Hi Daniel,

Unfortunately, there are no options available to enhance the phenix.validation_cryoem command-line output at the moment. To get more information on geometry in command-line, I would suggest to run separate tools like

phenix.clashscore

phenix.rotalyze

phenix.ramalyze

phenix.cablam

phenix.molprobity

Some of them have options to change output, but by default they will report full everything they found. GUI uses them under the hood, so you should get the same results.

Best regards,

Oleg Sobolev.

On Mon, Apr 1, 2019 at 6:55 AM Daniel Larsson <daniel.larsson@icm.uu.se> wrote:

Hi,

When I use the phenix.validation_cryoem command line tool, I get very little data compared to when I run the Cryo-EM validation from the GUI. Which options should I enable to get things like detailed clash annoation, CaBLAM analysis etc?

Regards,
Daniel

När du har kontakt med oss på Uppsala universitet med e-post så innebär det att vi behandlar dina personuppgifter. För att läsa mer om hur vi gör det kan du läsa här: http://www.uu.se/om-uu/dataskydd-personuppgifter/

E-mailing Uppsala University means that we will process your personal data. For more information on how this is performed, please read here: http://www.uu.se/en/about-uu/data-protection-policy

_______________________________________________
phenixbb mailing list
phenixbb@phenix-online.org
http://phenix-online.org/mailman/listinfo/phenixbb
Unsubscribe: phenixbb-leave@phenix-online.org