Re: [ccp4bb] maprot question

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

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Subject: Re: how to run detwin?
From: Eleanor Dodson ccp4 {- at -} YSBL {- dot -} YORK {- dot -} AC {- dot -} UK
Date: 2009-08-03

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From: Eleanor Dodson ccp4 {- at -} YSBL {- dot -} YORK {- dot -} AC {- dot -} UK
Date: 2009-08-03

Subject: Re: maprot question
From: Eleanor Dodson ccp4 {- at -} YSBL {- dot -} YORK {- dot -} AC {- dot -} UK
Date: 2009-08-03

I CANT BE SURE of what has happened BUT maprot is a very complicated
procedure and your script is trying to do 2 things at once - change the
cell and apply the mask.
I would try changing the cell first, then generating the mask, then
applying it

or else: generate mask, apply mask, then change cell.

But at every stage look at the result! ( mapslicer or coot or whatever)
to make sure you have really achieved what you are aiming for!

Eleanor

Peter Grey wrote:
> Hi all,
>
> I am trying to cut density from EM map (in a small P1 cell) into big P1 cell
> for MR.
>
> The mask is defined by a certain cut-off level in mapmask :
>
> mapmask
> mapin em.map
> mskout em.msk << eof
> MASK CUT 353
> MODE mapin
> eof
>
> I use maprot to cut the density to the big P1 (that has the same grid
> spacing as the original small P1).
>
> maprot wrkin em.map mskin em.msk mapout cut.map << eof
> MODE TO
> CELL XTAL 1098. 1098. 1098. 90. 90. 90.
> GRID XTAL 375 375 375
> SYMM P1
> AVER 1
> ROTA EULER 0.0 0.0 0.0
> TRANS 0.0 0.0 0.0
> END
> eof
>
> When cut.map is read by mapmask the program reports that the minimum of the
> map is -310.
>
> How come the minimum is not the cut-off level used to define the mask ? What
> am I missing/Doing wrong ?
>
> Many thanks in advance for all suggestions and comments,
>
> Peter.
>
>

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: how to run detwin?
From: Eleanor Dodson ccp4 {- at -} YSBL {- dot -} YORK {- dot -} AC {- dot -} UK
Date: 2009-08-03

Next message:
Subject: Re: Density modification
From: Eleanor Dodson ccp4 {- at -} YSBL {- dot -} YORK {- dot -} AC {- dot -} UK
Date: 2009-08-03