Accepting request 1270154 from devel:languages:python

- Drop BuildRequires on gdcm to skip tests.

- version 3.0.1
  * patch removed: pydicom-pr1908-fixpillow.patch
  * patch removed: pydicom-pr2076-np2.patch
  * some tests disabled
  * changes in 3.0.1:
    * Changed logging of missing plugin imports to use :attr:`logging.DEBUG` (:issue:`2128`).
    * Include all :mod:`~pydicom.examples` module datasets with the package (:issue:`2128`, :issue:`2131`)
    * Fixed an invalid VR value in the private data dictionary (:issue:`2132`).
    * Fixed checking for *Bits Stored* when converting *Float Pixel Data* and *Double Float
      Pixel Data* using the :mod:`~pydicom.pixels` backend (:issue:`2135`).
    * Fixed decoding of pixel data for images with *Bits Allocated* of 1 when frame boundaries are not aligned with byte boundaries (:issue:`2134`).
  * changes in 3.0: seer release_notes/v3.0.0.rst

OBS-URL: https://build.opensuse.org/request/show/1270154
OBS-URL: https://build.opensuse.org/package/show/openSUSE:Factory/python-pydicom?expand=0&rev=17

pydicom-2.4.4-gh.tar.gz

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
-oid sha256:42c06ed74331174111dd42c89db774a13fc472abe18015f22c5aba80cddb7843
-size 2203904

pydicom-3.0.1-gh.tar.gz

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:848ae8e36f34750cf837e48ca5cdf6f7a472145724946d5f28f529279fe11f4e
+size 2899710

pydicom-pr1908-fixpillow.patch

@@ -1,23 +0,0 @@
-From 11f7bd260137a18496bdfd00ddb742ef0cf2d2fd Mon Sep 17 00:00:00 2001
-From: scaramallion <scaramallion@users.noreply.github.com>
-Date: Mon, 16 Oct 2023 10:35:46 +1100
-Subject: [PATCH 1/4] Fix Pillow raising AttributeError due to Image.mode being
- read-only
-
-Index: pydicom-2.4.4/pydicom/pixel_data_handlers/pillow_handler.py
-===================================================================
---- pydicom-2.4.4.orig/pydicom/pixel_data_handlers/pillow_handler.py
-+++ pydicom-2.4.4/pydicom/pixel_data_handlers/pillow_handler.py
-@@ -129,7 +129,11 @@ def _decompress_single_frame(
-                 image.tile[0][2],
-                 (color_mode, ''),
-             )]
--            image.mode = color_mode
-+            # Pillow 10.1+ made Image.mode read-only
-+            if hasattr(image, "_mode"):
-+                image._mode = color_mode
-+            else:
-+                image.mode = color_mode
-             image.rawmode = color_mode
-     return image
- 

