📝 Event: 2025-10-09_psf_check

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📊 Report Overview

Event Metadata

Record Type
Qc Session

Reason / Suite
Routine_psf_check

Operator
AIC Staff

Instrument
scope-nikon-crest-v3

QC Summary & Evaluation

Summary: Automated PSF extraction for 60x Silicone, 60x Oil, and 100x Oil objectives using Turku CIC Nikon Crest v3.

PASS

psf.60x_oil.525.fwhm_z_nm: 60x oil axial PSF remained within expected range.

🔬 Tests Performed

Test Type	Details
Psf	Sub-diffraction beads measured on 60x Silicone, 60x Oil, and 100x Oil.

📏 Computed Metrics

Metric ID	Value
`psf.60x_silicone.525.fwhm_xy_max_nm`	288.3
`psf.60x_silicone.525.fwhm_xy_min_nm`	267.1
`psf.60x_silicone.525.fwhm_z_nm`	853.2
`psf.60x_silicone.525.asymmetry`	0.93
`chromatic_shift.60x_silicone.425_to_525.z_nm`	127.5
`psf.60x_oil.525.fwhm_xy_max_nm`	291.1
`psf.60x_oil.525.fwhm_xy_min_nm`	260.2
`psf.60x_oil.525.fwhm_z_nm`	686.8
`psf.60x_oil.525.asymmetry`	0.93
`chromatic_shift.60x_oil.425_to_525.z_nm`	118.7
`psf.100x_oil.525.fwhm_xy_max_nm`	210.0
`psf.100x_oil.525.fwhm_xy_min_nm`	203.1
`psf.100x_oil.525.fwhm_z_nm`	585.5
`psf.100x_oil.525.asymmetry`	0.97
`chromatic_shift.100x_oil.425_to_525.z_nm`	-25.4

📎 Artifacts & References

Artifact ID	Role	Description
`art_psf_60x_silicone`	RAW_IMAGE	Raw z-stack for PLAN APO 60x SIL.: `omero:////image/`
`art_psf_60x_oil`	RAW_IMAGE	Raw z-stack for PLAN APO AD 60x OIL.: `omero:////image/`
`art_psf_100x_oil`	RAW_IMAGE	Raw z-stack for PLAN APO AD 100x OIL.: `omero:////image/`

Additional Notes

Images acquired at room temperature (20°C). Measurements extracted using the ImageJ PSFj plugin.

📄 Raw YAML Ledger

View 2025-10-09_psf_check.yaml

schema_version: 1
record_type: qc_session
qc_id: qc_scope-nikon-crest-v3_20251009T1000Z_psf_v1
microscope: scope-nikon-crest-v3
started_utc: '2025-10-09T10:00:00Z'
reason: routine_psf_check
summary: Automated PSF extraction for 60x Silicone, 60x Oil, and 100x Oil objectives
  using Turku CIC Nikon Crest v3.
notes: "Images acquired at room temperature (20\xB0C). Measurements extracted using\
  \ the ImageJ PSFj plugin."
performed:
- qc_type: psf
  details: Sub-diffraction beads measured on 60x Silicone, 60x Oil, and 100x Oil.
  artifacts:
  - art_psf_60x_silicone
  - art_psf_60x_oil
  - art_psf_100x_oil
inputs_human:
- metric_id: environment.room_temperature_c
  value: 20
  unit: C
  details: Recorded from PSF report metadata.
  metric_class: signal_to_noise
laser_inputs_human:
  measurement_position: at_objective
  measurement_position_details: Not measured in this PSF-only session.
  power_meter:
    model: not_applicable
    serial: ''
    calibration_due: ''
    notes: Laser power linearity/stability was not part of this session.
  linearity_series: []
  stability_series: []
computed_provenance:
  pipeline: imagej_psfj
  version: unknown
  run_utc: '2025-10-09T14:02:00Z'
metrics_computed:
- metric_id: psf.60x_silicone.525.fwhm_xy_max_nm
  value: 288.3
  unit: nm
  details: 'StdDev: 4.9. N=93 beads.'
  metric_class: fwhm_lateral
- metric_id: psf.60x_silicone.525.fwhm_xy_min_nm
  value: 267.1
  unit: nm
  metric_class: fwhm_lateral
- metric_id: psf.60x_silicone.525.fwhm_z_nm
  value: 853.2
  unit: nm
  metric_class: fwhm_axial
- metric_id: psf.60x_silicone.525.asymmetry
  value: 0.93
  unit: unitless
  metric_class: fwhm_lateral
- metric_id: chromatic_shift.60x_silicone.425_to_525.z_nm
  value: 127.5
  unit: nm
  details: Axial shift of Blue 425 relative to Green 525.
  metric_class: chromatic_shift
- metric_id: psf.60x_oil.525.fwhm_xy_max_nm
  value: 291.1
  unit: nm
  details: 'StdDev: 7.6. N=356 beads.'
  metric_class: fwhm_lateral
- metric_id: psf.60x_oil.525.fwhm_xy_min_nm
  value: 260.2
  unit: nm
  metric_class: fwhm_lateral
- metric_id: psf.60x_oil.525.fwhm_z_nm
  value: 686.8
  unit: nm
  metric_class: fwhm_axial
- metric_id: psf.60x_oil.525.asymmetry
  value: 0.93
  unit: unitless
  metric_class: fwhm_lateral
- metric_id: chromatic_shift.60x_oil.425_to_525.z_nm
  value: 118.7
  unit: nm
  details: Axial shift of Blue 425 relative to Green 525.
  metric_class: chromatic_shift
- metric_id: psf.100x_oil.525.fwhm_xy_max_nm
  value: 210.0
  unit: nm
  details: 'StdDev: 1.5. N=85 beads.'
  metric_class: fwhm_lateral
- metric_id: psf.100x_oil.525.fwhm_xy_min_nm
  value: 203.1
  unit: nm
  metric_class: fwhm_lateral
- metric_id: psf.100x_oil.525.fwhm_z_nm
  value: 585.5
  unit: nm
  metric_class: fwhm_axial
- metric_id: psf.100x_oil.525.asymmetry
  value: 0.97
  unit: unitless
  metric_class: fwhm_lateral
- metric_id: chromatic_shift.100x_oil.425_to_525.z_nm
  value: -25.4
  unit: nm
  details: Axial shift of Blue 425 relative to Green 525.
  metric_class: chromatic_shift
evaluation:
  benchmark_ref: benchmarks/scope-nikon-crest-v3.yaml@main
  evaluated_utc: '2025-10-09T14:10:00Z'
  evaluated_by: github_action:qceval
  overall_status: pass
  results:
  - metric_id: psf.60x_oil.525.fwhm_z_nm
    status: pass
    threshold: warn>750nm, fail>900nm
    message: 60x oil axial PSF remained within expected range.
artifacts:
- artifact_id: art_psf_60x_silicone
  role: raw_image
  uri: omero://<server>/<group>/image/<id>
  description: Raw z-stack for PLAN APO 60x SIL.
- artifact_id: art_psf_60x_oil
  role: raw_image
  uri: omero://<server>/<group>/image/<id>
  description: Raw z-stack for PLAN APO AD 60x OIL.
- artifact_id: art_psf_100x_oil
  role: raw_image
  uri: omero://<server>/<group>/image/<id>
  description: Raw z-stack for PLAN APO AD 100x OIL.
performed_by: AIC Staff