> Thank you, Miguel. Right, there are many ways to do this. This note is > intended specifically for those users who already have "hbonds on" > built into their pages that involve links or buttons. The key point is > to make sure you do not use just > > connect hbonds auto; > > in your scripts as a replacement for "hbonds on", as those are not > equivalent,
Correct. In RasMol/Chime/Jmol 10.00 the 'hbonds on' command was not dependent upon the selection set. > and that you check your pages for instances of "hbonds on" > prior to installing Jmol version 10.1. In this context, > > connect hbonds auto (*) (*) > > or > > 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. 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
