aignostics 0.2.231__tar.gz → 0.2.232__tar.gz

{aignostics-0.2.231 → aignostics-0.2.232}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: aignostics
-Version: 0.2.231
+Version: 0.2.232
 Summary: 🔬 Python SDK providing access to the Aignostics Platform. Includes Aignostics Launchpad (Desktop Application), Aignostics CLI (Command-Line Interface), example notebooks, and Aignostics Client Library.
 Project-URL: Homepage, https://aignostics.readthedocs.io/en/latest/
 Project-URL: Documentation, https://aignostics.readthedocs.io/en/latest/
@@ -49,6 +49,7 @@ Classifier: Programming Language :: Python :: 3.13
 Classifier: Programming Language :: Python :: 3.14
 Classifier: Typing :: Typed
 Requires-Python: <3.15,>=3.11
+Requires-Dist: aiohttp>=3.12.14
 Requires-Dist: boto3<2,>=1.42.4
 Requires-Dist: certifi>=2025.11.12
 Requires-Dist: crc32c<3,>=2.8
@@ -59,7 +60,8 @@ Requires-Dist: duckdb<=2,>=1.4.2
 Requires-Dist: fastapi[all,standard]>=0.123.10
 Requires-Dist: fastparquet>=2024.11.0; python_version < '3.14'
 Requires-Dist: google-cloud-storage<4,>=3.6.0
-Requires-Dist: highdicom<1,>=0.26.1
+Requires-Dist: h11>=0.16.0
+Requires-Dist: highdicom<1,>=0.26.1; python_version < '3.14'
 Requires-Dist: html-sanitizer<3,>=2.6.0
 Requires-Dist: httpx<1,>=0.28.1
 Requires-Dist: humanize<5,>=4.14.0
@@ -68,11 +70,13 @@ Requires-Dist: ijson<4,>=3.4.0.post0
 Requires-Dist: jsf<1,>=0.11.2
 Requires-Dist: jsonschema[format-nongpl]<5,>=4.25.1
 Requires-Dist: loguru<1,>=0.7.3
+Requires-Dist: lxml>=6.0.2
 Requires-Dist: nicegui[native]<4,>=3.4.0
 Requires-Dist: openslide-bin<5,>=4.0.0.10
 Requires-Dist: openslide-python<2,>=1.4.3
 Requires-Dist: packaging<26,>=25.0
 Requires-Dist: pandas<3,>=2.3.3
+Requires-Dist: pillow>=11.3.0
 Requires-Dist: platformdirs<5,>=4.3.2
 Requires-Dist: platformdirs<5,>=4.5.1
 Requires-Dist: procrastinate>=3.5.3
@@ -85,23 +89,30 @@ Requires-Dist: pywin32<312,>=311; sys_platform == 'win32'
 Requires-Dist: pyyaml<7,>=6.0.3
 Requires-Dist: requests-oauthlib<3,>=2.0.0
 Requires-Dist: requests<3,>=2.32.5
+Requires-Dist: rfc3987; sys_platform == 'never'
 Requires-Dist: s5cmd<1,>=0.3.3
 Requires-Dist: semver<4,>=3.0.4
 Requires-Dist: sentry-sdk<3,>=2.47.0
 Requires-Dist: shapely<3,>=2.1.2
+Requires-Dist: starlette>=0.47.2
+Requires-Dist: starlette>=0.49.1
 Requires-Dist: tenacity<10,>=9.1.2
+Requires-Dist: tornado>=6.5.0
 Requires-Dist: tqdm<5,>=4.67.1
 Requires-Dist: truststore<1,>=0.10.4
 Requires-Dist: typer<1,>=0.20.0
 Requires-Dist: uptime<4,>=3.0.1
 Requires-Dist: urllib3<3,>=2.6.1
+Requires-Dist: urllib3>=2.5.0
 Requires-Dist: wsidicom<1,>=0.28.1
 Provides-Extra: jupyter
+Requires-Dist: jupyter-core>=5.8.1; extra == 'jupyter'
 Requires-Dist: jupyter<2,>=1.1.1; extra == 'jupyter'
+Requires-Dist: jupyterlab>=4.4.9; extra == 'jupyter'
 Provides-Extra: marimo
 Requires-Dist: cloudpathlib<1,>=0.23.0; extra == 'marimo'
 Requires-Dist: ipython<10,>=9.8.0; extra == 'marimo'
-Requires-Dist: marimo<1,>=0.18.3; extra == 'marimo'
+Requires-Dist: marimo<1,>=0.18.4; extra == 'marimo'
 Requires-Dist: matplotlib<4,>=3.10.7; extra == 'marimo'
 Requires-Dist: shapely<3,>=2.1.0; extra == 'marimo'
 Provides-Extra: pyinstaller

