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scipion-em / scipion-em-relion

Plugin to use Relion SPA programs within the Scipion framework
GNU General Public License v3.0
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Import coordinates from particles.star #301

Closed pconesa closed 2 years ago

pconesa commented 3 years ago

Is your feature request related to a problem? Please describe. In several occasions, users wanted to import a particles.star file (coming from refinements) done outside scipion with relion or CS. But they are interested only in getting the coordinates.

Generic Import coordinates does not fit in this approach since it expects having 1 metadata file per coordinate file.

Describe the solution you'd like A dedicated "relion import coordinates" protocol to deal with particles.star files

Describe alternatives you've considered Another option might be to use import particles, maybe skipping missing binaries, which for this case are not needed?

Thoughts?

azazellochg commented 2 years ago

@pconesa you want to import a single particles star file, right?

pconesa commented 2 years ago

Yes,that would be the idea. Just a particle star file. Obviously the challenge there would be to do the matching against an existing setOfMicrographs based on micname== rlnMIcrographName (or whatever appropriate field name).

azazellochg commented 2 years ago

Hi Pablo, you can test it now on devel, I'll release on pypi soon