Movie Frames

[Mikel Valle]

Dear Carsten,

 

we are using movie frmaes from a Falcon II direct detection camera. The format is mrc, and the files have .mrcs extension. The file names are not recognized by spring as input micrographs, and trying to cheat I move the files to .mrc extension. Then spring accept the files but cannot find the frames. Any idea?

 

Best.

 

Mikel Valle, PhD

Structural Biology Unit, CICbioGUNE

Biscay Technology Park, Bld 800

48610, Derio, Spain

 

 

 

 

 

 

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[Simon Fromm]

Dear Mikel,

I was also dealing with mrcs stacks from the Falcon II in SPRING. So far SPRING can't handle image stacks, it may be implemented in the future. So basically you have to convert your image stack into single images to make use of the frames in SPRING. The file names of your single image files should be the same as the ones of your original micrograph file name you used in SPRING with the extension '_xxx' for the respective frame number. E.g. the frames of the micrograph 'name.mrc' should be named 'name_001.mrc', 'name_002.mrc' and so on. Like that the 'Frame processing option' of SPRING will correctly identify the individual frames.

I used the em2em tool from IMAGIC (https://www.imagescience.de/em2em.html) for the splitting of the mrcs stacks from the Falcon II.

The current version of SPRING will give you an error message when you want to use more than nine frames per micrograph. An update of SPRING which fixes that will be available soon.

All the best,

Simon

-- 
PhD student, Sachse Group
EMBL Heidelberg
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