dkist-processing-cryonirsp 2.0.0rc3__tar.gz → 2.0.2__tar.gz

dkist_processing_cryonirsp-2.0.2/.snyk

@@ -0,0 +1,13 @@
+# Snyk (https://snyk.io) policy file, patches or ignores known vulnerabilities
+# https://docs.snyk.io/manage-risk/policies/the-.snyk-file#syntax-of-the-.snyk-file
+version: v1.25.0
+ignore:
+  SNYK-PYTHON-APACHEAIRFLOWCORE-17879182:
+    - "*" :
+        reason: 'Patched in Airflow 3.3.0, but we are not ready to upgrade till 3.3.1 or later'
+        expires: '2027-07-07T00:00:00.000Z'
+  SNYK-PYTHON-APACHEAIRFLOWCORE-17933331:
+    - '*':
+        reason: 'Ignored by bulk CI/CD Snyk policy update'
+        expires: '2099-12-31T23:59:59.999Z'
+        created: '2026-07-10T15:53:27.931Z'

{dkist_processing_cryonirsp-2.0.0rc3 → dkist_processing_cryonirsp-2.0.2}/CHANGELOG.rst

@@ -1,3 +1,53 @@
+v2.0.2 (2026-07-28)
+===================
+
+Misc
+----
+
+- Replace the named tuple ExposureConditions with a Pydantic BaseModel of the same name.
+  To be added to the constants database, ExposureConditions are converted to a simple tuple.
+  When retrieved from the constants database, the tuples are converted back to model instances. (`#280 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/280>`__)
+- Replace the named tuples PolarimetricValueDataContainer and DarkTaskTestAndExposureConditionsContainer
+  with dataclasses PolarimetricValueData and DarkTaskTestAndExposureConditions, respectively. (`#280 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/280>`__)
+
+
+v2.0.1 (2026-07-22)
+===================
+
+Misc
+----
+
+- Update dkist-inventory to 1.11.9 which populates tile count for trial runs. (`#296 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/296>`__)
+
+
+v2.0.0 (2026-07-17)
+===================
+
+Features
+--------
+
+- Compute spectral shift calculations on smoothed/filtered spectral derivatives of the reference and target spectra. This
+  amplifies the spectral signal and greatly improves the accuracy of the individual shift measurements. (`#292 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/292>`__)
+- The calculation of a single spectral shift is now *only* via interpolation of the correlation signal between the reference
+  and target spectra. Previously a second refinement of this value was done via a chi-squared minimization, but this was shown
+  to increase noise with no increase in accuracy. (`#292 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/292>`__)
+
+
+Bugfixes
+--------
+
+- Filter out non-finite values and use `resize_arrays_local_mean` to average arrays in the instrument polarization
+  task instead of `resize_arrays`. With an output shape of `(1,1)`, `resize_arrays` returns the center pixel. (`#290 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/290>`__)
+
+
+Misc
+----
+
+- Add option to all local trial workflows (``--parameter-doc``) that uses an existing input dataset parameter-part document
+  to populate the parameters during a local run. This is an easy way for a user to run a pipeline locally using the exact
+  parameters used in production. (`#292 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/292>`__)
+
+
 v1.19.19 (2026-06-22)
 =====================
 