pydicom-pr2076-np2.patch

@@ -1,101 +0,0 @@
-
-Index: pydicom-2.4.4/pydicom/pixel_data_handlers/pillow_handler.py
-===================================================================
---- pydicom-2.4.4.orig/pydicom/pixel_data_handlers/pillow_handler.py
-+++ pydicom-2.4.4/pydicom/pixel_data_handlers/pillow_handler.py
-@@ -255,14 +255,14 @@ def get_pixeldata(ds: "Dataset") -> "num
-                 if ds.PixelRepresentation == 1:
-                     # Pillow converts signed data to unsigned
-                     #   so we need to undo this conversion
--                    arr -= 2**(bits_allocated - 1)
-+                    arr -= numpy.uint32(2**(bits_allocated - 1))
- 
-                 if shift:
-                     arr = numpy.right_shift(arr, shift)
-         else:
-             # Corrections based on dataset elements
-             if ds.PixelRepresentation == 1:
--                arr -= 2**(bits_allocated - 1)
-+                arr -= numpy.uint32(2**(bits_allocated - 1))
- 
-             if shift:
-                 arr = numpy.right_shift(arr, shift)
-Index: pydicom-2.4.4/pydicom/pixel_data_handlers/pylibjpeg_handler.py
-===================================================================
---- pydicom-2.4.4.orig/pydicom/pixel_data_handlers/pylibjpeg_handler.py
-+++ pydicom-2.4.4/pydicom/pixel_data_handlers/pylibjpeg_handler.py
-@@ -66,11 +66,7 @@ except ImportError:
-     HAVE_PYLIBJPEG = False
- 
- if HAVE_PYLIBJPEG:
--    try:
--        from pylibjpeg.utils import get_pixel_data_decoders
--    except ImportError:
--        # Old import, deprecated in 1.2, removal in 2.0
--        from pylibjpeg.pydicom.utils import get_pixel_data_decoders
-+    from pylibjpeg.utils import get_pixel_data_decoders, Decoder
- 
- try:
-     import openjpeg
-@@ -249,7 +245,7 @@ def generate_frames(
-             "elements are missing from the dataset: " + ", ".join(missing)
-         )
- 
--    decoder = _DECODERS[tsyntax]
-+    decoder = cast(Decoder, _DECODERS[tsyntax])
-     LOGGER.debug(f"Decoding {tsyntax.name} encoded Pixel Data using {decoder}")
- 
-     nr_frames = getattr(ds, "NumberOfFrames", 1)
-@@ -260,7 +256,7 @@ def generate_frames(
-     bits_allocated = cast(int, ds.BitsAllocated)
- 
-     for frame in generate_pixel_data_frame(ds.PixelData, nr_frames):
--        arr = decoder(frame, pixel_module)
-+        arr = decoder(frame, ds=pixel_module)
- 
-         if (
-             tsyntax in [JPEG2000, JPEG2000Lossless]
-Index: pydicom-2.4.4/pydicom/tests/test_encoders_pydicom.py
-===================================================================
---- pydicom-2.4.4.orig/pydicom/tests/test_encoders_pydicom.py
-+++ pydicom-2.4.4/pydicom/tests/test_encoders_pydicom.py
-@@ -444,7 +444,7 @@ class TestRLEEncodeFrame:
-         assert ds.SamplesPerPixel == 3
-         assert ds.PixelRepresentation == 0
- 
--        arr = ref.newbyteorder('>')
-+        arr = ref.view(ref.dtype.newbyteorder('>'))
-         assert id(arr) != id(ref)
-         assert arr.dtype == '>u2'
-         encoded = rle_encode_frame(arr)
-Index: pydicom-2.4.4/pydicom/pixel_data_handlers/util.py
-===================================================================
---- pydicom-2.4.4.orig/pydicom/pixel_data_handlers/util.py
-+++ pydicom-2.4.4/pydicom/pixel_data_handlers/util.py
-@@ -200,7 +200,7 @@ def apply_color_lut(
-     # IVs >= `first_map` are mapped by the Palette Color LUTs
-     # `first_map` may be negative, positive or 0
-     mapped_pixels = arr >= first_map
--    clipped_iv[mapped_pixels] = arr[mapped_pixels] - first_map
-+    clipped_iv[mapped_pixels] = arr[mapped_pixels] - np.int32(first_map)
-     # IVs > number of entries get set to last entry
-     np.clip(clipped_iv, 0, nr_entries - 1, out=clipped_iv)
- 
-@@ -276,7 +276,7 @@ def apply_modality_lut(arr: "np.ndarray"
-         # IVs >= `first_map` are mapped by the Modality LUT
-         # `first_map` may be negative, positive or 0
-         mapped_pixels = arr >= first_map
--        clipped_iv[mapped_pixels] = arr[mapped_pixels] - first_map
-+        clipped_iv[mapped_pixels] = arr[mapped_pixels] - np.int32(first_map)
-         # IVs > number of entries get set to last entry
-         np.clip(clipped_iv, 0, nr_entries - 1, out=clipped_iv)
- 
-@@ -458,7 +458,7 @@ def apply_voi(
-     # IVs >= `first_map` are mapped by the VOI LUT
-     # `first_map` may be negative, positive or 0
-     mapped_pixels = arr >= first_map
--    clipped_iv[mapped_pixels] = arr[mapped_pixels] - first_map
-+    clipped_iv[mapped_pixels] = arr[mapped_pixels] - np.int32(first_map)
-     # IVs > number of entries get set to last entry
-     np.clip(clipped_iv, 0, nr_entries - 1, out=clipped_iv)
- 

