JiscMail Logo
Email discussion lists for the UK Education and Research communities

Help for CCP4BB Archives


CCP4BB Archives

CCP4BB Archives


CCP4BB@JISCMAIL.AC.UK


View:

Message:

[

First

|

Previous

|

Next

|

Last

]

By Topic:

[

First

|

Previous

|

Next

|

Last

]

By Author:

[

First

|

Previous

|

Next

|

Last

]

Font:

Proportional Font

LISTSERV Archives

LISTSERV Archives

CCP4BB Home

CCP4BB Home

CCP4BB  March 2012

CCP4BB March 2012

Options

Subscribe or Unsubscribe

Subscribe or Unsubscribe

Log In

Log In

Get Password

Get Password

Subject:

Re: Defining beamstop and error during indexing- moslfm

From:

Andrew Leslie <[log in to unmask]>

Reply-To:

[log in to unmask]

Date:

Thu, 22 Mar 2012 14:13:53 -0000

Content-Type:

text/plain

Parts/Attachments:

Parts/Attachments

text/plain (53 lines)

Dear Sonali,

            Just to add to Tim's reply, when you open the image with
iMosflm, you can Drag and drop the direct beam position in the
image display window. First, you have to click on the leftmost
icon in the row of icons under the image filename (a green
cross) which will display the direct beam position as read
from the image header as a green cross on the image. You can
then drag then over to where you think the beam position
should be (judging from the position of the backstop shadow).

If indexing still does not work, you can try doing a direct beam search
from the indexing pane, which will do a grid search +/- 2mm from the
current position.

However, you need to beware of one thing. I believe that the rotation axis
 on the Sercat beamline goes in the opposite direction to most beam lines.
In such cases, indexing using more than one image will never work, because
the relative phi values will be wrong. You can try indexing with one
image, and then if that works, try predicting the next image. If that
prediction does not match, it is almost certainly because the rotation
direction is wrong.

To deal with this, choose the Settings->Experiment settings menu and click
on the "reverse phi" box. Then you MUST repeat the spot search for each
image being used in indexing, then it should all work.

Best wishes,

Andrew

> Dear All,
>
> We have collected a data for a protein crystal at SER-CAT Chicago and the
> detector is mar300.We are using mosflm to process the data.While
> indexing,  the beamstop which it is taking is wrong, due to which it
> fails.
>
> I am trying to define the beamstop manually using tools like mask and spot
> search area.
> (it might be wrong)
> It will be highly appreciable if someone can please suggest if this the
> method we should use to define the beamstop or there is any site
>  definition file which has to be used, as it is available for HKL2000 or
> how we have to define the beamstop in mosflm.
>
>
>
> --
> Sonali Dhindwal
>
> “Live as if you were to die tomorrow. Learn as if you were to live
> forever.”

Top of Message | Previous Page | Permalink

JISCMail Tools


RSS Feeds and Sharing


Advanced Options


Archives

April 2014
March 2014
February 2014
January 2014
December 2013
November 2013
October 2013
September 2013
August 2013
July 2013
June 2013
May 2013
April 2013
March 2013
February 2013
January 2013
December 2012
November 2012
October 2012
September 2012
August 2012
July 2012
June 2012
May 2012
April 2012
March 2012
February 2012
January 2012
December 2011
November 2011
October 2011
September 2011
August 2011
July 2011
June 2011
May 2011
April 2011
March 2011
February 2011
January 2011
December 2010
November 2010
October 2010
September 2010
August 2010
July 2010
June 2010
May 2010
April 2010
March 2010
February 2010
January 2010
December 2009
November 2009
October 2009
September 2009
August 2009
July 2009
June 2009
May 2009
April 2009
March 2009
February 2009
January 2009
December 2008
November 2008
October 2008
September 2008
August 2008
July 2008
June 2008
May 2008
April 2008
March 2008
February 2008
January 2008
December 2007
November 2007
October 2007
September 2007
August 2007
July 2007
June 2007
May 2007
April 2007
March 2007
February 2007
January 2007


WWW.JISCMAIL.AC.UK

Secured by F-Secure Anti-Virus CataList Email List Search Powered by the LISTSERV Email List Manager