Chris Moth, Ph.D.

Here is a working example page using 4cox.cif as deposited at PDBe https://structbio.vanderbilt.edu/~mothcw/NGL_4COX_WorksGreat/ Here is a failing example using 4cox_chimeraX.cif (file I created by opening 4cox.cif in chimeraX, and saving...

[4cox_chimeraX.zip](https://github.com/nglviewer/ngl/files/5541123/4cox_chimeraX.zip) I dragged a containing zip file from my Windows (sorry) desktop.

I'd hate to encumber nglviewer for a small set of structures. Can you tell me more about simple hex encoding you already support? If I could write my structures as...

In looking at some of the code, I sense it is Python2 still: File "/home/mothcw/Downloads/PyVCF-master/vcf/parser.py", line 644, in Writer counts = dict((v,k) for k,v in field_counts.iteritems()) AttributeError: 'dict' object has...

I hit this as well. I just installed the (new) November 2021 Anaconda release on linux-64bit (CentOS 7) and hit this issue as well when I attempted $ pip install...

It seems fairly trivial to manually run 2to3 inside the new Anaconda environment and update the PyCVF *.py files... in a hard-coded directory. But yes, it would be preferable to...

Many have tried to contact the author, apparently. I had no problems just adding the few source files to my own development work, after running 2to3 and adjusting a few...

It is a command line tool that takes python2 source files as input, and returns python3 files.... that are _mostly_ ready for python3. https://stackoverflow.com/questions/20458011/how-to-use-2to3-properly-for-python At this moment, my web server...

For me, I only needed this much of the library - here is what I am using now under Python 3.9 - latest Anaconda release https://github.com/CapraLab/pdbmap/tree/master/vcf [https://opengraph.githubassets.com/c8bd1dfe09781d6b672067c7175c2ccab4fe27d95330a8f466b5e70f906214f3/CapraLab/pdbmap] pdbmap/vcf at master...