*** For details on how to be removed from this list visit the *** *** CCP4 home page http://www.ccp4.ac.uk ***
Hi Just to add to what Juergen has said - the mosflm.lp output file contains (usually, unless you have optimized your data processing) several "warnings" at the end of the file. Most of these warnings contain useful advice on how to improve your data processing, and even tell you the keywords to use. I tend to view these as informational messages rather than dire warnings that the world will end. The "warnings" section is the bit of the log file I always look at, even when processing looks good othherwise. So if you have overlapped spots, Mosflm itself will make suggestions, and even calculates suitable values for, e.g. the SEPARATION keyword. It is reasonable to ask why Mosflm doesn't take the further step and actually apply these values. One reason it doesn't is that the problem might become apparent part-way through the processing, so unless it went right back to the start, you might find that the later images were processed in a different way to the earlier ones. This might be viewed as being inconsistent, and could cause problems in merging. > > You might want to add the command > > SEPARATION CLOSE > and PROFILE OPTIMIZE > to your script. > > The box size is calculated automatically depending on your resolution, > if you have data worse than 2.5 (yes, some people still collect that > sort of data :-) ), then you'll end up with 9 different box sizes > depending on the region of the detector larger ones at low resolution > and smaller ones at higher resolution. If you have data beyond 2.5 A, > then Mosflm uses 25 box sizes. > You can control how close to an overlap you want to get by the > Separation close command, but make sure that you actually don't measure > overlapped reflections. As a rule of thumb it's always wise to run > strategy with an overestimated mosaicity to avoid overlaps - but I guess > you already have the data and you are now stuck with it. Alternatively > you could use XDS if you really care for those spots. > > Good luck, > > J?rgen > > sarvind mani wrote: > > > hello everyone > > > > I have collected one data set for protein crystal, but spots at edges > > are overlapped . can any one tell me how to reduce the box size in > > Mosflm.i am using latest version of Mosflm. > > > > Thanks in advance > > > > regards > > mani > > > > > > ------------------------------------------------------------------------ > > Find out what India is talking about on - Yahoo! Answers India > > <http://us.rd.yahoo.com/mail/in/yanswers/*http://in.answers.yahoo.com/> > > Send FREE SMS to your friend's mobile from Yahoo! Messenger Version 8. > > Get it NOW > > <http://us.rd.yahoo.com/mail/in/messengertagline/*http://in.messenger.yahoo.com> > > > > > -- > J?rgen Bosch > Howard Hughes Medical Institute and > University of Washington > Dept. of Biochemistry, K-426 > 1705 NE Pacific Street > Seattle, WA 98195 > Box 357742 > Phone: +1-206-616-4510 > FAX: +1-206-685-7002 > > > > Harry -- Dr Harry Powell, MRC Laboratory of Molecular Biology, MRC Centre, Hills Road, Cambridge, CB2 2QH
