I assume you have edited the XDS.INP file to include the initially found space group and the first refined cell ?
If not, then that would be my first choice to do. If that then still fails with the default parameters, then I would start fixing some values instead of refining all of them at the same time.
The keywords to look for are the following:
Once XDS successfully integrates your dataset coy GXPARM.XDS to XPARM.XDS and copy those values into the UNIT_CELL_CONSTANTS and rerun XDS.INP
And more details on each of those can be found here:
You should be able to take care of your problem as it doesn't sound severe.
On Jul 4, 2013, at 12:26 PM, Fei Li wrote:
> Dear all,
> I recently collected some 10 degree wedges of data on a very small
> membrane protein. The data processing so far is not working well. XDS
> is the only software that process my data and give a space group and
> cell parameters. However, I ended up with a merged dataset with low
> completeness at low resolution. My data is not overloaded. This is a
> very small protein shot with 5um mini-beam. I checked the FRAME.cbf
> file and looks like XDS is not picking the spots at low resolution
> correctly. It missed a good portion of my low res spots in every
> datasets I checked and picked more at high res, which are weaker. Then
> the indexing step will reject most of my spots for "too far away from
> ideal position". imosflm was able to pick the spots correctly, but
> does not index. I can send the FRAME.cbf file and the imosflm picture
> if anyone thinks that will he useful to see. Any suggestion on how to
> make XDS, or imosflm, correctly working for me is greatly appreciated.
> Thanks a lot!
> Best regards,
> Fei LI
> Graduate Assistant
> 310 Biochemistry Building
> Department of Biochemistry and Molecular Biology
> Michigan State University
> East Lansing, MI
Johns Hopkins University
Bloomberg School of Public Health
Department of Biochemistry & Molecular Biology
Johns Hopkins Malaria Research Institute
615 North Wolfe Street, W8708
Baltimore, MD 21205