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<div class="moz-cite-prefix">Yes, this is true... I deleted
mmtbx.refinement.real_space.driver a while ago. Interesting, it
still works for me because I still have
../sources/cctbx_project/mmtbx/refinement/real_space/driver.pyc<br>
<br>
Once I deleted .pyc file it stopped working:<br>
<br>
marbles:/net/marbles/raid1/afonine/build %
phenix.real_space_refine <br>
-------------------------------------------------------------------------------<br>
Initialization, inputs<br>
**********************<br>
-------------------------------------------------------------------------------<br>
phenix.real_space_refine: tool for extensive real-space refinement
of atomic<br>
coordinates against provided map<br>
<br>
Usage:<br>
phenix.real_space_refine model.pdb ccp4_formatted_map.map<br>
or<br>
phenix.real_space_refine model.pdb map.mtz<br>
or<br>
phenix.real_space_refine model.pdb map.mtz
label='2FOFCWT,PH2FOFCWT'<br>
<br>
Feedback:<br>
<a class="moz-txt-link-abbreviated" href="mailto:PAfonine@lbl.gov">PAfonine@lbl.gov</a> or <a class="moz-txt-link-abbreviated" href="mailto:phenixbb@phenix-online.org">phenixbb@phenix-online.org</a><br>
-------------------------------------------------------------------------------<br>
marbles:/net/marbles/raid1/afonine/build % rm -rf
../sources/cctbx_project/mmtbx/refinement/real_space/driver.pyc <br>
marbles:/net/marbles/raid1/afonine/build %
phenix.real_space_refine<br>
Traceback (most recent call last):<br>
File
"/net/marbles/raid1/afonine/build/../sources/phenix/phenix/command_line/real_space_refine.py",
line 20, in <module><br>
import mmtbx.refinement.real_space.driver<br>
ImportError: No module named driver<br>
marbles:/net/marbles/raid1/afonine/build % <br>
<br>
Quite a trap! Will be fixed in a next build. Thanks for catching
this.<br>
<br>
Pavel<br>
<br>
<br>
On 8/23/13 7:44 AM, Nathaniel Echols wrote:<br>
</div>
<blockquote
cite="mid:CALeAa1P1u1dkGBsEkcomw_Tca2-s0WZYSwfD1vPNdnCgN=R8FA@mail.gmail.com"
type="cite">
<div dir="ltr">
<div class="gmail_extra">On Fri, Aug 23, 2013 at 12:14 AM, Pavel
Afonine <span dir="ltr"><<a moz-do-not-send="true"
href="mailto:pafonine@lbl.gov" target="_blank">pafonine@lbl.gov</a>></span>
wrote:<br>
<div class="gmail_quote">
<blockquote class="gmail_quote" style="margin:0px 0px 0px
0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex">are
you sure you are using the latest (dev-1463) nightly
build? I just tried phenix.real_space_refine using
dev-1463 and it worked fine. Could it be you have multiple
versions installed and by accident you used a wrong one?
What was the exact command that crashed with the above
error message? Just throwing random guesses/questions to
see what's gone wrong..</blockquote>
<div><br>
</div>
<div style="">It's not working for me either; the module
being referenced has been deleted:</div>
<div style=""><br>
</div>
<div>chevy:~ % source
/net/chevy/raid1/phenix/phenix-dev-1463/phenix_env</div>
<div>chevy:~ % phenix.real_space_refine</div>
<div>Traceback (most recent call last):</div>
<div> File
"/net/chevy/raid1/phenix/phenix-dev-1463/build/intel-linux-2.6-x86_64/../../phenix/phenix/command_line/real_space_refine.py",
line 20, in <module></div>
<div> import mmtbx.refinement.real_space.driver</div>
<div style="">ImportError: No module named driver</div>
<div style=""><br>
</div>
<div style="">It was removed in CCTBX revision 17833:</div>
<div style=""><br>
</div>
<div style=""><a moz-do-not-send="true"
href="http://sourceforge.net/p/cctbx/code/17833/">http://sourceforge.net/p/cctbx/code/17833/</a><br>
</div>
<div style=""><br>
</div>
<div style="">-Nat</div>
</div>
</div>
</div>
<br>
<fieldset class="mimeAttachmentHeader"></fieldset>
<br>
<pre wrap="">_______________________________________________
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<a class="moz-txt-link-freetext" href="http://phenix-online.org/mailman/listinfo/phenixbb">http://phenix-online.org/mailman/listinfo/phenixbb</a>
</pre>
</blockquote>
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