{aignostics-0.2.231 → aignostics-0.2.232}/examples/notebook.py

@@ -2,7 +2,7 @@
 # requires-python = ">=3.13"
 # dependencies = [
 #     "marimo",
-#     "aignostics==0.2.231",
+#     "aignostics==0.2.232",
 # ]
 # ///
 

{aignostics-0.2.231 → aignostics-0.2.232}/pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "aignostics"
-version = "0.2.231"
+version = "0.2.232"
 description = "🔬 Python SDK providing access to the Aignostics Platform. Includes Aignostics Launchpad (Desktop Application), Aignostics CLI (Command-Line Interface), example notebooks, and Aignostics Client Library."
 readme = "README.md"
 authors = [
@@ -71,6 +71,7 @@ classifiers = [
     "Natural Language :: English",
 ]
 
+# WARNING: The upper bound of requires-python is *not* respected by uvx
 requires-python = ">=3.11, <3.15"
 
 dependencies = [
@@ -96,7 +97,7 @@ dependencies = [
     "duckdb>=1.4.2,<=2",
     "google-cloud-storage>=3.6.0,<4",
     "crc32c>=2.8,<3", # TODO(Helmut): Remove and back to google_crc32c when that supports Python 3.14
-    "highdicom>=0.26.1,<1",
+    "highdicom>=0.26.1,<1; python_version < '3.14'", # transitive dependency pyjpegls not yet supporting Python 3.14
     "html-sanitizer>=2.6.0,<3",
     "httpx>=0.28.1,<1",
     "idc-index-data==23.0.1",
@@ -124,15 +125,32 @@ dependencies = [
     "truststore>=0.10.4,<1",
     "urllib3>=2.6.1,<3",
     "wsidicom>=0.28.1,<1",
+    # Transitive overrides
+    # WARNING: one cannot negate or downgrade a dependency required here. use override-dependencies for that.
+    "rfc3987; sys_platform == 'never'", # GPLv3
+    "h11>=0.16.0",                      # CVE-2025-43859
+    "tornado>=6.5.0",                   # CVE-2025-47287
+    "urllib3>=2.5.0",                   # CVE-2025-50181, CVE-2025-50182,
+    "pillow>=11.3.0",                   # CVE-2025-48379,
+    "aiohttp>=3.12.14",                 # CVE-2025-53643
+    "starlette>=0.47.2",                # CVE-2025-54121
+    "starlette>=0.49.1",                # GHSA-7f5h-v6xp-fcq8
+    "lxml>=6.0.2",                      # For python 3.14 pre-built wheels
 ]
 
 [project.optional-dependencies]
 pyinstaller = ["pyinstaller>=6.14.0,<7"]
-jupyter = ["jupyter>=1.1.1,<2"]
+jupyter = [
+    "jupyter>=1.1.1,<2",    
+    # Transitive overrides
+    # WARNING: one cannot negate or downgrade a dependency required here. use override-dependencies for that.
+    "jupyter-core>=5.8.1",              # CVE-2025-30167
+    "jupyterlab>=4.4.9",                # CVE-2025-59842
+]
 marimo = [
     "cloudpathlib>=0.23.0,<1",
     "ipython>=9.8.0,<10",
-    "marimo>=0.18.3,<1",
+    "marimo>=0.18.4,<1",
     "matplotlib>=3.10.7,<4",
     "shapely>=2.1.0,<3",
 ]
@@ -185,27 +203,18 @@ dev = [
     "types-pyyaml>=6.0.12.20250915,<7",
     "types-requests>=2.32.4.20250913,<3",
     "watchdog>=6.0.0,<7",
+    # Transitive overrides
+    # WARNING: one cannot negate or downgrade a dependency required here. use override-dependencies for that.
+    "pip>=5.3",                         # CVE-2025-8869  
+    "uv>=0.9.7",                        # CVE-2025-54368, GHSA-w476-p2h3-79g9, GHSA-pqhf-p39g-3x64
+    "fonttools>=4.60.2",                # CVE-2025-66034 (GHSA-768j-98cg-p3fv), dep of matplotlib
 ]
 
