Eric, Looks like a great wiki but the green links do not work for me either (Firefox 2.0.0.13, Windows XP 2002 SP2).
FileManager opening http://proteopedia.org/wiki/scripts/Hemoglobin/Oxysubunitsf/4.spt script ERROR: java.security.AccessControlException: access denied (java.net.SocketPermission 132.77.150.58:80 connect,resolve) eval ERROR: ----line 1 command 1 of file null: script >> "/wiki/scripts/Hemoglobin/Oxysubunitsf/4.spt" << Cheers Andy Eric Martz wrote: > http://Proteopedia.Org is a new Jmol-based server developed by Joel > L. Sussman (an eminent crystallographer and former Head of the > Protein Data Bank), Jaime Prilusky (author of The OCA PDB Browser and > Head of the Bioinformatics Unit at the Weizmann Institute), and Eran > Hodis (developer of the eMovie PyMol plugin for macromolecular movie > making) at the Weizmann Institute in Israel. I think it is one of the > most exciting uses of Jmol that I have seen -- perhaps the most exciting. > > Proteopedia is a wiki on macromolecular structure, so anyone can > contribute (as in Wikipedia). Its most exciting innovation is a > "Scene Authoring Tool" that makes it easy for those unfamiliar with > the Jmol scripting language to develop custom molecular views, or > scenes, in Jmol. These scenes are then automatically saved (as state > scripts), and played back in Jmol from "green links" in the text. > There can be as many applets per page as needed. > > You are invited to add text about your favorite molecules, to add > scenes that show key features, and to suggest ideas for technical > improvements to best exploit Jmol. > > It is expected that, as visitors add content, Proteopedia will > develop into one of the most useful on-line reference sites for > structural information about macromolecules. Proteopedia already > contains an automatically-generated page for each of the nearly > 50,000 entries in the Protein Data Bank. This automatic page contains > the molecule in Jmol, with green links to display every site and > ligand in the PDB file (echoing their full names), the abstract of > the paper, and links to a few other particularly useful structure > services and resources. > > Students and Educators can develop macromolecular structure tutorials > in Proteopedia far more easily than in any other system at present. > Proteopedia can also be used for supplementary materials for journal > publications, or laboratory websites. > > For lecture presentations, supplementary materials or lab websites, > those who contribute the content need to be able to guarantee that > their pages will not be edited by others. Unlike Wikipedia, > Proteopedia provides an easy solution. Each user has the option of > creating protected pages that only s/he can edit. Others can copy, > edit, and adapt the content from protected pages, since all content > (including protected content) is bound to the GNU Free Document License. > > I recently taught a course to 40-some researchers in which I > introduced Proteopedia. I had the entire class try out the scene > authoring tools concurrently on their laptops. I assigned each > student a number from one to 40 by counting and pointing. Each > student then used (or created) a page "Sandbox N", where N is that > student's number (for example, "Sandbox 15" for the student assigned > number 15). As in Wikipedia, Sandbox pages are places to practice. > Their content is periodically cleared. > > Proteopedia uses MediaWiki, and was greatly facilitated by Nico > Vervelle's Jmol Extension. > > Have fun! -Eric > > ---- > Eric Martz, Professor Emeritus, Dept Microbiology > University of Massachusetts, Amherst MA US > http://www.umass.edu/molvis/martz > > > ------------------------------------------------------------------------- > This SF.net email is sponsored by the 2008 JavaOne(SM) Conference > Register now and save $200. Hurry, offer ends at 11:59 p.m., > Monday, April 7! Use priority code J8TLD2. > http://ad.doubleclick.net/clk;198757673;13503038;p?http://java.sun.com/javaone > _______________________________________________ > Jmol-users mailing list > [email protected] > https://lists.sourceforge.net/lists/listinfo/jmol-users > -- ================================== Dr Andrew R. Turner Research Computing Officer e: [EMAIL PROTECTED] t: +44 (0)131 650 7748 w: http://www.eastchem.ac.uk/rcf icq: 370-899-715 p: School of Chemistry University of Edinburgh EH9 3JJ ================================== The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. ------------------------------------------------------------------------- This SF.net email is sponsored by the 2008 JavaOne(SM) Conference Register now and save $200. Hurry, offer ends at 11:59 p.m., Monday, April 7! Use priority code J8TLD2. http://ad.doubleclick.net/clk;198757673;13503038;p?http://java.sun.com/javaone _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
