dkist-processing-cryonirsp 2.1.0rc1__tar.gz → 2.1.2__tar.gz

{dkist_processing_cryonirsp-2.1.0rc1 → dkist_processing_cryonirsp-2.1.2}/CHANGELOG.rst

@@ -1,3 +1,39 @@
+v2.1.2 (2026-09-24)
+===================
+
+Misc
+----
+
+- Use the "level0_spec214" file schema keyword argument in test Datasets.
+  With this keyword, subsequent translation of the resulting headers to
+  Spec 214 is not necessary.  Simplify test functions that generate headers
+  using this change. (`#302 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/302>`__)
+- Use dkist-fits-specifications v4.29.0, which includes the Trend FITS specification.
+  Use dkist-header-validator v6.0.0, a significant refactor that allows multi-HDU objects to be validated.
+  Use dkist-processing-common v14.5.0, which accommodates the changes to the header validator. (`#302 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/302>`__)
+- Validators no longer have validate-and-translate methods.
+  Where still necessary, replace validate-and-translate calls with a call to
+  validate and then a call to translate. (`#302 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/302>`__)
+
+
+v2.1.1 (2026-08-28)
+===================
+
+Features
+--------
+
+- Improve linearization performance by only reading header objects when constructing the ramp sets. (`#301 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/301>`__)
+
+
+v2.1.0 (2026-08-25)
+===================
+
+Misc
+----
+
+- Convert wavelength calibration quality metric generation to the new storage-based framework. (`#295 <https://bitbucket.org/dkistdc/dkist-processing-cryonirsp/pull-requests/295>`__)
+
+
 v2.0.5 (2026-08-14)
 ===================
 

{dkist_processing_cryonirsp-2.1.0rc1 → dkist_processing_cryonirsp-2.1.2}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: dkist-processing-cryonirsp
-Version: 2.1.0rc1
+Version: 2.1.2
 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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+Requires-Dist: rich-toolkit==0.20.5; extra == "frozen"
 Requires-Dist: rpds-py==2026.6.3; extra == "frozen"
 Requires-Dist: s3transfer==0.19.2; extra == "frozen"
 Requires-Dist: scikit-image==0.25.2; extra == "frozen"
@@ -315,11 +315,11 @@ 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==2.9.2; extra == "frozen"
+Requires-Dist: soupsieve==2.10; extra == "frozen"
 Requires-Dist: sqids==0.5.1; extra == "frozen"
 Requires-Dist: sqlparse==0.6.0; extra == "frozen"
 Requires-Dist: stack-data==0.6.3; extra == "frozen"
-Requires-Dist: starlette==1.6.0; extra == "frozen"
+Requires-Dist: starlette==1.7.0; extra == "frozen"
 Requires-Dist: structlog==26.1.0; extra == "frozen"
 Requires-Dist: sunpy==6.1.1; extra == "frozen"
 Requires-Dist: svcs==26.2.0; extra == "frozen"
@@ -329,37 +329,36 @@ Requires-Dist: tenacity==8.5.0; extra == "frozen"
 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==2026.8.23; extra == "frozen"
+Requires-Dist: threadpoolctl==3.7.0; extra == "frozen"
+Requires-Dist: tifffile==2026.9.20; extra == "frozen"
 Requires-Dist: tinycss2==1.5.1; extra == "frozen"
-Requires-Dist: tornado==6.5.8; extra == "frozen"
-Requires-Dist: tqdm==4.70.0; extra == "frozen"
+Requires-Dist: tornado==6.5.10; extra == "frozen"
+Requires-Dist: tqdm==4.70.1; extra == "frozen"
 Requires-Dist: traitlets==5.16.1; extra == "frozen"
-Requires-Dist: typer==0.27.1; extra == "frozen"
+Requires-Dist: typer==0.27.2; extra == "frozen"
 Requires-Dist: typing-inspection==0.4.4; extra == "frozen"
 Requires-Dist: typing_extensions==4.16.0; extra == "frozen"
-Requires-Dist: tzdata==2026.3; extra == "frozen"
+Requires-Dist: tzdata==2026.4; 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"
 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: urllib3==2.8.0; extra == "frozen"
 Requires-Dist: uuid6==2025.0.1; extra == "frozen"
-Requires-Dist: uvicorn==0.52.4; extra == "frozen"
+Requires-Dist: uvicorn==0.53.0; 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"
-Requires-Dist: watchfiles==1.2.0; extra == "frozen"
-Requires-Dist: wcwidth==0.8.2; extra == "frozen"
+Requires-Dist: watchfiles==1.3.0; extra == "frozen"
+Requires-Dist: wcwidth==0.9.1; extra == "frozen"
 Requires-Dist: webcolors==25.10.0; extra == "frozen"
 Requires-Dist: webencodings==0.6.1; extra == "frozen"
-Requires-Dist: websocket-client==1.9.0; extra == "frozen"
-Requires-Dist: websockets==17.0.1; extra == "frozen"
+Requires-Dist: websocket-client==1.9.2; extra == "frozen"
+Requires-Dist: websockets==17.1; extra == "frozen"
 Requires-Dist: wirerope==1.0.0; extra == "frozen"
-Requires-Dist: wrapt==2.3.0; extra == "frozen"
+Requires-Dist: wrapt==2.4.1; extra == "frozen"
 Requires-Dist: yamale==6.1.0; extra == "frozen"
-Requires-Dist: yarl==1.24.5; extra == "frozen"
+Requires-Dist: yarl==1.25.1; extra == "frozen"
 Requires-Dist: zipp==4.1.0; extra == "frozen"
 
