<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Ursula,<div><br></div><div>Can you try:</div><div><br></div><div> phenix.pymol</div><div><br></div><div>then as you and Nat mentioned:</div><div><br></div><div> load ncs_average.map, format=ccp4</div><div><br></div><div>I tried this just now and it worked ok.</div><div><br></div><div>If that fails, can you first run:</div><div><br></div><div> phenix_regression.wizards.test_command_line_resolve_memory test_ncs_average</div><div> cd test_ncs_average</div><div> </div><div>and then try the pymol load with that file (that's what I just did).</div><div><br></div><div>All the best,</div><div>Tom T</div><div><br></div><div><div><div>On Dec 9, 2011, at 11:40 AM, Ursula Schulze-Gahmen wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Yes, I used the same command. By the way, I can open the map file in Coot. I am thinking of updating my version of Pymol since I am using a relatively old version.<br>Any other suggestion?<br><br>Ursula<br><br><div class="gmail_quote">
On Fri, Dec 9, 2011 at 10:32 AM, Nathaniel Echols <span dir="ltr"><<a href="mailto:nechols@lbl.gov">nechols@lbl.gov</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
<div class="im">On Fri, Dec 9, 2011 at 10:28 AM, Ursula Schulze-Gahmen<br>
<<a href="mailto:uschulze-gahmen@lbl.gov">uschulze-gahmen@lbl.gov</a>> wrote:<br>
> I used ncs_average to create an averaged fo-fc map. From the manual I<br>
> thought that the output map is a CCP4 map. I have however difficulties to<br>
> read it into Pymol as ccp4 map. It is not recognized. Any suggestions?<br>
<br>
</div>What command did you use to load it in PyMOL? You might need to do<br>
this to get it to recognize the file type:<br>
<br>
load ncs_average.map, format=ccp4<br>
<br>
(PyMOL expects .ccp4 as the extension here - .map is assumed to be an<br>
XPLOR map. Most of the programs in PHENIX will use .ccp4 as the<br>
extension, but there are probably inconsistencies.)<br>
<br>
-Nat<br>
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</blockquote></div><br><br clear="all"><br>-- <br>Ursula Schulze-Gahmen, Ph.D.<br>Assistant Researcher<br>UC Berkeley, QB3<br>356 Stanley Hall #3220<br>Berkeley, CA 94720-3220<br><br>
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<div style="font-size: 12px; "><div><div><div><div><br>Thomas C. Terwilliger<br>Mail Stop M888<br>Los Alamos National Laboratory<br>Los Alamos, NM 87545<br><br>Tel: 505-667-0072 email: <a href="mailto:terwilliger@LANL.gov">terwilliger@LANL.gov</a><br>Fax: 505-665-3024 SOLVE web site: <a href="http://solve.lanl.gov">http://solve.lanl.gov</a><br>PHENIX web site: http:www.phenix-online.org<br>ISFI Integrated Center for Structure and Function Innovation web site: <a href="http://techcenter.mbi.ucla.edu">http://techcenter.mbi.ucla.edu</a><br>TB Structural Genomics Consortium web site: <a href="http://www.doe-mbi.ucla.edu/TB">http://www.doe-mbi.ucla.edu/TB</a></div><div>CBSS Center for Bio-Security Science web site: <a href="http://www.lanl.gov/cbss">http://www.lanl.gov/cbss</a><br><br></div></div></div></div><br></div><br class="Apple-interchange-newline">
</div>
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