Rotate map about arbitrary vector

[nancy meyer]

Hi all,

I'm trying to rotate my map about a given vector (about which I have have some symmetry). If I could align this vector to z, it seems in IMOD I could use rotvol to rotate about z the desired amount, and then just align z back to original vector. I don't know if this is the most efficient way... does anyone know if this is do-able, or know of a better way rotate about a non-x,y,z axis? 

I have also tried e2proc3d.py --rot but I suspect my angles are not in the proper convention, and I'm not confident that's the way to go.

Thank you for any input!

Best,
Nancy

[Steve Ludtke]

Hi Nancy,

e2proc3d.py map.mrc rotated.hdf --rot spin:n1=1:n2=1:n3=1:omega=12

e2help.py rotation -v 2

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[nancy meyer]

Hi Steve,

Thanks so much. I seem to get some unexpected results using e2proc3d.py --rot spin:n1=x:n2=y:n3=z:omega=degrees (e.g. some angle values give expected rotation, larger ones seem to increase the size of the density itself). Haven't figured what I'm doing wrong there yet. HOWEVER, using --rot spider: option worked just great. Thank you again for the answer. Happy holidays!

Very best,
Nancy

[Steve Ludtke]

Hi Nancy. Merry X-mas.  I believe the x/y/z vector has to have unit length to work properly (?), so my example was a bad one...

[nancy meyer]

Yup! Unit vectors work great with the --rot spin: option. Thanks again!

[Steven Ludtke]

Hi Nancy, 

Sorry to raise this again. I'm a bit puzzled by this rotation issue, because in theory this problem (passing in non unit-length rotation vectors) was fixed in May last year.  Is your EMAN version very out of date?