c5c5119f08

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/branches/new_gfx@2207 5a81b35b-ba03-0410-adc8-b2c5c5119f08