 dkist-processing-cryonirsp

{dkist_processing_cryonirsp-2.1.0rc1 → dkist_processing_cryonirsp-2.1.2}/dkist_processing_cryonirsp/tasks/linearity_correction.py

@@ -4,6 +4,8 @@ from dataclasses import dataclass
 from typing import Generator
 
 import numpy as np
+from astropy.io import fits
+from dkist_processing_common.codecs.fits import fits_access_header_decoder
 from dkist_processing_common.codecs.fits import fits_array_encoder
 from dkist_service_configuration.logging import logger
 from numba import njit
@@ -104,22 +106,22 @@ class LinearityCorrection(CryonirspTaskBase):
         Generator which yields _RampSet instances
         """
         for ramp_set_num, time_obs in enumerate(self.constants.time_obs_list):
-            input_objects = list(
+            header_objects = list(
                 self.read(
                     tags=[
                         CryonirspTag.input(),
                         CryonirspTag.frame(),
                         CryonirspTag.time_obs(time_obs),
                     ],
-                    decoder=cryo_fits_access_decoder,
+                    decoder=fits_access_header_decoder,
                     fits_access_class=CryonirspRampFitsAccess,
                 )
             )
 
-            if not self.is_ramp_valid(input_objects):
+            if not self.is_ramp_valid(header_objects):
                 continue
 
-            ramp_set = self.populate_ramp_set(time_obs, ramp_set_num)
+            ramp_set = self.populate_ramp_set(time_obs, ramp_set_num, header_objects)
             yield ramp_set
 
     def is_ramp_valid(self, ramp_object_list: list[CryonirspRampFitsAccess]) -> bool:
@@ -193,32 +195,21 @@ class LinearityCorrection(CryonirspTaskBase):
         fits_obj = fits_obj_list[0]
         return fits_obj
 
-    def get_ordered_exposure_time_list(self, time_obs: str, num_frames_in_ramp: int) -> np.ndarray:
-        """
-        Return a list of exposure times for this ramp, ordered by frame in ramp.
-
-        Parameters
-        ----------
-        time_obs
-            The DATE-OBS value identifying the ramp
-        num_frames_in_ramp
-            The number of frames in the ramp
-
-        Returns
-        -------
-        np.ndarray of the exposure times for the NDRs in the ramp set.
-
-        This method iterates through all the frames in the ramp to construct the list. While this could
-        be incorporated into other methods that iterate through a ramp set, it is kept separate for clarity.
-        We read one frame at a time to not have all the frames in memory simultaneously.
-        """
-        exp_time_list = []
-        for frame_num in range(1, num_frames_in_ramp + 1):
-            fits_obj = self.read_single_ramp_frame(time_obs, frame_num)
-            exp_time_list.append(fits_obj.fpa_exposure_time_ms)
-        return np.array(exp_time_list, dtype=np.float32)
-
-    def populate_ramp_set(self, time_obs: str, idx: int) -> _RampSet | None:
+    @staticmethod
+    def get_frame_shape_from_header(header: fits.Header) -> tuple[int, ...]:
+        """Return the data shape using only FITS header metadata."""
+        axis_key = "ZNAXIS" if "ZNAXIS" in header else "NAXIS"
+        frame_shape = tuple(header[f"{axis_key}{axis}"] for axis in range(header[axis_key], 0, -1))
+        if len(frame_shape) == 3 and frame_shape[0] == 1:
+            frame_shape = frame_shape[1:]
+        return frame_shape
+
+    def populate_ramp_set(
+        self,
+        time_obs: str,
+        idx: int,
+        ramp_object_list: list[CryonirspRampFitsAccess],
+    ) -> _RampSet:
         """
         Populate a _RampSet dataclass for the ramp identified by time_obs.
 
