The documentation on page
http://openbabel.org/wiki/Tutorial:Fingerprints
says that this is sufficient:
babel mymols.fs results.sdf -sN#Cc1ccccc1C#N -at0.6
and it in fact was sufficient in 2.3.2, but when I`m using the code from SVN it looks that every use of index require -ifs option like this:
babel -ifs mymols.fs results.sdf -sN#Cc1ccccc1C#N -at0.6
then it works. Without it the babel crashes. The documentation needs to be fixed.
I tried to fix it but I had no privilege to do so.
Ticket moved from /p/openbabel/feature-requests/164/