<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">This questions may be best answered by Tom.<div><br></div><div>Does anyone know how to generate a custom NCS definition file that AutoBuild will read from the refinement format? The parameter is input_ncs_file =<div><div><div><br class="webkit-block-placeholder"></div><div>I used phenix.simple_ncs_from_pdb to generate 3 ncs format files. But I could not figure out how to make the program use my definitions. In any case simple_ncs_from_pdb outputs 3 formats in ./phenix/tmp:</div><div><br></div></div></div><blockquote class="webkit-indent-blockquote" style="margin: 0 0 0 40px; border: none; padding: 0px;">simple_ncs_from_pdb.ncs<br>simple_ncs_from_pdb.ncs_spec<br>simple_ncs_from_pdb.resolve</blockquote><div><div><div><br></div><div>I tried the last one, but it has no residue or chain specification. Should I use the .ncs_spec? The first one is for phenix.refine.</div><div><br></div><div>Thanks, Mark</div><div>
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widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="font-size: 12px; "><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Helvetica" size="3" style="font: normal normal normal 12px/normal Helvetica; ">_________________________________</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Helvetica" size="3" style="font: normal normal normal 12px/normal Helvetica; "><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-border-horizontal-spacing: 0px; -webkit-border-vertical-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; "><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font face="Helvetica" size="3" style="font: normal normal normal 12px/normal Helvetica; "><span class="Apple-style-span" style="color: rgb(0, 64, 128); font-weight: bold; "><font class="Apple-style-span" color="#BB623F"><font class="Apple-style-span" size="3"><span class="Apple-style-span" style="font-size: 13px; ">Mark A. Saper, Ph.D.</span></font></font><span class="Apple-tab-span" style="white-space: pre; "> </span></span></font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font class="Apple-style-span" color="#000000">Associate Professor of Biological Chemistry</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font class="Apple-style-span" color="#000000">University of Michigan</font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><br></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font style="font: normal normal normal 12px/normal Helvetica; "><font class="Apple-style-span" color="#000000">Biophysics, 3040 Chemistry Building</font></font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font style="font: normal normal normal 12px/normal Helvetica; "><font class="Apple-style-span" color="#000000">930 N University Ave</font></font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><font style="font: normal normal normal 12px/normal Helvetica; "><font class="Apple-style-span" color="#000000">Ann Arbor MI 48109-1055 U.S.A.</font></font></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><br></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><span class="Apple-style-span" style="font-size: medium; "><div apple-content-edited="true"><a href="mailto:saper@umich.edu">saper@umich.edu</a> phone (734) 764-3353 fax (734) 764-3323</div><div apple-content-edited="true"><span class="Apple-tab-span" style="white-space: pre; "><a href="http://www.biochem.med.umich.edu/?q=saper">http://www.biochem.med.umich.edu/?q=saper</a> </span><a href="http://www.strucbio.umich.edu/">http://www.strucbio.umich.edu/</a></div><div><br></div></span></div></span></font></div></span></div></div></span></span></span></span></span></span></span></span></span></span></div></span></span></span></span></div></span></div></span></div><br class="Apple-interchange-newline"><br></div></div></div></div></body></html>