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CTF send ice ring density to smartem #222

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CTF send ice ring density to smartem #222

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6 changes: 5 additions & 1 deletion src/cryoemservices/services/ctffind.py
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Original file line number Diff line number Diff line change
Expand Up @@ -11,6 +11,7 @@
from cryoemservices.services.common_service import CommonService
from cryoemservices.util.models import MockRW
from cryoemservices.util.relion_service_options import RelionServiceOptions
from cryoemservices.util.spa_output_files import get_ice_ring_density


class CTFParameters(BaseModel):
Expand Down Expand Up @@ -253,6 +254,7 @@ def ctf_find(self, rw, header: dict, message: dict):
# Extract results for ispyb
astigmatism = self.defocus1 - self.defocus2
estimated_defocus = (self.defocus1 + self.defocus2) / 2
ice_ring_density = get_ice_ring_density(Path(ctf_params.output_image))

# Forward results to images service
self.log.info(f"Sending to images service {ctf_params.output_image}")
Expand Down Expand Up @@ -284,7 +286,8 @@ def ctf_find(self, rw, header: dict, message: dict):
"cc_value": str(self.cc_value),
"fft_theoretical_full_path": str(
Path(ctf_params.output_image).with_suffix(".jpeg")
), # path to output mrc (would be jpeg if we could convert in SW)
),
"ice_ring_density": ice_ring_density,
}
self.log.info(f"Sending to ispyb {ispyb_parameters}")

Expand Down Expand Up @@ -328,6 +331,7 @@ def ctf_find(self, rw, header: dict, message: dict):
"smartem",
{
"ctf_max_resolution_estimate": self.estimated_resolution,
"ice_ring_density": ice_ring_density,
"app_id": ctf_params.app_id,
"mc_uuid": ctf_params.mc_uuid,
"mc_path": ctf_params.input_image,
Expand Down
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