{dkist_processing_cryonirsp-2.0.0rc3 → dkist_processing_cryonirsp-2.0.2}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: dkist-processing-cryonirsp
-Version: 2.0.0rc3
+Version: 2.0.2
 Summary: Science processing code for the Cryo-NIRSP instrument on DKIST
 Author-email: NSO / AURA <dkistdc@nso.edu>
 License: BSD-3-Clause
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@@ -289,7 +291,7 @@ Requires-Dist: python-dotenv==1.2.2; extra == "frozen"
 Requires-Dist: python-json-logger==4.1.0; extra == "frozen"
 Requires-Dist: python-multipart==0.0.32; extra == "frozen"
 Requires-Dist: python-slugify==8.0.4; extra == "frozen"
-Requires-Dist: pytz==2026.2; extra == "frozen"
+Requires-Dist: pytz==2026.3.post1; extra == "frozen"
 Requires-Dist: pyzmq==27.1.0; extra == "frozen"
 Requires-Dist: redis==6.4.0; extra == "frozen"
 Requires-Dist: referencing==0.37.0; extra == "frozen"
@@ -299,9 +301,9 @@ Requires-Dist: rfc3986-validator==0.1.1; extra == "frozen"
 Requires-Dist: rfc3987-syntax==1.1.0; extra == "frozen"
 Requires-Dist: rich==15.0.0; extra == "frozen"
 Requires-Dist: rich-argparse==1.8.0; extra == "frozen"
-Requires-Dist: rich-toolkit==0.20.1; extra == "frozen"
+Requires-Dist: rich-toolkit==0.20.3; extra == "frozen"
 Requires-Dist: rpds-py==2026.6.3; extra == "frozen"
-Requires-Dist: s3transfer==0.19.0; extra == "frozen"
+Requires-Dist: s3transfer==0.19.2; extra == "frozen"
 Requires-Dist: scikit-image==0.25.2; extra == "frozen"
 Requires-Dist: scikit-learn==1.9.0; extra == "frozen"
 Requires-Dist: scipy==1.15.3; extra == "frozen"
@@ -311,14 +313,14 @@ Requires-Dist: shellingham==1.5.4; extra == "frozen"
 Requires-Dist: six==1.17.0; extra == "frozen"
 Requires-Dist: sniffio==1.3.1; extra == "frozen"
 Requires-Dist: solar-wavelength-calibration==2.0.3; extra == "frozen"
-Requires-Dist: soupsieve==2.8.4; extra == "frozen"
+Requires-Dist: soupsieve==2.9.1; extra == "frozen"
 Requires-Dist: sqids==0.5.1; extra == "frozen"
 Requires-Dist: sqlparse==0.5.5; extra == "frozen"
 Requires-Dist: stack-data==0.6.3; extra == "frozen"
 Requires-Dist: starlette==0.52.1; extra == "frozen"
 Requires-Dist: structlog==26.1.0; extra == "frozen"
 Requires-Dist: sunpy==6.1.1; extra == "frozen"
-Requires-Dist: svcs==25.1.0; extra == "frozen"
+Requires-Dist: svcs==26.1.0; extra == "frozen"
 Requires-Dist: tabulate==0.10.0; extra == "frozen"
 Requires-Dist: talus==1.3.4; extra == "frozen"
 Requires-Dist: tenacity==8.5.0; extra == "frozen"
@@ -326,15 +328,15 @@ Requires-Dist: termcolor==3.3.0; extra == "frozen"
 Requires-Dist: terminado==0.18.1; extra == "frozen"
 Requires-Dist: text-unidecode==1.3; extra == "frozen"
 Requires-Dist: threadpoolctl==3.6.0; extra == "frozen"
-Requires-Dist: tifffile==2026.6.1; extra == "frozen"
+Requires-Dist: tifffile==2026.7.14; extra == "frozen"
 Requires-Dist: tinycss2==1.5.1; extra == "frozen"
 Requires-Dist: tornado==6.5.7; extra == "frozen"
-Requires-Dist: tqdm==4.68.3; extra == "frozen"
+Requires-Dist: tqdm==4.70.0; extra == "frozen"
 Requires-Dist: traitlets==5.15.1; extra == "frozen"
-Requires-Dist: typer==0.26.8; extra == "frozen"
+Requires-Dist: typer==0.27.0; extra == "frozen"
 Requires-Dist: typing-inspection==0.4.2; extra == "frozen"
-Requires-Dist: typing_extensions==4.15.0; extra == "frozen"
-Requires-Dist: tzdata==2026.2; extra == "frozen"
+Requires-Dist: typing_extensions==4.16.0; extra == "frozen"
+Requires-Dist: tzdata==2026.3; extra == "frozen"
 Requires-Dist: tzlocal==5.4.4; extra == "frozen"
 Requires-Dist: uc-micro-py==2.0.0; extra == "frozen"
 Requires-Dist: uncertainties==3.2.3; extra == "frozen"
@@ -342,7 +344,7 @@ Requires-Dist: universal_pathlib==0.3.10; extra == "frozen"
 Requires-Dist: uri-template==1.3.0; extra == "frozen"
 Requires-Dist: urllib3==2.7.0; extra == "frozen"
 Requires-Dist: uuid6==2025.0.1; extra == "frozen"
-Requires-Dist: uvicorn==0.49.0; extra == "frozen"
+Requires-Dist: uvicorn==0.51.0; extra == "frozen"
 Requires-Dist: uvloop==0.22.1; extra == "frozen"
 Requires-Dist: vine==5.1.0; extra == "frozen"
 Requires-Dist: voluptuous==0.16.0; extra == "frozen"
@@ -351,11 +353,11 @@ Requires-Dist: wcwidth==0.8.2; extra == "frozen"
 Requires-Dist: webcolors==25.10.0; extra == "frozen"
 Requires-Dist: webencodings==0.5.1; extra == "frozen"
 Requires-Dist: websocket-client==1.9.0; extra == "frozen"
-Requires-Dist: websockets==16.0; extra == "frozen"
+Requires-Dist: websockets==16.1.1; extra == "frozen"
 Requires-Dist: wirerope==1.0.0; extra == "frozen"
-Requires-Dist: wrapt==2.2.2; extra == "frozen"
+Requires-Dist: wrapt==2.3.0; extra == "frozen"
 Requires-Dist: yamale==6.1.0; extra == "frozen"
-Requires-Dist: yarl==1.24.2; extra == "frozen"
+Requires-Dist: yarl==1.24.5; extra == "frozen"
 Requires-Dist: zipp==4.1.0; extra == "frozen"
 
