I'm trying to index some weak data with mosflm, mainly just to get cell parameters.
The automatic procedure fails, so I'm trying to modify things manually, and having trouble.
I run imosflm (7.2.1 on Fedora 14 ( is that a problem?))
File menu: load images, select the first image, OK, they all 10 get listed in the window
(the first image has wrong phi angles in header, I can't find how to enter phi angles manually or exclude it so rename and start again without it)
click index in the left toolbar. first and last are selected for spot picking but autoindexing fails.
Looking at spots (picked) many don't correspond to visible spots and the strongest spots are not picked.
But quite a few spots are correctly picked, so it is interpreting the image (not a byte-swap problem)
I see how to adjust the resolution (in the graphics window) and threshold etc in the main window.
Change these and click the find spots icon in the appropriate image (one of the two already selected)
and the number of spots changes in the expected direction (at least for threshold and spot separation)
But many spots are not picked and I don't know why. There used to be a list of which spots were rejected for what reason. Is that still available?
So I want to add more images besides the two initial frames. I click the 3-images icon in main window and all frames are displayed, with check boxes. But they cannot be checked! OK, because spots have not been picked for those images. But when I click the find-spots icons in those lines, nothing happens! All the frames can be read, because I can step through them in the image window.
I'm sure I'm missing some pretty obvious things, but I need help to go on.
The images are from oxford xcalibur, exported with dc imgtomar img 50 1
in mosfilm I would give "detector oxford" But I assume that gets detected automagically now.
For example does mosflm know the phi axis is vertical as the image is displayed in the image window?
But first I need to get spot picking working.
Ed
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