<div dir="ltr">Okay, thanks Tom. I'll try the MRage thing. I checked the output from HHpred and there's 100 pdb models with a Prob of 100, E-value between 10^-42 and 10^-34, identity 13-26%. A bit hard to pick the right model from those options. Or easy. So far it's looking hard.<div>
<br></div><div style>Cheers,</div><div style>Morten</div><div style><br></div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On 9 July 2013 17:50, Terwilliger, Thomas C <span dir="ltr"><<a href="mailto:terwilliger@lanl.gov" target="_blank">terwilliger@lanl.gov</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div style="word-wrap:break-word">
Hi Morten,
<div><br>
</div>
<div>Yes, this is a disadvantage of the way mr_rosetta runs for now. �It tries everything, then picks the best. �I can think of two options:</div>
<div><br>
</div>
<div>1. Try out phenix.MRage which is optimized to try many things in parallel in MR. �Then take the best one and run mr_rosetta with it.</div>
<div><br>
</div>
<div>2. Run separate mr_rosetta jobs for each search model, and when you see one that is working, trash the others.</div>
<div><br>
</div>
<div>All the best,</div>
<div>Tom T</div>
<div><br>
</div>
<div>
<div><div><div class="h5">
<div>On Jul 9, 2013, at 10:41 AM, Morten Gr�ftehauge wrote:</div>
<br>
</div></div><blockquote type="cite"><div><div class="h5">
<div dir="ltr">Dear Phenixbb,
<div><br>
</div>
<div>I was wondering if there was any way of getting Rosetta to give up easily and move on to another search model?</div>
<div>Say I have 20 or more equally awful search models. I think there's a possibility that one of them will knock it out of the park (i.e. TFZ > 8). But even if I have Phaser set to fast search I will end up with an exhaustive search because the search models
are so bad.</div>
<div><br>
</div>
<pre style> fast_search_mode= <span style="color:rgb(204,0,0)">True</span> <span style="color:blue">Run phaser with selection_criteria_rot_value and
then if no obvious solution, repeat with cutoff
lowered by search_down_percent</span>
<a name="13fc4579c57c48ca_anch144"></a> search_down_percent= <span style="color:rgb(204,0,0)">25</span> <span style="color:blue">Used if fast_search_mode=True. Run phaser with
selection_criteria_rot_value and then if no obvious
solution, repeat with cutoff lowered by </span><span style="font-family:arial;color:blue">search_down_percent</span><span style="font-family:arial;color:rgb(34,34,34)">�</span></pre>
<div>
<div><br>
</div>
<div>If I set search_down_percent to 75 does this mean that Phaser will give up easily and move on to the next model? Is this a terrible strategy CPU-time-wise?</div>
<div>I am of course aware that search_down_percent is much more likely to give me the right solution for a given model but in this case there are just so many possible search models.</div>
<div><br>
</div>
<div>Cheers,</div>
<div>Morten</div>
<div><br>
</div>
<div><br>
</div>
-- <br>
Morten K Gr�ftehauge, PhD�
<div>Pohl Group</div>
<div>Durham University</div>
</div>
</div></div></div>
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</blockquote>
</div>
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</div>
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<br></blockquote></div><br><br clear="all"><div><br></div>-- <br>Morten K Gr�ftehauge, PhD�<div>Pohl Group</div><div>Durham University</div>
</div>