Re: [scipion-users] sphire – cryolo import & sphire - cryolo picking

[Jose M. de la R. T. <del...@gm...>]

Hi Dmitry,

What you should import is a cryolo trained model, not a volume. Then you
can use that model instead of the general one. As far as I know, a volume
can't be used for picking with cryolo.

Best regards,
Jose Miguel


On Sat, Mar 6, 2021, 8:50 AM Dmitry A. Semchonok <sem...@gm...>
wrote:

> Dear colleagues,
>
>
>
> How does the import sphire – cryolo import works?
>
> Using this protocol, I imported the volume that I want to use for picking
> with shire picking.
>
> But the shire picking gives an error.
>
>
>
> Protocol failed: Command 'eval
> "$(/opt/Scipion3/software/em/eman-2.31/condabin/conda shell.bash hook)"&&
> conda activate cryolo-1.7.6 && cryolo_predict.py -c
> Runs/003144_SphireProtCRYOLOPicking/extra/config.json -w
> /data1/ScipionUserData/projects/Fraction_33_Lisa/Runs/003113_SphireProtCryoloImport/extra/cryosparc_P18_J64_005_volume_map.mrc
> -i Runs/003144_SphireProtCRYOLOPicking/tmp/micrographs_1-17/ -o
> Runs/003144_SphireProtCRYOLOPicking/tmp/micrographs_1-17/ -t 0.200 -g 0 -nc
> 4' returned non-zero exit status 1.
>
>
>
>
>
> Could you give any suggestions?
>
>
>
>
>
> Thank you
>
>
>
> Sincerely,
>
> Dmitry
>
>
>
>
>
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>
>
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