@@ -228,16 +219,21 @@ class LinearityCorrection(CryonirspTaskBase):
             The DATE-OBS value identifying the ramp
         idx
             The index number representing this ramp set out of the total number of ramp sets (zero-based)
+        ramp_object_list
+            Header-only objects for all frames in the ramp
 
         Returns
         -------
         A populated _RampSet object representing the specified ramp in the input data set
 
-        The last frame in the set is read to access the shape of the data frame.
+        All metadata is reused from the header-only objects loaded during ramp validation.
         """
-        actual_num_frames_in_ramp = self.count(CryonirspTag.time_obs(time_obs))
-        exp_times = self.get_ordered_exposure_time_list(time_obs, actual_num_frames_in_ramp)
-        last_frame = self.read_single_ramp_frame(time_obs, actual_num_frames_in_ramp)
+        ordered_objects = sorted(ramp_object_list, key=lambda fo: fo.curr_frame_in_ramp)
+        actual_num_frames_in_ramp = len(ordered_objects)
+        exp_times = np.array(
+            [fits_obj.fpa_exposure_time_ms for fits_obj in ordered_objects], dtype=np.float32
+        )
+        last_frame = ordered_objects[-1]
         ramp_set_num = idx + 1
         # The default list of curr_frame_in_ramp tag numbers to use, which may be altered later on
         frames_to_process = np.array(range(1, actual_num_frames_in_ramp + 1), dtype=int)
@@ -246,7 +242,7 @@ class LinearityCorrection(CryonirspTaskBase):
             time_obs=time_obs,
             num_frames_in_ramp=actual_num_frames_in_ramp,
             exposure_times_ms=exp_times,
-            frame_shape=last_frame.data.shape,
+            frame_shape=self.get_frame_shape_from_header(last_frame.header),
             last_frame_name=last_frame.name,
             last_frame_fits_access=CryonirspRampFitsAccess(header=last_frame.header),
             frames_to_process=frames_to_process,
@@ -301,7 +297,7 @@ class LinearityCorrection(CryonirspTaskBase):
             'LookUpTable','FastCDS','FitUpTheRamp' (ignored if data is line by line)
 
         camera_readout_mode
-            ‘FastUpTheRamp, ‘SlowUpTheRamp’, or 'LineByLine’
+            'FastUpTheRamp', 'SlowUpTheRamp', or 'LineByLine'
 
         lin_curve
             The lincurve array is the set of coefficients for a 3rd order polynomial which represents the overall
@@ -391,7 +387,7 @@ class LinearityCorrection(CryonirspTaskBase):
                 e. Store the linearized chunk in the proper location in the final linearized array
             3. Return the linearized ramp, reshaping it to the original frame shape
         """
-        thresholds_flattened = thresholds.flatten()
+        thresholds_flattened = thresholds.ravel(order="C")
         frame_shape = ramp_set.frame_shape
         linearized_frame = np.zeros(np.prod(frame_shape), dtype=np.float32)
         num_frame_size_elements = int(np.prod(frame_shape))
@@ -463,7 +459,9 @@ class LinearityCorrection(CryonirspTaskBase):
         for frame_num in ramp_set.frames_to_process:
             frame = self.read_single_ramp_frame(ramp_set.time_obs, frame_num).data
             frame_pos_in_stack = frame_num - ramp_set.index_offset_to_first_frame
-            chunk_stack[:current_chunk_size, frame_pos_in_stack] = frame.flatten()[current_slice]
+            chunk_stack[:current_chunk_size, frame_pos_in_stack] = frame.ravel(order="C")[
+                current_slice
+            ]
         return chunk_stack
 
     def compute_linear_chunk_size(self, frame_size_nelem: int, num_frames_in_ramp: int) -> int: