pmadhikar

Did anyone have any luck with fixing this bug? I have the same problem. Edit: This seems to be fixed in trailtlets version 5.1.1 `pip install --upgrade traitlets`

> It has been very tempting to start from scratch after 3 weeks of reading the current code base. Not only split the 4k file to smaller manageable pieces, but...

I have some python experience but would like to learn more about Blender and developing BioBlender. Do you have suggestions about where to get started? I am particularly interested in...

You can find GROMACS [here](http://www.gromacs.org/). It is basically one of the most popular Molecular Dynamics packages out there. MD Analysis is a python library that can be used to analyze...

I am very interested in using BioBlender for visualizations. I couldn't find any instructions on getting started though. So a manual or even a simple tutorial would be very helpful....

@zeffii @MonZop This has helped me a lot. Thank you both. I will play around a little and ask more questions later. I think the wiki is a good idea....

I would like to add a few comments here. I run molecular dynamics simulations all the time and visualize them regularly. And I normally use VMD for that. AFAIK VMD...

@zeffii I can certainly give you such a file. Is there an easy way to share it here?

https://gist.github.com/pmadhikar/6204d58e60766771cda2#file-gistfile1-txt There you go, it contains over 32000 atoms. The format is below. The names in the first columns are not necessarily standard, but they are unique for each atom....

Here is what it looks like in VMD. The low density part in the middle is where the protein was.