<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hi Marek,<div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>Thanks for the suggestion — I guess I don’t see many metal complexes in Mol2 files so this got overlooked. I’ve implemented it now and it will be available in the next daily build.</div><div class=""><br class=""></div><div class="">—Eric</div><div class=""><br class=""><div class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><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><br class="Apple-interchange-newline">
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<br class=""><div><blockquote type="cite" class=""><div class="">On Mar 13, 2017, at 8:59 AM, Marek Maly <<a href="mailto:marek.maly@ujep.cz" class="">marek.maly@ujep.cz</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div class="">Hello,<br class=""><br class="">it seems that Chimera (1.11.2) has problem to save some bonds in MOL2 format.<br class=""><br class="">If you open attached file "source.mol2" , Chimera reads/show perfectly all<br class="">the bonds including those where is "Ru" atom present, but when you save it in MOL2<br class="">format in Chimera (see attached file "Chimera_MOL2.mol2"), then all the "Ru-x" bonds are omitted<br class="">and naturally if you open this "Chimera MOL2" file in Chimera no "Ru-x" bonds are shown.<br class=""><br class="">Interestingly, if the original MOL2 file "source.mol2" is opened in Chimera and then saved<br class="">in PDB format ("Chimera_PDB.pdb"), all bonds are written and so if this PDB file is opened<br class="">in Chimera all bonds are visualized.<br class=""><br class="">Would be nice if the perfect bond preservation which works in MOL2->PDB case worked also<br class="">in MOL2->MOL2 case.<br class=""><br class=""> Best wishes,<br class=""><br class=""> Marek<br class=""><br class=""><br class=""><br class=""><br class=""><br class=""><br class=""><br class="">-- <br class="">Tato zpráva byla vytvořena převratným poštovním klientem Opery: <a href="http://www.opera.com/mail/" class="">http://www.opera.com/mail/</a><span id="cid:1364FAD3-11BD-4957-A16D-EAA7F58DA231@cgl.ucsf.edu"><source.mol2></span><span id="cid:03FEC23B-1401-4CDA-B525-6D6DF979363B@cgl.ucsf.edu"><Chimera_MOL2.mol2></span><span id="cid:4B903C8A-9A08-456C-BA27-092E1CA78699@cgl.ucsf.edu"><Chimera_PDB.pdb></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="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users" class="">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><br class=""></div></div></blockquote></div><br class=""></div></body></html>