Particles polishing error "There is no movie metadata STAR file for any micrographs!", (Warp 1.0.7)

[Alexandre Durand]

Dear all,

Is particle polishing in Relion working for anybody, using Warp data?

Once I have exported the micrograph star file, including polishing files, how do you proceed? I run the bayesian polishing as explained in the documentation, and get the following error message:

ERROR: 

There is no movie metadata STAR file for any micrographs!

I do have the motion/ directory with all the star files, and paths look ok to me.

Any clue?

Thanks

[bluegill sunfish]

same happens to me, warp 1.0.9, i use relion 3.1, is there a solution?

thanks

[teg...@gmail.com]

Hi,

this usually has to do with mismatched paths. Polishing should work with 3.1 otherwise.

Cheers,

Dimitry

[cla...@gmail.com]

Hi all,

I had this issue too and after a bit of investigating I worked out how to fix it on my end so hopefully this will help you too.

In your micrographs.star file, the first column (_rlnMicrographName) by default points to the summed, motion corrected frame. See below for an example line from one of my star files:

  average/FoilHole_3355296_Data_3358998_3359000_20200304_171458-48844.mrc  9487.7  1.0  200.0  2.7000  0.070  0.0  22564.3  22111.4  40.0  4.5  0.00  0.00 motion/FoilHole_3355296_Data_3358998_3359000_20200304_171458-48844.star
In particular, the important bit that needs changing is the bolded average/ part of the path as it needs the original movie to perform the polishing. If you keep Warp's file structure, then removing average/ (and changing the file extension if necessary) should fix the problem, otherwise they just need to point to the path of your movie files. This worked for me using both Relion 3.1 and 3.08.

Cheers,

Mathew

[alexandre....@gmail.com]

Hi all,

So it turns out that the particle star file from Warp is pointing to the tif file (the movie) and not the average. Which means I cannot due the polishing nor re-extract the particles without modifying the star file.

Is it a normal behaviour? Shouldn't the goodparticles.star points to the average mrc file instead of the tif?

Cheers,

Alexandre