<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div><div>On Jan 9, 2008, at 3:32 PM, Francesco Pietra wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><p style="margin: 0.0px 0.0px 0.0px 0.0px"><span class="Apple-style-span" style="-webkit-text-stroke-width: -1; ">In the "Define script.." I defined "select ligand z<10", then OK and a BUG</span></p> <p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Monaco" size="4" style="font: 14.0px Monaco">window was presented. Attached is the reply log (bug). I tried with z<4 with</font></p> <p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Monaco" size="4" style="font: 14.0px Monaco">the same result (actually, I don't remember if attached bug file refers to z<10</font></p> <p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Monaco" size="4" style="font: 14.0px Monaco">or z<4).</font></p> </blockquote><br></div><div>In the script-definition dialog you need to have "Interpret script as" set to "Chimera commands". You had it set to "Python".</div><br><div><blockquote type="cite"><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Monaco" size="4" style="font: normal normal normal 14px/normal Monaco; ">Still found difficulties in loading more than one mdcrd, though this should be</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Monaco" size="4" style="font: normal normal normal 14px/normal Monaco; ">my fault. I was not sure if the list of mdcrd is to be given at beginning or if</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Monaco" size="4" style="font: normal normal normal 14px/normal Monaco; ">the other mdcrd files after the first one are to be given subsequently from the</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Monaco" size="4" style="font: normal normal normal 14px/normal Monaco; ">menu. I tried with the "list" option but only the first mdcrd was opened.</font></div></blockquote><br></div><div>When you run MD Movie and the dialog comes up where you specify the prmtop/trajectory files, you can use the "Add..." button to add as many trajectory files as needed. I think this means you "give it at the beginning" rather than "subsequently from the menu" in your terminology.</div><div><br class="webkit-block-placeholder"></div><div>You can also just list the files in a "metafile" for the command line. For instance, this file works for me:</div><div><br class="webkit-block-placeholder"></div><div><div>amber</div><div>leap.top</div><div>md01.crd</div><div>md02.crd</div><div>md03.crd</div><div>md04.crd</div><div>md05.crd</div><div>md06.crd</div><div><br class="webkit-block-placeholder"></div><div>Note that there _still_ seems to be something funky with Amber compressed trajectories, so don't use them for now but I should have things fixed in a day or so with that.</div><div><br class="webkit-block-placeholder"></div><div>--Eric</div><div><br class="webkit-block-placeholder"></div></div></body></html>