<div dir="ltr">Hi Oli,<div><br>Try adding the keyword "map_file_name":</div><div><br></div><div>phenix.mtriage map_file_name=my_map.ccp4<br></div><div><br></div><div>Let me know if that doesn't do it!</div><div>All the best,</div><div>Tom</div></div><div class="gmail_extra"><br><div class="gmail_quote">On Sat, May 26, 2018 at 2:44 PM, Oliver Clarke <span dir="ltr"><<a href="mailto:olibclarke@gmail.com" target="_blank">olibclarke@gmail.com</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;line-break:after-white-space">Ah right, thanks Ricardo!<div><br></div><div>I thought that might be the case, but there was nothing in the command line help or online docs to indicate it, and whenever I attempt to run phenix.mtriage, I get the error "Sorry: No box info (aka crystal symmetry) available”, even when I run it on the map generated by phenix.auto_sharpen. There also doesn’t seem to be any option to provide this info on the command line (except in the form of a model, I guess).</div><div><br></div><div>Cheers</div><div>Oli</div><div><div><br><blockquote type="cite"><div>On May 26, 2018, at 3:35 PM, Ricardo Righetto <<a href="mailto:ricardorighetto@gmail.com" target="_blank">ricardorighetto@gmail.com</a>> wrote:</div><br class="m_1114615796916149777Apple-interchange-newline"><div><div dir="ltr"><div>Dear Oli,</div><div><br></div><div>The d99 criterion is available in the phenix.mtriage program.</div><div><br></div><div>Best wishes,<br></div></div><div class="gmail_extra"><br clear="all"><div><div class="m_1114615796916149777gmail_signature" data-smartmail="gmail_signature"><br>--<br>Ricardo Diogo Righetto<br></div></div>
<br><div class="gmail_quote">2018-05-26 20:44 GMT+02:00 Oliver Clarke <span dir="ltr"><<a href="mailto:olibclarke@gmail.com" target="_blank">olibclarke@gmail.com</a>></span>:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi,<br>
<br>
I think the “d99” criterion described in this preprint (<a href="https://www.biorxiv.org/content/early/2018/03/14/279844" rel="noreferrer" target="_blank">https://www.biorxiv.org/conte<wbr>nt/early/2018/03/14/279844</a>) looks like a really interesting FSC-independent way to measure res in real space, and I’d like to give it a go on my maps (particularly those where I am suspicious of the FSC-based res based on map appearance, or where I suspect overfitting).<br>
<br>
Is it available in any phenix package at present? The scripts site mentioned in the preprint (<a href="http://phenix-online.org/phenix_data/afonine/cryoem_validation/" rel="noreferrer" target="_blank">http://phenix-online.org/phen<wbr>ix_data/afonine/cryoem_validat<wbr>ion/</a>) is currently rather sparsely populated.<br>
<br>
(Also, I wonder whether a directional version of the d99 criterion might be useful to estimate anisotropic res in the case of a preferred orientation, analogous to the 3D-FSC approach of Yong-Zi Tan and Dmitry Lyumkis?)<br>
<br>
Cheers<br>
Oli<br>
______________________________<wbr>_________________<br>
phenixbb mailing list<br>
<a href="mailto:phenixbb@phenix-online.org" target="_blank">phenixbb@phenix-online.org</a><br>
<a href="http://phenix-online.org/mailman/listinfo/phenixbb" rel="noreferrer" target="_blank">http://phenix-online.org/mailm<wbr>an/listinfo/phenixbb</a><br>
Unsubscribe: <a href="mailto:phenixbb-leave@phenix-online.org" target="_blank">phenixbb-leave@phenix-online.o<wbr>rg</a></blockquote></div><br></div>
</div></blockquote></div><br></div></div><br>______________________________<wbr>_________________<br>
phenixbb mailing list<br>
<a href="mailto:phenixbb@phenix-online.org">phenixbb@phenix-online.org</a><br>
<a href="http://phenix-online.org/mailman/listinfo/phenixbb" rel="noreferrer" target="_blank">http://phenix-online.org/<wbr>mailman/listinfo/phenixbb</a><br>
Unsubscribe: <a href="mailto:phenixbb-leave@phenix-online.org">phenixbb-leave@phenix-online.<wbr>org</a><br></blockquote></div><br><br clear="all"><div><br></div>-- <br><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div dir="ltr">Thomas C Terwilliger<div>Laboratory Fellow, Los Alamos National Laboratory</div><div>Senior Scientist, New Mexico Consortium</div><div>100 Entrada Dr, Los Alamos, NM 87544</div><div>Email: <a href="mailto:tterwilliger@newmexicoconsortium.org" target="_blank">tterwilliger@newmexicoconsortium.org</a></div><div>Tel: 505-431-0033</div><div><br></div></div></div></div></div></div></div></div>
</div>