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<div style="direction: ltr;font-family: Arial;color: #0000FF;font-size: 10pt;">Hi,<br>
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When I start AutoSharp via ccp4i a message appears in the log file saying: <br>
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<span style=" font-family:'courier'; color:#000000;"># If a browser didn't automatically open the following</span></p>
<pre style=" margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px;"><span style=" font-family:'courier'; color:#000000;"># file, please open</span></pre>
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with the url address. Why doesn't it open automatically? Is there something wrong with some settings on my system (Sharp or ccp4i)?<br>
<div>It's not a serious issues of course but I'm just wondering. <br>
<br>
The interface to ccp4i is nice, by the way.<br>
<br>
Thanks, Boaz<br>
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<div><font size="3" color="#000080" face="Times New Roman"><em>Boaz Shaanan, Ph.D.
<br>
Dept. of Life Sciences <br>
Ben-Gurion University of the Negev <br>
Beer-Sheva 84105 <br>
Israel <br>
<br>
E-mail: bshaanan@bgu.ac.il<br>
Phone: 972-8-647-2220 Skype: boaz.shaanan <br>
Fax: 972-8-647-2992 or 972-8-646-1710 </em></font></div>
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<div style="direction: ltr;" id="divRpF408474"><font size="2" color="#000000" face="Tahoma"><b>From:</b> sharp-discuss [sharp-discuss-bounces@globalphasing.com] on behalf of Gupta, Yogesh [yogesh.gupta@mssm.edu]<br>
<b>Sent:</b> Thursday, April 23, 2015 4:22 AM<br>
<b>To:</b> Kevin; sharp-discuss@globalphasing.com<br>
<b>Subject:</b> Re: [sharp-discuss] Problem trying to use partial model as external phase information<br>
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<div style="direction:ltr; font-family:Arial; color:#000000; font-size:10pt">Qingfeng,<br>
<br>
Just add "model_" to your pdb file name. For example, if your file name is test.pdb, change its name to<br>
model_test.pdb.<br>
<br>
Yogesh<br>
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<div><span style="color:rgb(34,34,34); font-size:small; background-color:rgb(255,255,255)"></span><font size="2" face="Arial"><span style="color:rgb(34,34,34); background-color:rgb(255,255,255)">Yogesh Gupta, PhD</span><br style="color:rgb(34,34,34)">
<span style="color:rgb(34,34,34); background-color:rgb(255,255,255)">Assistant Professor<br>
Dept. of Structural and Chemical Biology</span><br style="color:rgb(34,34,34)">
<span style="background-color:rgb(255,255,255); color:rgb(34,34,34)"></span><span style="background-color:rgb(255,255,255); color:rgb(34,34,34)">Mount Sinai</span><span style="background-color:rgb(255,255,255); color:rgb(34,34,34)"> School of Medicine<br>
</span></font></div>
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<div><font size="2" face="Arial"><span style="background-color:rgb(255,255,255); color:rgb(34,34,34)">1425 Madison Ave, Icahn/East Bldg. Room # 16-23B</span></font></div>
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<div><font size="2" face="Arial"><span style="color:rgb(34,34,34); background-color:rgb(255,255,255)">New York, NY 10029</span></font><font size="2" face="Arial"><span style="color:rgb(34,34,34); background-color:rgb(255,255,255)"><font size="2"><span style="color:rgb(34,34,34); background-color:rgb(255,255,255)"></span></font></span><br style="color:rgb(34,34,34)">
<span style="color:rgb(34,34,34); background-color:rgb(255,255,255)">Tel: +1-212-659-8713<br>
<a href="http://www.mountsinai.org/profiles/yogesh-gupta" target="_blank">http://www.mountsinai.org/profiles/yogesh-gupta</a><br style="color:rgb(34,34,34); font-size:small">
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<div id="divRpF588793" style="direction:ltr"><font size="2" color="#000000" face="Tahoma"><b>From:</b> sharp-discuss [sharp-discuss-bounces@globalphasing.com] on behalf of Kevin [chenqf@gmail.com]<br>
<b>Sent:</b> Wednesday, April 22, 2015 7:47 PM<br>
<b>To:</b> sharp-discuss@globalphasing.com<br>
<b>Subject:</b> [sharp-discuss] Problem trying to use partial model as external phase information<br>
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<div>
<div dir="ltr">Hi all,
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<div>Recently I was able to get the density map of a protein at fairly low resolution (~3.8A) using
<span class="" id=":2th.1" tabindex="-1" style="background:yellow">SIRAS</span> in SHARP. Since it is a membrane protein and the secondary structures are mostly
<span class="" id=":2th.2" tabindex="-1" style="background:yellow">transmembrane</span> helices connected by loops, I was able to build a rough partial poly
<span class="" id=":2th.3" tabindex="-1" style="background:yellow">ala</span> model except some broken loop regions. I wanted to try the external phase information feature in SHARP and followed the manual to generate Hendrickson-Lattman coefficients, however,
I was not able to see my partial model in the drop down list in "Phase Improvement and Interpretation Panel". I can see some other
<span class="" id=":2th.5" tabindex="-1" style="background:yellow">pdb</span> files but not the one I uploaded, which was in the
<span class="" id=":2th.6" tabindex="-1" style="background:yellow">datafiles</span> directory when I manually checked it. Does the pdb file need some special headers in order to be visible in the list? </div>
<div><br>
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<div>Any help will be appreciated. </div>
<div><br>
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<div>Qingfeng</div>
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