Dealga McArdle

@nantille are you using Master or a branch?

`05_glycoprotein_4AY9_FSH` works for me in the Alternative_MLP_with_EmptyTest branch. it's worth a try.  no errors.. **edit** but it also works in master, for me..

@MonZop that won't show up on a Mac, @nantille will have start blender from a console to get the debug output :(

the outliner suggests that the import doesn't go according to plan.. hoping for an error to clarify that..  A successful import would lead to the molecule getting one parent,...

cool. we'll start from the first errors. give me some time to digest, it seems very workable.

yep, until the addon version of BioBlender is stable it's not a bad idea to start it from console. Consider all these builds development builds for the time being please...

it's really this section: ``` Traceback (most recent call last): File "/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/parser.py", line 382, in parse layer.script = open(path,'r') IOError: [Errno 2] No such file or directory: 'Support/Blender/2.73/scripts/addons/BioBlender/tmp/surface.pml' PyMOL: normal...

it isn't finding: `Support/Blender/2.73/scripts/addons/BioBlender/tmp/surface.pml'` for each operating system there's a separate execution route, it seems the MAC route is not fully tested. The separate code execution paths is another thing...

@nantille your screen-01.png shows that something did fail during the _pdb_ to _molecule_ rig for `05_glycoprotein_4AY9_FSH`, in the end all atoms should be parented. i'd be interested in just the...

just a bit if side-info: BioBlender addon has a lot of try / except for testing locations of the external binaries it uses, this means there's probably a bit more...