Miguel wrote: >> connect hbonds auto (nitrogen) (all) >> >> are precise replacements for "hbonds on" in this context. > > Be advised that there *is* another twist to this to this story. I tried to > point it out in my email notification, but it may not be clear to all. > > In RasMol/Chime/Jmol 10.0, the behavior of 'hbonds on' depends upon > whether or not there are author-defined hbonds in the underlying file. > > Therefore, it is not the case that 'connect auto hbonds (*) (*)' is a > direct replacement for 'hbonds on' > > IF you have files which contain hbonds within the files AND you blindly > replace your 'hbonds on' -> 'connect auto hbonds (*) (*)' THEN you will > change the behavior because you previously did not have calculated-hbonds > but now you do.
I was mistaken. I think that is the way that Jmol 10.0 should have behaved, but upon review I see that is not what it did. Bob's description of the pending changes that will affect the behavior of 'hbond on' is correct. He is going to send out another message regarding the behavior and changes regarding hbond ... and I will stay out of it ;-) Miguel ------------------------------------------------------- This SF.Net email is sponsored by xPML, a groundbreaking scripting language that extends applications into web and mobile media. Attend the live webcast and join the prime developer group breaking into this new coding territory! http://sel.as-us.falkag.net/sel?cmd=lnk&kid0944&bid$1720&dat1642 _______________________________________________ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
