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Use of 'List of extra tilts to collect' option in Tomography node settings?

Added by Morgan Beeby about 8 years ago

Hi Anchi,

Inspired by Hagen, Wan and Briggs's "Implementation of a cryo-electron tomography tilt-scheme optimized for high resolution subtomogram averaging" paper, I've been trying to use the 'List of extra tilts to collect' option in the Tomography node's 'Advanced' settings. I can't find any documentation on the feature, and have been having problems. I tried putting in lists of angles, both bare, and surrounded by either round or square parentheses:

0,3,-3,6,-6,9,-9,12,-12,15,-15,18,-18,21,-21,24,-24,27,-27,30,-30,33,-33,36,-36,39,-39,42,-42,45,-45,48,-48,51,-51,54,-54,57,-57

If I set the 'Min.' and 'Max' parameters of 'Tilt' in the Basic settings to zero, Leginon invariably returns the error:

Tilt parameters invalid: no angles from parameters specified.

...or if I set the 'Min.' and 'Max' parameters of 'Tilt' in the Basic settings to non-zero values, then Leginon successfully uses them, but ignores the additional angles I specify in the 'List of extra tilts to collect' box.

I wondered if you could give me any hints to make this work?

thanks!

Morgan


Replies (2)

RE: Use of 'List of extra tilts to collect' option in Tomography node settings? - Added by Anchi Cheng about 8 years ago

Hi, Morgan,

When I wrote additional tilt function, I didn't expect people would have one angle twice which might be one of the problem here. The add on tilts are treated like other values, sorted in the same tilt direction and inserted in order of the tilt. Therefore, your method will not work.

However, by popular demand, I added the kind of tilt scheme you referred to. Currently in the trunk only if you want to use that. It has been tested by two groups, including ourselves. It is called "alternating" in the advanced settings.

See Issue #3284

RE: Use of 'List of extra tilts to collect' option in Tomography node settings? - Added by Morgan Beeby about 8 years ago

Hi Anchi,

Ok, that's great. When I get time I'll try installing this and see how it works. Thanks!

Morgan

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