<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Hi Kenji,<div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>The charge computation that Chimera carries out is actually performed by a separate program (antechamber, from AmberTools). On Windows, as antechamber executes, that black window appears and will disappear when antechamber finishes. The computation takes awhile on a molecule as big as the one you're using. On my 2015 Mac it take 87 seconds to finish. At any rate, the black window is nothing to worry about.</div><div class=""><br class=""></div><div class=""><div class="">--Eric</div><div class=""><br class=""></div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>Eric Pettersen</div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>UCSF Computer Graphics Lab</div></div><div class=""><br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On Jan 9, 2023, at 6:38 PM, Kenji MATSUI via Chimera-users <<a href="mailto:chimera-users@cgl.ucsf.edu" class="">chimera-users@cgl.ucsf.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class=""><div class="">Dear chimera</div><div class=""><br class=""></div><div class=""><div class="">I am sorry to interrupt your busy schedule.<br class=""><br class="">My name is Matsui, and I am a second-year master's student at a Japanese university.<br class="">Thank you for taking time out of your busy schedule to respond to my question the other day.<br class=""><br class="">We are investigating interactions between protein and ligand.</div></div><div class=""><br class=""></div><div class="">I want to optimize the attached file compound. I want to adjust the charge for this purpose.<br class=""></div><div class=""><br class=""></div><div class=""><span id="cid:ii_lcpk9mtg2"><image.png></span><br class=""></div><div class=""><br class=""></div><div class="">Question</div><div class="">However, when I press OK in the first photo section, a black screen appears as in the second photo.In you tube and other videos, I was moved to the save etc. screen. Is the charge optimization done correctly here?</div><div class=""><br class=""></div><div class=""><span id="cid:ii_lcpk2xhe0"><image.png></span><br class=""></div><br clear="all" class=""><div class=""><div dir="ltr" data-smartmail="gmail_signature" class=""><div dir="ltr" class=""><div class=""><span style="color:rgb(34,34,34)" class="">------------------------------</span><span style="color:rgb(34,34,34)" class="">------------------------------</span><span style="color:rgb(34,34,34)" class="">---------------</span><br class=""></div><div class="">Kenji Matsui<br class=""></div><div class=""><span style="color:rgb(34,34,34)" class=""> Graduate School of Tokyo University of Agriculture and Technology　M2</span><br style="color:rgb(34,34,34)" class=""><span style="color:rgb(34,34,34)" class="">2-24-16, Nakamachi, Koganei-shi, Tokyo 184-8588, Japan</span><br style="color:rgb(34,34,34)" class=""><div style="color:rgb(34,34,34)" class=""> Mail: <a href="mailto:s214903z@st.go.tuat.ac.jp" style="color:rgb(17,85,204)" target="_blank" class="">s214903z@st.go.tuat.ac.jp</a></div></div></div></div></div></div>
<span id="cid:f_lcpk8ct51"><OSW-1_inactive_analogue.mol2></span>_______________________________________________<br class="">Chimera-users mailing list: <a href="mailto:Chimera-users@cgl.ucsf.edu" class="">Chimera-users@cgl.ucsf.edu</a><br class="">Manage subscription: <a href="https://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users" class="">https://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users</a><br class=""></div></blockquote></div><br class=""></div></body></html>