Hi,
> - Movies for the following micrographs are missing:
> MotionCorr/job043/movies/FoilHole_27618935_Data_27618357_27618359_20221025_174613_EER.mrc
Did you make sure movies and trajectory STAR files are present in the right place?
For example, the "movies" folder must be right under the project directory.
If it is a symbolic link to somewhere else, the link must be by an absolute path.
Best regards,
Takanori Nakane
On 2023/03/29 19:54, Frederick R Hawkings wrote:
> Hi Takanori,
>
> Thank you for the quick response
>
> We used relion's implementation, 16 was specified to the EER fractionation field, and the group frames field was set to 1. Attached are grabs from the
> motioncorr setup in case I got anything wrong
>
> I'm quite confused about this. We did re-extract at larger than the true pixel size to overcome some noise artefacts, but that doesn't seem like it
> should lead to this error
>
> Cheers,
>
> Fred
>
> image.png
> image.png
>
> On Wed, 29 Mar 2023 at 11:46, Takanori Nakane <[log in to unmask] <mailto:[log in to unmask]>> wrote:
>
> Hi,
>
> > We have 959 raw frames/movie, and motioncorr we grouped by 16 to give 59 pseudo-frames/movie.
>
> In the initial MotionCorr step, did you use RELION's motion correction, or UCSF MotionCor2?
> You have to use the former to perform Polish on EER movies.
>
> When you "grouped by 16", did you specify 16 to the "EER fractionation" box?
> "Group frames" in the GUI must be 1.
>
> See https://relion.readthedocs.io/en/latest/Reference/MovieCompression.html#falcon4-eer
> <https://relion.readthedocs.io/en/latest/Reference/MovieCompression.html#falcon4-eer> for
> details.
>
> Best regards,
>
> Takanori Nakane
>
> On 2023/03/29 19:35, Frederick R Hawkings wrote:
> > Hi all,
> >
> > Hoping for some pointers from experienced eer users: we have a single particle eer dataset which has made it to polish training. We have 959 raw
> > frames/movie, and motioncorr we grouped by 16 to give 59 pseudo-frames/movie.
> >
> > I'm trying to train for polishing, so at first I specified the existing micrographs_corrected.star in I/O, and I got the attached error,
> stating that
> > 'not a single movie has the specified number of frames (59)'. I ran the eer_trajectory_handler tool (I knew it wasn't necessary but I though
> relion
> > might be happier with the star output from that job), and got the same error.
> >
> > Does anyone have any ideas? As far as I can work out, relion is looking at the source movies and getting confused on the basis that they have 959
> > frames each, but we can't possibly polish the raw frame stack...
> >
> > Any help would be much appreciated.
> >
> > Cheers,
> >
> > Fred
> >
> >
> >
> >
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