No subject

basic statistics. There will be a "Model Properties" section in the log and
in "molprobity.out".

Let us know of any other issues. Thanks!

--
Billy K. Poon
Research Scientist, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
1 Cyclotron Road, M/S 33R0345
Berkeley, CA 94720
Tel: (510) 486-5709
Fax: (510) 486-5909
Web: https://phenix-online.org

On Wed, Jan 17, 2018 at 8:52 AM, wtempel <wtempel at gmail.com> wrote:

> Pre-1.13, the `model_statistics=True` option of PDBTOOLS produced a
> listing of average B-Factors, atom counts, etc. Is this functionality
> provided by another command in the current version of PHENIX?
> Many thanks.
> Wolfram Tempel
>
> _______________________________________________
> phenixbb mailing list
> phenixbb at phenix-online.org
> http://phenix-online.org/mailman/listinfo/phenixbb
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<div dir=3D"ltr">Hi Wolfram,<div><br></div><div>If you only want average B-=
factors and atom counts, you can click the magnifying glass in the PDB Tool=
s GUI next to the model file name. That will give you general statistics ab=
out the file. Click on the &quot;B-factors by chain&quot; button to get the=
 average B-factors.</div><div><br></div><div>For more information, you can =
run the &quot;Comprehensive Validation&quot; tool in the GUI with just the =
model.</div><div><br></div><div>From a terminal, you can run &quot;phenix.m=
olprobity &lt;model file&gt;&quot; to calculate basic statistics. There wil=
l be a &quot;Model Properties&quot; section in the log and in &quot;molprob=
ity.out&quot;.</div><div><br></div><div>Let us know of any other issues. Th=
anks!</div></div><div class=3D"gmail_extra"><br clear=3D"all"><div><div cla=
ss=3D"gmail_signature" data-smartmail=3D"gmail_signature"><div dir=3D"ltr">=
<div><div dir=3D"ltr"><div><div dir=3D"ltr"><div><div dir=3D"ltr"><div><div=
 dir=3D"ltr"><div dir=3D"ltr"><div dir=3D"ltr"><div><div>--</div><div><span=
 style=3D"font-size:12.8000001907349px">Billy K. Poon</span><br></div></div=
><div>Research Scientist, Molecular Biophysics and Integrated Bioimaging</d=
iv><div>Lawrence Berkeley National Laboratory</div><div>1 Cyclotron Road, M=
/S 33R0345</div><div>Berkeley, CA 94720</div><div>Tel: (510) 486-5709</div>=
<div>Fax: (510) 486-5909</div><div>Web:=C2=A0<a href=3D"https://phenix-onli=
ne.org" target=3D"_blank">https://phenix-online.org</a></div></div></div></=
div></div></div></div></div></div></div></div></div></div></div>
<br><div class=3D"gmail_quote">On Wed, Jan 17, 2018 at 8:52 AM, wtempel <sp=
an dir=3D"ltr">&lt;<a href=3D"mailto:wtempel at gmail.com" target=3D"_blank">w=
tempel at gmail.com</a>&gt;</span> wrote:<br><blockquote class=3D"gmail_quote"=
 style=3D"margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><d=
iv dir=3D"ltr">Pre-1.13, the `model_statistics=3DTrue` option of PDBTOOLS p=
roduced a listing of average B-Factors, atom counts, etc. Is this functiona=
lity provided by another command in the current version of PHENIX?<br><div>=
Many thanks.</div><div>Wolfram Tempel</div></div>
<br>______________________________<wbr>_________________<br>
phenixbb mailing list<br>
<a href=3D"mailto:phenixbb at phenix-online.org">phenixbb at phenix-online.org</a=
><br>
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errer" target=3D"_blank">http://phenix-online.org/<wbr>mailman/listinfo/phe=
nixbb</a><br>
Unsubscribe: <a href=3D"mailto:phenixbb-leave at phenix-online.org">phenixbb-l=
eave at phenix-online.<wbr>org</a><br></blockquote></div><br></div>

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