<div dir="ltr"><div class="gmail_extra">On Thu, Apr 4, 2013 at 12:10 PM, Francis E Reyes <span dir="ltr"><<a href="mailto:Francis.Reyes@colorado.edu" target="_blank">Francis.Reyes@colorado.edu</a>></span> wrote:<br><div class="gmail_quote">
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Does phenix.refine substitute the wavelength dependent f'/f'' when computing f for atoms in refinement?</blockquote>
<div><br></div><div style>No - I added a wavelength parameter a couple of months ago, but that is used for ion picking, it doesn't change the input model. �(Although some of us think that might be a good idea.) �phenix.maps and phenix.find_peaks_holes *do* use the wavelength parameter in this way, however.</div>
<div><br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">(maybe it was read from a properly formatted mtz)</blockquote><div><br></div><div style>MTZ files always contain a wavelength - the problem is that we can't be sure whether this was set correctly or not. �I suspect that MTZ files produced by CCP4 processing tools will have the correct wavelength, but the downstream programs may choose to ignore this. �(Most of our tools default to writing a wavelength of 1.0; I've started to fix this but it's going to take a while.)</div>
<div>�</div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Or does it assume CuKa scattering factors?<br></blockquote><div><br></div><div style>No, in phenix.refine atoms never become anomalous unless you specify the anomalous groups.</div>
<div style><br></div><div style>-Nat</div></div></div></div>