<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">To supplement Elaine's answer: you can have model numbers higher than 9. The command line interface only shows buttons for models 0-9, but you can have models 10+, there just aren't buttons for them. They can still be referenced in commands (e.g. #13) and will show up in the Model Panel.<div><br></div><div>--Eric</div><div><br><div apple-content-edited="true"> <span class="Apple-style-span" style="border-collapse: separate; border-spacing: 0px 0px; color: rgb(0, 0, 0); font-family: Helvetica; font-size: 16px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-align: auto; -khtml-text-decorations-in-effect: none; text-indent: 0px; -apple-text-size-adjust: auto; text-transform: none; orphans: 2; white-space: normal; widows: 2; word-spacing: 0px; "><div style="word-wrap: break-word; -khtml-nbsp-mode: space; -khtml-line-break: after-white-space; "><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> <span class="Apple-converted-space"> </span></span>Eric Pettersen</font></p><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> <span class="Apple-converted-space"> </span></span>UCSF Computer Graphics Lab</font></p><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> </span><a href="http://www.cgl.ucsf.edu">http://www.cgl.ucsf.edu</a></font></p></div></span> </div><br><div><div>On Dec 1, 2008, at 10:16 AM, Elaine Meng wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>Hi Yeung,<br>You can save as many models/submodels as you want into one mol2 file. <br>Choose File.... Save Mol2. In that dialog there is an option to "Save <br>multiple models in":<br> a single file [individual @MOLECULE sections]<br> multiple files [appending model number]<br> a single file [combined @MOLECULE section]<br><br>If you choose "individual @MOLECULE sections", that means that when <br>you read the file back into Chimera, all the models/submodels that you <br>have now will be submodels in that newly opened model. If you choose <br>"combined @MOLECULE sections" that means when you read the file back <br>into Chimera, all the models you have now will be one giant model. It <br>sounds like you want "individual".<br><<a href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#mol2">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#mol2</a>><br><br>Best,<br>Elaine<br>-----<br>Elaine C. Meng, Ph.D. <a href="mailto:meng@cgl.ucsf.edu">meng@cgl.ucsf.edu</a><br>UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br>Department of Pharmaceutical Chemistry<br>University of California, San Francisco<br> <a href="http://www.cgl.ucsf.edu/home/meng/index.html">http://www.cgl.ucsf.edu/home/meng/index.html</a><br><br><br><br>On Dec 1, 2008, at 4:34 AM, CHIU,YEUNG wrote:<br><br><blockquote type="cite">Dear friends,<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">Hello! I'm wondering how many models and submodels in all can<br></blockquote><blockquote type="cite">Chimera save into one single mol2 file? Right now I can have<br></blockquote><blockquote type="cite">models only 0-9 into one single mol2 file. I think I'm going to<br></blockquote><blockquote type="cite">use submodels, but how can I generate them? For instance, if I<br></blockquote><blockquote type="cite">have a brunch of pdb files which contain one molecule each, I'd<br></blockquote><blockquote type="cite">like to combine them into one mol2 file, which has a submodel<br></blockquote><blockquote type="cite">corresponding to each molecule. (If this statement of the problem<br></blockquote><blockquote type="cite">is not clear enough, please let me know).<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">Thank you for your help and sorry to bother the others. Best<br></blockquote><blockquote type="cite">wishes.<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">Sincerely yours<br></blockquote><blockquote type="cite">CHIU,YEUNG<br></blockquote><blockquote type="cite"><br></blockquote>_______________________________________________<br>Chimera-users mailing list<br><a href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br>http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users<br></div></blockquote></div><br></div></body></html>