 [tool.uv]
 required-version = ">=0.9.7" # CVE-2025-54368, GHSA-w476-p2h3-79g9, GHSA-pqhf-p39g-3x64
+# WARNING: override-dependencies is *not* respected by uvx
 override-dependencies = [ # https://github.com/astral-sh/uv/issues/4422
-    "rfc3987; sys_platform == 'never'", # GPLv3
-    "h11>=0.16.0",                      # CVE-2025-43859
-    "tornado>=6.5.0",                   # CVE-2025-47287
-    "jupyter-core>=5.8.1",              # CVE-2025-30167
-    "urllib3>=2.5.0",                   # CVE-2025-50181, CVE-2025-50182,
-    "pillow>=11.3.0",                   # CVE-2025-48379,
-    "aiohttp>=3.12.14",                 # CVE-2025-53643
-    "starlette>=0.47.2",                # CVE-2025-54121
-    "uv>=0.9.7",                        # CVE-2025-54368, GHSA-w476-p2h3-79g9, GHSA-pqhf-p39g-3x64
-    "jupyterlab>=4.4.9",                # CVE-2025-59842
-    "pip>=5.3",                         # CVE-2025-8869  
-    "starlette>=0.49.1",                # GHSA-7f5h-v6xp-fcq8
-    "fonttools>=4.60.2",                # CVE-2025-66034 (GHSA-768j-98cg-p3fv), dep of matplotlib
-    "pyjpegls; python_version < '3.14'", # No Python 3.14 support yet
-    "pytest>=9.0.1",                    # pytest-md-report depends on pytest<9 unnecessarily
-    "lxml>=6.0.2",                      # For python 3.14 pre-built wheels
+    "pytest>=9.0.1",    # pytest-md-report depends on pytest<9 unnecessarily
 ]
 
 [tool.uv.sources]
@@ -386,7 +395,7 @@ source = ["src/"]
 
 
 [tool.bumpversion]
-current_version = "0.2.231"
+current_version = "0.2.232"
 parse = "(?P<major>\\d+)\\.(?P<minor>\\d+)\\.(?P<patch>\\d+)"
 serialize = ["{major}.{minor}.{patch}"]
 search = "{current_version}"

{aignostics-0.2.231 → aignostics-0.2.232}/src/aignostics/utils/_gui.py

@@ -73,6 +73,12 @@ def gui_run(  # noqa: PLR0913, PLR0917
         native = False
         show = True
 
+    # On Windows with python 3.14 don't use native mode due to pythonnet not yet
+    # supported
+    if native and platform.system() == "Windows" and platform.python_version_tuple() >= ("3", "14"):
+        native = False
+        show = True
+
     gui_register_pages()
 
     ui.run(

{aignostics-0.2.231 → aignostics-0.2.232}/src/aignostics/wsi/_cli.py

@@ -12,6 +12,33 @@ from aignostics.utils import console
 from ._service import Service
 from ._utils import print_slide_info, print_study_info
 
+# Python version for highdicom compatibility check
+_PYTHON_VERSION = f"{sys.version_info.major}.{sys.version_info.minor}"
+_HIGHDICOM_UNSUPPORTED_VERSIONS = {"3.14"}
+
+
+def _check_highdicom_available() -> bool:
+    """Check if highdicom is available (not supported on Python 3.14+).
+
+    Returns:
+        True if highdicom can be imported, False otherwise.
+    """
+    try:
+        from ._pydicom_handler import PydicomHandler  # noqa: PLC0415, F401
+
+        return True
+    except ImportError:
+        return False
+
+
+def _print_highdicom_unsupported_error() -> None:
+    """Print error message when highdicom is not available."""
+    console.print(f"[red]This command requires 'highdicom' which is not available on Python {_PYTHON_VERSION}.[/red]")
+    console.print("[yellow]Please run with Python 3.13 or earlier:[/yellow]")
+    console.print("[green]  uvx -p 3.13 aignostics wsi dicom <command> ...[/green]")
+    sys.exit(1)
+
+
 cli = typer.Typer(name="wsi", help="Operations on whole slide images.")
 
 
@@ -107,6 +134,10 @@ def dicom_inspect(
     summary: Annotated[bool, typer.Option(help="Show only summary information")] = False,
 ) -> None:  # pylint: disable=W0613
     """Inspect DICOM files at any hierarchy level."""
+    if not _check_highdicom_available():
+        _print_highdicom_unsupported_error()
+        return
+
     from ._pydicom_handler import PydicomHandler  # noqa: PLC0415
 
     try:
@@ -139,6 +170,10 @@ def dicom_geojson_import(
     geojson_path: Annotated[Path, typer.Argument(help="Path to the GeoJSON file", exists=True)],
 ) -> None:  # pylint: disable=W0613
     """Import GeoJSON annotations into DICOM ANN instance."""
+    if not _check_highdicom_available():
+        _print_highdicom_unsupported_error()
+        return
+
     from ._pydicom_handler import PydicomHandler  # noqa: PLC0415
 
     try: