dkist-processing-vbi 1.24.1__py3-none-any.whl → 1.25.1__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- dkist_processing_vbi/tasks/dark.py +4 -6
- dkist_processing_vbi/tasks/gain.py +4 -4
- dkist_processing_vbi/tasks/make_movie_frames.py +4 -6
- dkist_processing_vbi/tasks/process_summit_processed.py +1 -1
- dkist_processing_vbi/tasks/quality_metrics.py +2 -2
- dkist_processing_vbi/tasks/science.py +4 -4
- dkist_processing_vbi/tests/conftest.py +11 -0
- dkist_processing_vbi/tests/local_trial_workflows/l0_to_l1.py +0 -20
- {dkist_processing_vbi-1.24.1.dist-info → dkist_processing_vbi-1.25.1.dist-info}/METADATA +143 -52
- {dkist_processing_vbi-1.24.1.dist-info → dkist_processing_vbi-1.25.1.dist-info}/RECORD +12 -12
- {dkist_processing_vbi-1.24.1.dist-info → dkist_processing_vbi-1.25.1.dist-info}/WHEEL +0 -0
- {dkist_processing_vbi-1.24.1.dist-info → dkist_processing_vbi-1.25.1.dist-info}/top_level.txt +0 -0
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@@ -47,7 +47,7 @@ class DarkCalibration(VbiTaskBase, QualityMixin):
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set(self.constants.gain_exposure_times + self.constants.observe_exposure_times)
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)
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logger.info(f"{target_exp_times = }")
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with self.
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with self.telemetry_span(
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f"Calculating dark frames for {self.constants.num_spatial_steps} steps and {len(target_exp_times)} exp times",
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):
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total_dark_frames_used = 0
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@@ -68,16 +68,14 @@ class DarkCalibration(VbiTaskBase, QualityMixin):
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auto_squeeze=False,
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)
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with self.
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f"Processing dark for {step = } and {exp_time = }"
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):
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with self.telemetry_span(f"Processing dark for {step = } and {exp_time = }"):
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logger.info(f"averaging arrays for step {step}")
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averaged_dark_array = average_numpy_arrays(input_dark_arrays)
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logger.info(
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f"average dark signal in step {step} = {averaged_dark_array.mean():.3e}"
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)
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with self.
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with self.telemetry_span(
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f"Writing intermediate dark for {step = } and {exp_time = }",
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):
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self.write(
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@@ -89,7 +87,7 @@ class DarkCalibration(VbiTaskBase, QualityMixin):
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encoder=fits_array_encoder,
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)
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with self.
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with self.telemetry_span("Computing and logging quality metrics"):
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no_of_raw_dark_frames: int = self.count(tags=[VbiTag.input(), VbiTag.task_dark_frame()])
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unused_count = no_of_raw_dark_frames - total_dark_frames_used
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self.quality_store_task_type_counts(
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@@ -53,7 +53,7 @@ class GainCalibration(VbiTaskBase, QualityMixin):
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# This is OK (tm) because this will be, at most, 9 4k x 4k arrays. This is a lot (~1G), but not too much.
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step_gain_dict: dict = {}
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with self.
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with self.telemetry_span(
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f"Collecting and reducing gain arrays from {self.constants.num_spatial_steps} steps and {len(self.constants.gain_exposure_times)} exp times",
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):
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for exp_time in self.constants.gain_exposure_times:
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@@ -100,13 +100,13 @@ class GainCalibration(VbiTaskBase, QualityMixin):
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self.total_counts += np.nansum(dark_subtracted_gain_array)
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step_gain_dict[step] = dark_subtracted_gain_array
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with self.
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with self.telemetry_span("normalizing gain arrays"):
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normalized_array_dict = self.normalize_fov(step_gain_dict)
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with self.
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with self.telemetry_span("writing gain arrays to disk"):
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self.write_gain_calibration(normalized_array_dict)
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with self.
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with self.telemetry_span("Computing and logging quality metrics"):
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no_of_raw_gain_frames: int = self.count(
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tags=[
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VbiTag.input(),
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@@ -44,15 +44,15 @@ class MakeVbiMovieFrames(VbiTaskBase):
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None
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"""
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with self.
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with self.telemetry_span("averaging exposures"):
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self.average_all_exposures()
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with self.
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with self.telemetry_span("stitching full FOV frames"):
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for mosaic in range(1, self.constants.num_mosaic_repeats + 1):
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logger.info(f"stitching full FOV for mosaic repeat {mosaic}")
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output_hdl = self.stitch_single_mosaic_repeat(mosaic)
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with self.
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with self.telemetry_span(
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f"writing stitched movie frame for mosaic repeat {mosaic}"
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):
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self.write(
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@@ -145,9 +145,7 @@ class MakeVbiMovieFrames(VbiTaskBase):
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output = np.zeros((size_y, size_x))
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px_count = np.zeros((size_y, size_x))
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with self.
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f"stitching all camera positions together for {mosaic_repeat=}"
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):
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with self.telemetry_span(f"stitching all camera positions together for {mosaic_repeat=}"):
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for o in all_step_access:
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logger.info(f"Placing position {o.current_spatial_step} into full frame")
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self.place_pos_in_full_fov(o, ref_header, output, px_count)
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@@ -34,7 +34,7 @@ class GenerateL1SummitData(VbiTaskBase):
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- Write out
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"""
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# This loop is how we ensure that only completed mosaics get processed.
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with self.
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with self.telemetry_span("Re-tagging INPUT observe frames as CALIBRATED"):
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for mosaic in range(1, self.constants.num_mosaic_repeats + 1):
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for step in range(1, self.constants.num_spatial_steps + 1):
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for file_name in self.read(
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@@ -62,10 +62,10 @@ class VbiQualityL1Metrics(VbiTaskBase, QualityMixin):
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datetimes = []
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noise_values = []
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with self.
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with self.telemetry_span("Calculating VBI L1 quality metrics"):
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for frame in frames:
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datetimes.append(frame.time_obs)
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noise_values.append(self.avg_noise(frame.data))
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with self.
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with self.telemetry_span("Sending lists for storage"):
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self.quality_store_noise(datetimes=datetimes, values=noise_values)
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@@ -49,7 +49,7 @@ class ScienceCalibration(VbiTaskBase, QualityMixin):
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logger.info(
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f"Starting science with {self.constants.num_spatial_steps} steps and {self.constants.num_mosaic_repeats} mosaic repeats"
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)
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with self.
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with self.telemetry_span(
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f"Reducing science frames from {self.constants.num_spatial_steps} steps and {self.constants.num_mosaic_repeats} mosaic repeats",
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):
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for exp_time in self.constants.observe_exposure_times:
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auto_squeeze=False,
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with self.
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with self.telemetry_span("dark and gain corrections"):
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logger.info(f"subtracting dark from {apm_str}")
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sci_access = subtract_array_from_fits_access(
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access_objs=sci_access, array_to_subtract=dark_calibration_array
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access_objs=sci_access, array_to_divide_by=gain_calibration_array
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)
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with self.
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with self.telemetry_span("writing calibrated science frames"):
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for i, access_obj in enumerate(sci_access):
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exp_num = access_obj.current_mosaic_step_exp
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logger.info(f"Writing output for {apm_str} and {exp_num = }")
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self.write_calibrated_fits_obj(access_obj, mosaic, step)
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with self.
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with self.telemetry_span("Computing and logging quality metrics"):
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no_of_raw_obs_frames: int = self.count(
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tags=[
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VbiTag.input(),
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@@ -96,6 +96,10 @@ class VbiS122Headers(Spec122Dataset):
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self.add_constant_key("VBI__003", num_steps)
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self.add_constant_key("VBI__007", num_exp_per_step)
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self.add_constant_key("DKIST008", DKIST008_value)
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self.add_constant_key("ID___014", "v1") # hls_version
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self.add_constant_key("TELTRACK", "Fixed Solar Rotation Tracking")
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self.add_constant_key("TTBLTRCK", "fixed angle on sun")
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self.add_constant_key("TELSCAN", "Raster")
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@key_function("VBI__004")
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def spatial_step(self, key: str) -> int:
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array_shape, num_steps=num_steps, num_exp_per_step=num_exp_per_step, num_dsps_repeats=1
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)
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self.add_constant_key("DKIST004", TaskName.dark.value)
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self.add_constant_key("PAC__002", "clear")
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self.add_constant_key("PAC__003", "off")
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self.add_constant_key("PAC__004", "clear")
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self.add_constant_key("PAC__005", "10.")
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self.add_constant_key("PAC__006", "clear")
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self.add_constant_key("PAC__007", "20.")
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self.add_constant_key("PAC__008", "FieldStop (5arcmin)")
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class Vbi122GainFrames(VbiS122Headers):
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spec214_validator.validate(f, extra=False)
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def setup_APM_config() -> None:
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mesh_config = {
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"system-monitoring-log-apm": {
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"mesh_address": "system-monitoring-log-apm.service.sim.consul",
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"mesh_port": 8200,
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},
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"automated-processing-scratch-inventory": {"mesh_address": "localhost", "mesh_port": 6379},
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"internal-api-gateway": {"mesh_address": "localhost", "mesh_port": 80},
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}
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apm_options = {"TRANSACTION_MAX_SPANS": 10000}
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os.environ["MESH_CONFIG"] = json.dumps(mesh_config)
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os.environ["ELASTIC_APM_ENABLED"] = "true"
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os.environ["ELASTIC_APM_OTHER_OPTIONS"] = json.dumps(apm_options)
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def l0_pipeline_workflow(manual_processing_run: ManualProcessing) -> None:
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manual_processing_run.run_task(task=ShowExposureTimes)
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manual_processing_run.run_task(task=VbiQualityL0Metrics)
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skip_movie: bool = False,
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only_translate: bool = False,
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science_workflow_name: str = "l0_processing",
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use_apm: bool = False,
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if use_apm:
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setup_APM_config()
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science_func_dict = {
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"l0_pipeline": l0_pipeline_workflow,
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"summit_data_processed": summit_data_processing_workflow,
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"-t", "--only-translate", help="Do ONLY the translation step", action="store_true"
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)
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parser.add_argument("-M", "--skip-movie", help="Skip making output movie", action="store_true")
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parser.add_argument("-A", "--use-apm", help="Send APM spans to SIM", action="store_true")
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sys.exit(
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skip_movie=args.skip_movie,
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science_workflow_name=args.workflow_name,
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)
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Metadata-Version: 2.4
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Name: dkist-processing-vbi
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Version: 1.
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Version: 1.25.1
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Summary: Processing code for the VBI instrument on DKIST
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Author-email: NSO / AURA <dkistdc@nso.edu>
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License: BSD-3-Clause
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Classifier: Programming Language :: Python :: 3.12
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Requires-Python: >=3.12
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Description-Content-Type: text/x-rst
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Requires-Dist: dkist-processing-common==11.
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Requires-Dist: dkist-processing-common==11.7.0
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Requires-Dist: dkist-header-validator==5.2.1
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Requires-Dist: dkist-fits-specifications==4.17.0
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Requires-Dist: dkist-spectral-lines==3.0.0
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Requires-Dist: dkist-service-configuration==
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Requires-Dist: dkist-service-configuration==4.1.7
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Requires-Dist: Flask-Babel==2.0.0; extra == "frozen"
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Requires-Dist: Flask-JWT-Extended==4.7.1; extra == "frozen"
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Requires-Dist: Flask-Limiter==3.12; extra == "frozen"
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Requires-Dist: Flask-Login==0.6.3; extra == "frozen"
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Requires-Dist: Flask-SQLAlchemy==2.5.1; extra == "frozen"
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Requires-Dist: Flask-Session==0.5.0; extra == "frozen"
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Requires-Dist: Flask-WTF==1.2.2; extra == "frozen"
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Requires-Dist: MarkupSafe==3.0.
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Requires-Dist: MarkupSafe==3.0.3; extra == "frozen"
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Requires-Dist: PeakUtils==1.3.5; extra == "frozen"
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* - Variable
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- Field Info
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* - LOGURU_LEVEL
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- annotation=str required=False default='INFO' alias_priority=2 validation_alias='LOGURU_LEVEL' description='Log level for the application'
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- annotation=dict[str, MeshService] required=False default_factory=dict alias_priority=2 validation_alias='MESH_CONFIG' description='Service mesh configuration' examples=[{'upstream_service_name': {'mesh_address': 'localhost', 'mesh_port': 6742}}]
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- annotation=str required=False default='unknown-service-version' alias_priority=2 validation_alias='DKIST_SERVICE_VERSION' description='Service version for OpenTelemetry'
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- annotation=str required=False default='unknown-allocation-id' alias_priority=2 validation_alias='NOMAD_ALLOC_ID' description='Nomad allocation ID for OpenTelemetry'
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* - OTEL_EXPORTER_OTLP_TRACES_INSECURE
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- annotation=bool required=False default=True description='Use insecure connection for OTLP metrics'
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- annotation=Union[str, NoneType] required=False default=None description='OTLP traces endpoint. Overrides mesh configuration' examples=['localhost:4317']
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* - OTEL_EXPORTER_OTLP_METRICS_ENDPOINT
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- annotation=Union[str, NoneType] required=False default=None description='OTLP metrics endpoint. Overrides mesh configuration' examples=['localhost:4317']
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* - OTEL_PYTHON_DISABLED_INSTRUMENTATIONS
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- annotation=list[str] required=False default_factory=list description='List of instrumentations to disable. https://opentelemetry.io/docs/zero-code/python/configuration/' examples=[['pika', 'requests']]
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- annotation=str required=False default='health' description='Comma separated list of URLs to exclude from OpenTelemetry instrumentation in FastAPI.' examples=['client/.*/info,healthcheck']
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- annotation=Union[dict[str, bool], NoneType] required=False default=None description='Configuration for system metric instrumentation. https://opentelemetry-python-contrib.readthedocs.io/en/latest/instrumentation/system_metrics/system_metrics.html' examples=[{'system.memory.usage': ['used', 'free', 'cached'], 'system.cpu.time': ['idle', 'user', 'system', 'irq'], 'system.network.io': ['transmit', 'receive'], 'process.runtime.memory': ['rss', 'vms'], 'process.runtime.cpu.time': ['user', 'system'], 'process.runtime.context_switches': ['involuntary', 'voluntary']}]
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-----------
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dkist_processing_vbi/parsers/vbi_l1_fits_access.py,sha256=sV23IrQvDtRGK6wQyJiNKv5OFcAcP-gboUY3JprxnFE,995
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dkist_processing_vbi-1.25.1.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
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dkist_processing_vbi-1.25.1.dist-info/top_level.txt,sha256=0haPknO-Vs_9QzeelcUGELlVwvJ28UeH5uQnBF2w5nQ,45
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{dkist_processing_vbi-1.24.1.dist-info → dkist_processing_vbi-1.25.1.dist-info}/top_level.txt
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