Hi Martin,

I have not had time to answer earlier; it was on my list, but since
you seem stuck with it...

On Fri, Sep 2, 2011 at 12:12 PM, Martin Guetlein
<[email protected]> wrote:
> IMHO, the problem is that the smiles writer (is there a smarts writer?)

No. What is the data model you like to save as SMARTS?

> has its own armaticity detection.

Not really.

It might be solved by using SmilesGenerator.setUseAromaticityFlag(true)...

Can you give that a try?

Egon


-- 
Dr E.L. Willighagen
Postdoctoral Researcher
Institutet för miljömedicin
Karolinska Institutet (http://ki.se/imm)
Homepage: http://egonw.github.com/
LinkedIn: http://se.linkedin.com/in/egonw
Blog: http://chem-bla-ics.blogspot.com/
PubList: http://www.citeulike.org/user/egonw/tag/papers

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