[phenixbb] inverting a set of phase angles
Terwilliger, Thomas C
terwilliger at lanl.gov
Thu Apr 19 12:09:42 PDT 2012
Instead of adding 180 degrees, try multiplying the phase by -1. That should do it.
All the best,
From: phenixbb-bounces at phenix-online.org [phenixbb-bounces at phenix-online.org] on behalf of Mooers, Blaine H.M. (HSC) [Blaine-Mooers at ouhsc.edu]
Sent: Thursday, April 19, 2012 12:58 PM
To: PHENIX user mailing list
Subject: Re: [phenixbb] inverting a set of phase angles
(3) is what I am after. I want to calculate the mean phase error between the phases for the correct hand and a reference set of phases so the
phases are of interest here.
I thought I only had to shift the phases by 180 degrees to invert the hand. The resulting map looks much
poorer. The space group is R32 (the H setting). My fortran jiffy is listed below.
integer h,k,l, phs, nnphs, dphs
11 read(5,3,end=9999) h,k,l,fobs,fom,dphs
if ((dphs.eq.0).OR.(dphs.eq.360)) then
elseif (dphs.eq.180) then
elseif ((dphs.gt.0).AND.(dphs.lt.180)) then
nnphs = dphs + 180
nnphs = dphs - 180
On Apr 19, 2012, at 12:42 PM, Terwilliger, Thomas C wrote:
I don't think we have any tool that will do this in a general way, no. I can think of several possibilities of what you might want to do:
(1) Change phases corresponding to swapping all anomalous differences. I think that this is not possible without having access to the original data and sites because the phases come partly from anomalous differences and partly from the heavy-atom substructure.
(2) Change phases corresponding to inverting heavy-atom substructure. This is done automatically in Phaser when you run SAD phasing (it can output both sets of phases).
(3) Change phases corresponding to inverting the structure. This one is easy but doesn't seem likely to be interesting or useful.
Would you be wanting one of these or something else?
All the best,
From: phenixbb-bounces at phenix-online.org<mailto:phenixbb-bounces at phenix-online.org> [phenixbb-bounces at phenix-online.org] on behalf of Mooers, Blaine H.M. (HSC) [Blaine-Mooers at ouhsc.edu]
Sent: Thursday, April 19, 2012 10:53 AM
To: phenixbb at phenix-online.org<mailto:phenixbb at phenix-online.org>
Subject: [phenixbb] inverting a set of phase angles
Does phenix have a reflection file utility for correctly inverting a set of phase angles?
Department of Biochemistry and Molecular Biology
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