Warp

Warp runs on the K3 pc, open it, this takes a few seconds longer than expected.

Input:

Choose the network folder where the data is stored.
Chiise the file type.
Set pixel size.
Set dose per frame.

Preprocessing:

SerialEM writes the gain ref in the folder that you write your data to.
When using counting mode (5760 x 4092) SerialEM writes an MRC gain ref file and no flip or transpose is needed.
When using superresolution mode (5760 x 4092) SerialEM copies the DM4 gain ref file and Flip Y axis is needed.

CTF:

Screen shot values should work for most cases.
Defocus minimum should not be zero!
When fits are problematic, play with Window size, Range values and Use Movie Sum.

Motion:

Range should be 0.05 to 0.25 of Nyquist, so (2 x pixel size / 0.05) and (2 x pixel size / 0.25), when not changed this should be set automatically when setting pixel size first.