Appion

The allowable CS range should be higher. It was limited to 4mm, but our T12 has a CS of 6.3mm. I upped the allowable range to 7mm, but I don't know what the upper limit of the CS on EMs are, does anyone know?

Neil could you please look at the fix I added to makestack2.py in r16905?
When using CTFFind values for ace2correct.exe, a tmp_ctfvaluesfile.txt is created. Apparently the abs(df1) must be less than abs(df2), but this is not necessarily the case with the CTFfind output, so this was causing ace2correct.exe to use ridiculous astigmatism angles.
The df values are now sorted for the tmp file, but is the astigmatism angle still OK to use as is?

Hi Gabe,

I did not realize some scopes (at least in use for 3dem) would have a Cs so high?

Gabe, I think your |df1| < |df2| fix, breaks things. If you swap the defocus values, you need to change the angle by 90 degrees. I made a change, can you test. see r16912.

astig + 90 seems to work, but old negative CTFFind values still breaks ace2correct phaseflipping, using the abs values when creating tmp_ctfvalues file
r16939

Hi Gabe, I do not think I changed the sign on CTFFIND or makestack. Oh well, this is a bigger mess than I thought. I think it is time to start adding abs() everywhere when it comes to CTF. I really appreciate you helping and debugging this for me.