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j : jmol-users@lists.sourceforge.net 23 November 2009 • 9:15AM -0500

[Jmol-users] Questions about basic JMol featuers
by Andy Lu

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I just started programming with JMol java files and I got the
Integration.java file to work from JMol website.

I have 5 questions:
1) How can I set the ball and stick model as the default because when I
tried to open a file through my file I/O and sending a pdb file to it, it
shows up as ribbon.
2) Is there a way that I can read another pdb file containing a few number
of residues and highlight only those (halo option) from a bigger protein
file? I tried to put    jmolviewer.setSelectionHalos(true);  in my
integration.java, but it didn't work.
3) Is there a way that I can have the info about a residue show up when I
move my mouse over it?
4) Is there a way that I can write a code to draw a line connecting 2
selected resides?
5) I know that there is a BFactor option, what does it do?

I would greatly appreciated if you can help me with my problems, I really
need some help!

Thank you!

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