Re: [phenixbb] Calculate average B-factor?

Hi all, reading this beauty I would like to ask a question to the respective developers: Will the PDB format remain the working format for the users and only upon deposition will it be converted to PDBml for archiving purposes, or are the refinement programs (et al.) going to abandon PDB, too? Best, Tim On 10/04/2014 10:32 PM, Ed Pozharski wrote:

grep "^ATOM " filename.pdb | cut -c 61-66 | awk '{s+=$1;} END {print s/NR;}'

"Nobody likes a show off, Private" Skipper

Cheers

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<div>-------- Original message --------</div><div>From: Chen Zhao </div><div>Date:10/04/2014 4:03 PM (GMT-05:00) </div><div>To: PHENIX user mailing list </div><div>Subject: [phenixbb] Calculate average B-factor? </div><div> </div>Dear all,

I am just wondering whether there is a command line tool in phenix that calculates the average B-factor of a PDB file? Can it deal with the ANISOU records (from TLS refinement or not) properly? I looked into previous posts but the --show-adp-statistics option in phenix.pdbtools seems to be no longer available in the version (1.9-1678) I installed.

Thank you so much, Chen

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