<html xmlns:v="urn:schemas-microsoft-com:vml" xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:w="urn:schemas-microsoft-com:office:word" xmlns:m="http://schemas.microsoft.com/office/2004/12/omml" xmlns="http://www.w3.org/TR/REC-html40">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
<meta name="Generator" content="Microsoft Word 15 (filtered medium)">
<style><!--
/* Font Definitions */
@font-face
{font-family:Helvetica;
panose-1:2 11 6 4 2 2 2 2 2 4;}
@font-face
{font-family:"Cambria Math";
panose-1:2 4 5 3 5 4 6 3 2 4;}
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
/* Style Definitions */
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0cm;
margin-bottom:.0001pt;
font-size:11.0pt;
font-family:"Calibri",sans-serif;}
a:link, span.MsoHyperlink
{mso-style-priority:99;
color:blue;
text-decoration:underline;}
a:visited, span.MsoHyperlinkFollowed
{mso-style-priority:99;
color:purple;
text-decoration:underline;}
p.msonormal0, li.msonormal0, div.msonormal0
{mso-style-name:msonormal;
mso-margin-top-alt:auto;
margin-right:0cm;
mso-margin-bottom-alt:auto;
margin-left:0cm;
font-size:11.0pt;
font-family:"Calibri",sans-serif;}
span.apple-tab-span
{mso-style-name:apple-tab-span;}
span.apple-converted-space
{mso-style-name:apple-converted-space;}
span.EmailStyle20
{mso-style-type:personal-reply;
font-family:"Calibri",sans-serif;
color:windowtext;}
.MsoChpDefault
{mso-style-type:export-only;
font-size:10.0pt;}
@page WordSection1
{size:612.0pt 792.0pt;
margin:72.0pt 72.0pt 72.0pt 72.0pt;}
div.WordSection1
{page:WordSection1;}
--></style><!--[if gte mso 9]><xml>
<o:shapedefaults v:ext="edit" spidmax="1026" />
</xml><![endif]--><!--[if gte mso 9]><xml>
<o:shapelayout v:ext="edit">
<o:idmap v:ext="edit" data="1" />
</o:shapelayout></xml><![endif]-->
</head>
<body lang="EN-GB" link="blue" vlink="purple">
<div class="WordSection1">
<p class="MsoNormal"><span style="mso-fareast-language:EN-US">Hi,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US">I tried that, generated a new preferences file, and no change I’m afraid.<o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US">The only thing that might be a factor I can think of is I changed the python install from std python(3.6) to anaconda (python 3.6). All other python apps work fine. Is this likely to be a cause,
is there something I can check, a path, env variable setting, something like that?<o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US">Thanks for your help<o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<div>
<div style="border:none;border-top:solid #E1E1E1 1.0pt;padding:3.0pt 0cm 0cm 0cm">
<p class="MsoNormal"><b><span lang="EN-US">From:</span></b><span lang="EN-US"> Eric Pettersen [mailto:pett@cgl.ucsf.edu]
<br>
<b>Sent:</b> 12 February 2018 23:40<br>
<b>To:</b> Mark Warren <mark.warren@md.catapult.org.uk><br>
<b>Cc:</b> chimera-users@cgl.ucsf.edu<br>
<b>Subject:</b> Re: [Chimera-users] Video issues<o:p></o:p></span></p>
</div>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Hi Mark,<o:p></o:p></p>
<div>
<p class="MsoNormal"><span class="apple-tab-span"> </span>I have a vague recollection that this problem is caused by a problematic preferences file — particularly a bad entry in the recently opened files list. You can test this by renaming your
“preferences” file to something else and then starting Chimera. You can tell which folder that file is in by starting Chimera, opening Preferences (Favorites->Preferences) and changing the Category in the resulting dialog to “Preferences”. The location of
the preferences file will then be displayed. On Windows the folder typically is C:\Documents and Settings\<i>your_user_name</i>\Application Data.<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><span class="apple-tab-span"> </span>I’m keeping my fingers crossed that this works…<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
<div>
<p class="MsoNormal">—Eric<o:p></o:p></p>
</div>
<div>
<div>
<p class="MsoNormal"><br>
<br>
<o:p></o:p></p>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt">
<div>
<p class="MsoNormal">On Feb 9, 2018, at 1:20 AM, Mark Warren <<a href="mailto:mark.warren@md.catapult.org.uk">mark.warren@md.catapult.org.uk</a>> wrote:<o:p></o:p></p>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<div>
<p class="MsoNormal">Hi,<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<p class="MsoNormal">Thanks for that. I have updated to the latest graphics version and no change. I then executed the commands and no change. I load up the 1yti example, the IDLE window shows #0, chain A: SIV proteinase and #0, chain I: peptide product
so I know it loaded<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<p class="MsoNormal">I have installed Anaconda python, are there any known issues/gotchas with python installations?<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<p class="MsoNormal">Thanks for the help<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<p class="MsoNormal">Mark<o:p></o:p></p>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<div style="border:none;border-top:solid #E1E1E1 1.0pt;padding:3.0pt 0cm 0cm 0cm">
<div>
