> I am having trouble getting Confab to generate structures based on the 
> attached structure.  I am using the command:
…
> ..Energy cutoff = 50
> . (snip)
> ..below energy threshold = 0

> Any ideas to why Confab is not producing conformers?


It’s telling you up-front. Nothing is below the energy cutoff of 50 kcal/mol. I 
looked briefly at that file, and MMFF was giving me an energy of 900+ kcal/mol. 
(Hey, it’s a big polymer.)

If you change the ecutoff, you’ll be fine:
http://open-babel.readthedocs.io/en/latest/3DStructureGen/multipleconformers.html

Not sure what the best cutoff will be, but something like this perhaps:
obabel ~/Desktop/polymer.mol2 -O confs.mol2 --confab --conf 10000 --verbose 
--ecutoff 1500

You can also look at other conformer generation options in Open Babel that 
ignore energy cutoffs..

-Geoff

---
Prof. Geoffrey Hutchison
Department of Chemistry
University of Pittsburgh
tel: (412) 648-0492
email: geo...@pitt.edu
web: http://hutchison.chem.pitt.edu/
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