<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 Yuhong,<div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>That’s great that you’re developing an extension for your MAINMAST program. Should be very useful!</div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>To get your extension to show up in the menus you need to do a couple of things. First, your extension needs a ‘ChimeraExtension.py’ file to tell Chimera the extension name, what menu category to put it in, exactly how to start it, <i class="">etc</i>. The file is described in the “Working with the Chimera Extension Manager” link found on this page: <a href="https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/Examples/index.html" class="">https://www.cgl.ucsf.edu/chimera/docs/ProgrammersGuide/Examples/index.html</a> (also reachable in the Chimera menus as Tools→Additional Tools→Create your own plugin/extension…).</div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>The other thing to do is to tell Chimera where your extension is located. You do that by going to Favorites→Add to Favorites/Toolbar… and in the “Third-party plugin locations” area click “Add…” to specify the directory <i class="">above</i> your plugin directory (<i class="">i.e.</i> if you had multiple plugins, the directory containing them, not the plugin folder itself). Then click Save at the bottom of the dialog. All users of your plugin would need to do this part.</div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>When you feel your plugin is “ready for primetime”, let us know and we’ll list it on our "Chimera Plug-ins on the Web” page (which is viewable from Tools→Additional Tools→More Chimera plugins…).</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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<div><br class=""><blockquote type="cite" class=""><div class="">On Jan 11, 2019, at 12:47 AM, Yuhong Zha <<a href="mailto:zha0@purdue.edu" class="">zha0@purdue.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div id="divtagdefaultwrapper" dir="ltr" style="caret-color: rgb(0, 0, 0); font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; font-size: 12pt; font-family: Calibri, Helvetica, sans-serif, Helvetica, EmojiFont, "Apple Color Emoji", "Segoe UI Emoji", NotoColorEmoji, "Segoe UI Symbol", "Android Emoji", EmojiSymbols;" class=""><div style="margin-top: 0px; margin-bottom: 0px;" class="">Dear Sir or Madam,</div><div style="margin-top: 0px; margin-bottom: 0px;" class=""><br class=""></div><div style="margin-top: 0px; margin-bottom: 0px;" class="">This is Yuhong Zha from the Kihara Bioinformatics Laboratory. We are currently developing a Chimera extension to implement our MAINMAST algorithm. However, we encountered a problem of how to automatically start our extension when opening the Chimera. Now we have to go to IDLE and manually type "import our_extension.gui" to import our extension. Is there a way in the Chimera that could allow us to automatically open the extension every time we start the Chimera? Our current Chimera version is UCSF Chimera, production version 1.12 .</div><div style="margin-top: 0px; margin-bottom: 0px;" class=""><br class=""></div><div style="margin-top: 0px; margin-bottom: 0px;" class="">If there is any question regarding our extension, please let me know! For more information about our lab, here is the link to our website: <a href="http://www.kiharalab.org/index.php" class="OWAAutoLink" id="LPlnk255147" previewremoved="true">http://www.kiharalab.org/index.php</a>.</div><div id="LPBorder_GT_15471961792310.08355218569414757" style="margin-bottom: 20px; overflow: auto; width: 549px; text-indent: 0px;" class=""><table id="LPContainer_15471961792270.8915435702621372" role="presentation" cellspacing="0" style="width: 494.09375px; background-color: rgb(255, 255, 255); position: relative; overflow: auto; padding-top: 20px; padding-bottom: 20px; margin-top: 20px; border-top-width: 1px; border-top-style: dotted; border-top-color: rgb(200, 200, 200); border-bottom-width: 1px; border-bottom-style: dotted; border-bottom-color: rgb(200, 200, 200);" class=""><tbody class=""><tr valign="top" style="border-spacing: 0px;" class=""><td id="TextCell_15471961792290.6617663696550342" colspan="2" style="vertical-align: top; position: relative; padding: 0px; display: table-cell;" class=""><div id="LPRemovePreviewContainer_15471961792300.37733865135700806" class=""></div><div id="LPTitle_15471961792300.14533985036648667" style="top: 0px; color: rgb(0, 120, 215); font-weight: normal; font-size: 21px; font-family: "Microsoft YaHei UI", "Microsoft YaHei", 微软雅黑, SimSun, 宋体, sans-serif; line-height: 21px;" class=""><a id="LPUrlAnchor_15471961792300.7344476510514658" href="http://www.kiharalab.org/index.php" target="_blank" style="text-decoration: none;" class="">Kihara Bioinformatics Laboratory, Purdue University</a></div><div id="LPMetadata_15471961792310.617255068752969" style="margin: 10px 0px 16px; color: rgb(102, 102, 102); font-weight: normal; font-family: "Microsoft YaHei UI", "Microsoft YaHei", 微软雅黑, SimSun, 宋体, sans-serif; font-size: 14px; line-height: 14px;" class=""><a href="http://www.kiharalab.org/" class="">www.kiharalab.org</a></div><div id="LPDescription_15471961792310.06775039122415083" style="display: block; color: rgb(102, 102, 102); font-weight: normal; font-family: "Microsoft YaHei UI", "Microsoft YaHei", 微软雅黑, SimSun, 宋体, sans-serif; font-size: 14px; line-height: 20px; max-height: 100px; overflow: hidden;" class="">Area of Research Dr. Daisuke Kihara Principal Investigator. Our research interests lie in the area of bioinformatics. We employ computational methods to elucidate intertwined relationships between protein/gene sequences, structure, function, interactions, genome, and pathways.</div></td></tr></tbody></table></div><br class=""><div style="margin-top: 0px; margin-bottom: 0px;" class=""><br class=""></div><div style="margin-top: 0px; margin-bottom: 0px;" class="">Thank you in advance for your help and looking forward to your reply!</div><div style="margin-top: 0px; margin-bottom: 0px;" class=""><br class=""></div><div style="margin-top: 0px; margin-bottom: 0px;" class="">Best,</div><div style="margin-top: 0px; margin-bottom: 0px;" class="">Yuhong Zha,</div><div style="margin-top: 0px; margin-bottom: 0px;" class="">Kihara Bioinformatics Laboratory,<br class=""></div><div style="margin-top: 0px; margin-bottom: 0px;" class="">Department of Biological & Computer Science at Purdue University</div></div><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">_______________________________________________</span><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class=""><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;" class="">Chimera-dev mailing list</span><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class=""><a href="mailto:Chimera-dev@cgl.ucsf.edu" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">Chimera-dev@cgl.ucsf.edu</a><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;" class=""><a href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-dev" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-dev</a></div></blockquote></div><br class=""></div></body></html>