<p class="MsoNormal"><b><span lang="EN-US">From:</span></b><span class="apple-converted-space"><span lang="EN-US"> </span></span><span lang="EN-US">Eric Pettersen [<a href="mailto:pett@cgl.ucsf.edu"><span style="color:purple">mailto:pett@cgl.ucsf.edu</span></a>]<span class="apple-converted-space"> </span><br>
<b>Sent:</b><span class="apple-converted-space"> </span>08 February 2018 21:37<br>
<b>To:</b><span class="apple-converted-space"> </span>Mark Warren <<a href="mailto:mark.warren@md.catapult.org.uk"><span style="color:purple">mark.warren@md.catapult.org.uk</span></a>><br>
<b>Cc:</b><span class="apple-converted-space"> </span><a href="mailto:chimera-users@cgl.ucsf.edu"><span style="color:purple">chimera-users@cgl.ucsf.edu</span></a><br>
<b>Subject:</b><span class="apple-converted-space"> </span>Re: [Chimera-users] Video issues</span><o:p></o:p></p>
</div>
</div>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<p class="MsoNormal">Hi Mark,<o:p></o:p></p>
</div>
<div>
<div>
<p class="MsoNormal"><span class="apple-tab-span"> </span><span class="apple-converted-space"> </span>Probably the first thing to check is that the driver for your graphics card is up to date. If the problem persists after installing the most recent
driver for your card, then try this experiment: Open the IDLE Python shell (Tools->General Controls->IDLE) and type:<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">from chimera.tkgui import app<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">app.rapidAccess.shown = False<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">Doe the rapid access interface go away when you do that?<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">—Eric<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<div>
<div>
<div>
<p class="MsoNormal"><span class="apple-tab-span"> </span><span class="apple-converted-space"> </span>Eric Pettersen<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><span class="apple-tab-span"> </span><span class="apple-converted-space"> </span>UCSF Computer Graphics Lab<o:p></o:p></p>
</div>
</div>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"><br>
<br>
<br>
<o:p></o:p></p>
</div>
<blockquote style="margin-top:5.0pt;margin-bottom:5.0pt">
<div>
<div>
<p class="MsoNormal">On Feb 8, 2018, at 8:15 AM, Mark Warren <<a href="mailto:mark.warren@md.catapult.org.uk"><span style="color:purple">mark.warren@md.catapult.org.uk</span></a>> wrote:<o:p></o:p></p>
</div>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
<div>
<div>
<div>
<p class="MsoNormal">Hi,<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">Running win10 and using Chimera 1.12. Upon startup I’m getting the splash logo, then the rapid access screen. All OK so far. However I load any protein and the dialog along the bottom status bar confirms its loaded but the screen still
shows the rapid access screen. I can toggle the lightning button in the bottom right as much as I like but it remains on the rapid access screen. Any ideas what to check?<o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<div>
<div>
<p class="MsoNormal">Thanks<o:p></o:p></p>
</div>
</div>
<div>
<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif">The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability.
Applying business-led research, Catapults help businesses transform great ideas into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales
with company number 09928547. Our registered office is at Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee.
If you have received it in error, please send it back to us and immediately and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment. _______________________________________________<br>
Chimera-users mailing list:<span class="apple-converted-space"> </span></span><a href="mailto:Chimera-users@cgl.ucsf.edu"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif;color:#954F72">Chimera-users@cgl.ucsf.edu</span></a><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif"><br>
Manage subscription:<span class="apple-converted-space"> </span></span><a href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif;color:#954F72">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</span></a><o:p></o:p></p>
</div>
</div>
</blockquote>
</div>
<div>
<p class="MsoNormal"> <o:p></o:p></p>
</div>
</div>
<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif">The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability.
Applying business-led research, Catapults help businesses transform great ideas into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales
with company number 09928547. Our registered office is at Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee.
If you have received it in error, please send it back to us and immediately and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment.</span><o:p></o:p></p>
</div>
</blockquote>
</div>
<p class="MsoNormal"><o:p> </o:p></p>
</div>
</div>
The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability. Applying business-led research, Catapults help businesses transform great ideas
into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales with company number 09928547. Our registered office is at Medicines Discovery
Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee. If you have received it in error, please send it back to us and immediately
and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment.
</body>
</html>