I see a dir called jar with lots of jar files.
but neither the app nor the applet jars are there.
Tim,
Oops ... my mistake ... I forgot to do something.
I have updated cvs, but we may have to wait a while for it to get
replicated to the backup/anonymous cvs server at sourceforge. (They do
at 2:32 pm EDT on (Saturday) 15 November 2003 Miguel said:
so if I select Glu134:B,
for example, I would get an array with:
number of atoms selected
id of group selected
number of selected group
chain of selected group
what other info is accessible?
Lots of things :-)
as a
Uhh ... in 25 words or less ... what is a ligand?
a small molecule that binds specifically to a larger one. many pdb
files define the ligand in the pdb header;
How does a ´ligand´ relate to a ´HETATM´?
I thought JMol might be able
to read that info if it exists.
Certainly if the info is
at 1:38 pm EDT on (Tuesday) 18 November 2003 Miguel said:
Uhh ... in 25 words or less ... what is a ligand?
a small molecule that binds specifically to a larger one. many pdb
files define the ligand in the pdb header;
How does a =B4ligand=B4 relate to a =B4HETATM=B4?
ligands are
at 1:55 pm EDT on (Tuesday) 18 November 2003 Miguel said:
one can write a javascript method for finding most of this, using
'show pdbheader' in Chime, but what a pain. maybe JMol can have a
suite of 'show info' commands to access structure data like this?
Writing code to parse the text
Tim,
Jmol supports buttons just like Chime does. In addition, there are a few
extensions.
Go to
http://jmol.sf.net/preview
Do 'view source' to take a look at the soruce code.
You will see that all these are using something called JmolAppletControl
Since the JmolAppletControl is an applet,
I'd like to convert some of my CHIME scripts (like those at
http://exlnt.com/search_pdb) using the chime2jmol.pl script in Jmol v10.
I can't seem to find any documentation on usage and required parameters.
What are command line arguments v, a, s, c and b?
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