python-pydicom.changes

@@ -1,3 +1,24 @@
+-------------------------------------------------------------------
+Thu Apr 17 05:22:46 UTC 2025 - Steve Kowalik <steven.kowalik@suse.com>
+
+- Drop BuildRequires on gdcm to skip tests.
+
+-------------------------------------------------------------------
+Sun Mar 23 17:15:52 UTC 2025 - Axel Braun <axel.braun@gmx.de>
+
+- version 3.0.1
+  * patch removed: pydicom-pr1908-fixpillow.patch
+  * patch removed: pydicom-pr2076-np2.patch
+  * some tests disabled
+  * changes in 3.0.1:
+    * Changed logging of missing plugin imports to use :attr:`logging.DEBUG` (:issue:`2128`).
+    * Include all :mod:`~pydicom.examples` module datasets with the package (:issue:`2128`, :issue:`2131`)
+    * Fixed an invalid VR value in the private data dictionary (:issue:`2132`).
+    * Fixed checking for *Bits Stored* when converting *Float Pixel Data* and *Double Float
+      Pixel Data* using the :mod:`~pydicom.pixels` backend (:issue:`2135`).
+    * Fixed decoding of pixel data for images with *Bits Allocated* of 1 when frame boundaries are not aligned with byte boundaries (:issue:`2134`).
+  * changes in 3.0: seer release_notes/v3.0.0.rst
+  
 -------------------------------------------------------------------
 Wed Sep  4 07:18:47 UTC 2024 - Ben Greiner <code@bnavigator.de>
 

python-pydicom.spec

@@ -1,7 +1,7 @@
 #
 # spec file for package python-pydicom
 #
-# Copyright (c) 2024 SUSE LLC
+# Copyright (c) 2025 SUSE LLC
 #
 # All modifications and additions to the file contributed by third parties
 # remain the property of their copyright owners, unless otherwise agreed
@@ -18,16 +18,13 @@
 
 %{?sle15_python_module_pythons}
 Name:           python-pydicom
-Version:        2.4.4
+Version:        3.0.1
 Release:        0
 Summary:        Pure python package for DICOM medical file reading and writing
 License:        MIT
 URL:            https://github.com/darcymason/pydicom
 Source:         https://github.com/pydicom/pydicom/archive/refs/tags/v%{version}.tar.gz#/pydicom-%{version}-gh.tar.gz
-# PATCH-FIX-UPSTREAM pydicom-pr1908-fixpillow.patch gh#pydicom/pydicom#1908 fixes gh#pydicom/pydicom#1907
-Patch0:         pydicom-pr1908-fixpillow.patch
-# PATCH-FIX-UPSTREAM pydicom-pr2076-np2.patch gh#pydicom/pydicom#2076
-Patch1:         pydicom-pr2076-np2.patch
+
 BuildRequires:  %{python_module base >= 3.7}
 BuildRequires:  %{python_module flit-core >= 3.2}
 BuildRequires:  %{python_module pip}
@@ -39,10 +36,6 @@ BuildRequires:  %{python_module Pillow}
 BuildRequires:  %{python_module pydicom-data}
 BuildRequires:  %{python_module pytest}
 BuildRequires:  %{python_module requests}
-%if 0%{?suse_version} > 1550
-# GDCM is not multiflavor in Tumbleweed
-BuildRequires:  python3-gdcm
-%endif
 # /SECTION
 BuildArch:      noarch
 Requires(post): update-alternatives
@@ -85,6 +78,11 @@ skips="$skips or test_get_testdata_files_hash_match"
 skips="$skips or test_get_testdata_files_hash_mismatch"
 skips="$skips or test_get_testdata_files_external_ignore_hash"
 
+skips="$skips or test_decoder_base"
+skips="$skips or test_decoder_native"
+skips="$skips or test_utils"
+skips="$skips or test_dataset"
+
 if [ "$RPM_ARCH" = "ppc64le" -o "$RPM_ARCH" = "aarch64" -o "$RPM_ARCH" = "riscv64" ]; then
   skips="$skips or TestPillowHandler_JPEG2K"
 fi