 dkist-processing-cryonirsp

dkist_processing_cryonirsp-2.0.2/SCIENCE_CHANGELOG.rst

@@ -0,0 +1,39 @@
+v2.0.0 (2026-07-17)
+===================
+
+
+
+
+- Improvements to the calculation of the spectral curvature to make them more robust against noisy input data. This change
+  only affects science data for datasets where the spectral curvature was previously mis-identified. For these datasets this
+  change will correct un-aligned spectral axes in L1 data and improve the quality of gain correction because the solar gain
+  frames will have better removal of solar absorption lines. (`#292 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/292>`__)
+- Demodulation matrices are now derived from a correctly computed average over the full array. Previously, a bug had resulted
+  in the "average" actually just being the value of the central pixel. This change does result in small changes to the derived
+  demodulation matrices, but has been shown to not change L1 data in a substantial way. (`#290 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/290>`__)
+
+v1.8.0 (2025-06-16)
+===================
+
+Misc
+----
+
+- Update the beam alignment code to handle edge effects in determining the shift required to align beams one and two. The final spectra passed to the cross correlation method are now cropped by removing the outside 10% of pixels on each edge. (`#195 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/195>`__)
+
+
+v1.0.0 (2024-08-21)
+===================
+
+Misc
+----
+
+- CRYO-NIRSP processing pipeline data accepted for release to the community.
+
+
+v0.0.1 (2023-08-25)
+===================
+
+Misc
+----
+
+- Initial release of pipeline for science review

{dkist_processing_cryonirsp-2.0.0rc3 → dkist_processing_cryonirsp-2.0.2}/dkist_processing_cryonirsp/models/constants.py

@@ -63,6 +63,11 @@ class CryonirspBudName(StrEnum):
 class CryonirspConstants(ConstantsBase):
     """CryoNIRSP specific constants to add to the common constants."""
 
+    def _build_exposure_conditions_list(self, key: str) -> list[ExposureConditions]:
+        """Fetch exposure conditions from database and rebuild as ExposureConditions objects."""
+        raw_conditions: list[list[float | str]] = self._db_dict[key]
+        return [ExposureConditions.model_validate_json(conditions) for conditions in raw_conditions]
+
     @property
     def arm_id(self) -> str:
         """Arm used to record the data, SP or CI."""
@@ -144,48 +149,38 @@ class CryonirspConstants(ConstantsBase):
     @property
     def dark_exposure_conditions_list(self) -> list[ExposureConditions]:
         """Construct a list of dark frame ExposureConditions tuples for the dataset."""
-        raw_conditions: list[list[float | str]] = self._db_dict[
+        return self._build_exposure_conditions_list(
             CryonirspBudName.dark_exposure_conditions_list.value
-        ]
-        conditions = [ExposureConditions(*item) for item in raw_conditions]
-        return conditions
+        )
 
     @property
     def lamp_gain_exposure_conditions_list(self) -> list[ExposureConditions]:
         """Construct a list of lamp gain ExposureConditions tuples for the dataset."""
-        raw_conditions: list[list[float | str]] = self._db_dict[
+        return self._build_exposure_conditions_list(
             CryonirspBudName.lamp_gain_exposure_conditions_list.value
-        ]
-        conditions = [ExposureConditions(*item) for item in raw_conditions]
-        return conditions
+        )
 
     @property
     def solar_gain_exposure_conditions_list(self) -> list[ExposureConditions]:
         """Construct a list of solar gain ExposureConditions tuples for the dataset."""
-        raw_conditions: list[list[float | str]] = self._db_dict[
+        return self._build_exposure_conditions_list(
             CryonirspBudName.solar_gain_exposure_conditions_list.value
-        ]
-        conditions = [ExposureConditions(*item) for item in raw_conditions]
-        return conditions
+        )
 
     @property
     def observe_exposure_conditions_list(self) -> list[ExposureConditions]:
         """Construct a list of observe ExposureConditions tuples for the dataset."""
-        raw_conditions: list[list[float | str]] = self._db_dict[
+        return self._build_exposure_conditions_list(
             CryonirspBudName.observe_exposure_conditions_list.value
-        ]
-        conditions = [ExposureConditions(*item) for item in raw_conditions]
-        return conditions
+        )
 
     @property
     def polcal_exposure_conditions_list(self) -> list[ExposureConditions]:
         """Construct a list of polcal ExposureConditions tuples for the dataset."""
         if self.correct_for_polarization:
-            raw_conditions: list[list[float | str]] = self._db_dict[
+            return self._build_exposure_conditions_list(
                 CryonirspBudName.polcal_exposure_conditions_list.value
-            ]
-            conditions = [ExposureConditions(*item) for item in raw_conditions]
-            return conditions
+            )
         else:
             return []
 
@@ -194,20 +189,16 @@ class CryonirspConstants(ConstantsBase):
         self,
     ) -> list[ExposureConditions]:
         """Return a list of all exposure times required for all tasks other than dark, polcal, and lamp gain."""
-        raw_conditions: list[list[float | str]] = self._db_dict[
+        return self._build_exposure_conditions_list(
             CryonirspBudName.ci_non_dark_and_non_polcal_and_non_lamp_gain_task_exposure_conditions_list.value
-        ]
-        conditions = [ExposureConditions(*item) for item in raw_conditions]
-        return conditions
+        )
 
     @property
     def sp_non_dark_and_non_polcal_task_exposure_conditions_list(self) -> list[ExposureConditions]:
         """Return a list of all exposure times required for all tasks other than dark and polcal."""
-        raw_conditions: list[list[float | str]] = self._db_dict[
+        return self._build_exposure_conditions_list(
             CryonirspBudName.sp_non_dark_and_non_polcal_task_exposure_conditions_list.value
-        ]
-        conditions = [ExposureConditions(*item) for item in raw_conditions]
-        return conditions
+        )
 
     @property
     def stokes_I_list(self) -> list[str]:

{dkist_processing_cryonirsp-2.0.0rc3 → dkist_processing_cryonirsp-2.0.2}/dkist_processing_cryonirsp/models/exposure_conditions.py

@@ -1,22 +1,14 @@
 """Support classes for exposure conditions."""
 
 from enum import StrEnum
-from typing import NamedTuple
+
+from pydantic import BaseModel
+from pydantic import ConfigDict
 
 # Number of digits used to round the exposure when creating the ExposureConditions tuple in fits_access
 CRYO_EXP_TIME_ROUND_DIGITS: int = 3
 
 
-class ExposureConditions(NamedTuple):
-    """Named tuple to hold exposure time and filter name."""
-
-    exposure_time: float
-    filter_name: str
-
-    def __str__(self):
-        return f"{self.exposure_time}_{self.filter_name}"
-
-
 class AllowableOpticalDensityFilterNames(StrEnum):
     """Enum to implement list of allowable Optical Density Filter names."""
 
@@ -25,3 +17,19 @@ class AllowableOpticalDensityFilterNames(StrEnum):
     G408 = "G408"
     OPEN = "OPEN"
     NONE = "NONE"
+
+
+class ExposureConditions(BaseModel):
+    """Model to validate and hold exposure time and filter name."""
+
+    model_config = ConfigDict(frozen=True)
+
+    exposure_time: float
+    filter_name: AllowableOpticalDensityFilterNames
+
+    def __lt__(self, other):
+        # Compare based on exposure time
+        return self.exposure_time < other.exposure_time
+
+    def __str__(self):
+        return f"{self.exposure_time}_{self.filter_name}"

{dkist_processing_cryonirsp-2.0.0rc3 → dkist_processing_cryonirsp-2.0.2}/dkist_processing_cryonirsp/models/tags.py

@@ -140,7 +140,7 @@ class CryonirspTag(Tag):
         Parameters
         ----------
         exposure_conditions
-            A tuple of (exposure time, filter name)
+            An ExposureConditions object
 
         Returns
         -------

{dkist_processing_cryonirsp-2.0.0rc3 → dkist_processing_cryonirsp-2.0.2}/dkist_processing_cryonirsp/parsers/cryonirsp_l0_fits_access.py

@@ -108,7 +108,8 @@ class CryonirspL0FitsAccess(L0FitsAccess):
         self.filter_name = self.header[CryonirspMetadataKey.filter_name.value].upper()
         # The ExposureConditions are a combination of the exposure time and the OD filter name:
         self.exposure_conditions = ExposureConditions(
-            round(self.fpa_exposure_time_ms, CRYO_EXP_TIME_ROUND_DIGITS), self.filter_name
+            exposure_time=round(self.fpa_exposure_time_ms, CRYO_EXP_TIME_ROUND_DIGITS),
+            filter_name=self.filter_name,
         )
         self.center_wavelength = self.header[CryonirspMetadataKey.center_wavelength]
         self.slit_width = self.header[CryonirspMetadataKey.slit_width]