Xiang-Jun Lu wrote: > Hi, > > Over the years, I have been using RasMol 2.6.4 (from Roger Sayle) for > interactive rendering of a 3DNA-specific rectangular schematic > representation of base and base-pair geometry. As an example image, please > see: > http://rutchem.rutgers.edu/~xiangjun/3DNA/jmol/3dna_bp-rasmol2-6-4.png > > Recently, I am considering to use Jmol as well, given the great support of > the Jmol community (as is evident from this list). While Jmol recognizes a > regular alchemy format file without a problem, it does not render my > schematic alchemy file as expected (e.g., > http://rutchem.rutgers.edu/~xiangjun/3DNA/jmol/3dna_bp.alc): a sample image > is shown at: http://rutchem.rutgers.edu/~xiangjun/3DNA/jmol/3dna_bp-jmol.png > > Essentially, I am playing tricks with the alchemy format purely as a > rendering tool by specifying explicitly each node and linkage, no chemistry > at all. Hopefully, Jmol would be able to render it as well, just as RasMol > does. > I don't know anything about the alchemy format. But I did a similar thing in PDB format to design the Logo of our Jena3D viewer:
http://jena3d.fli-leibniz.de/doc/examples/Jena3D_Logo.pdb And this works perfectly with Jmol: http://www.imb-jena.de/cgi-bin/3d_mapping.pl?UPLOAD_DATA=&MODE=upload&SCRIPT=/Jena3D/examples/Jena3D_Logo-animated.jmz So maybe you could switch to PDB format if alchemy format doesn't work for you. Regards, Rolf ------------------------------------------------------------------------------ SF.Net email is Sponsored by MIX09, March 18-20, 2009 in Las Vegas, Nevada. The future of the web can't happen without you. Join us at MIX09 to help pave the way to the Next Web now. Learn more and register at http://ad.doubleclick.net/clk;208669438;13503038;i?http://2009.visitmix.com/ _______________________________________________ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
