pymmcore-plus 0.12.0__py3-none-any.whl → 0.13.1__py3-none-any.whl

pymmcore_plus/mda/handlers/_tensorstore_handler.py

@@ -9,6 +9,8 @@ from itertools import product
 from os import PathLike
 from typing import TYPE_CHECKING, Any, cast
 
+import numpy as np
+
 from pymmcore_plus.metadata.serialize import json_dumps, json_loads
 
 from ._util import position_sizes
@@ -17,7 +19,6 @@ if TYPE_CHECKING:
     from collections.abc import Mapping, Sequence
     from typing import Literal, TypeAlias
 
-    import numpy as np
     import tensorstore as ts
     import useq
     from typing_extensions import Self  # py311
@@ -234,7 +235,10 @@ class TensorStoreHandler:
         # FIXME: will fail on slices
         indexers = {**(indexers or {}), **indexers_kwargs}
         ts_index = self._event_index_to_store_index(indexers)
-        return self._store[ts_index].read().result().squeeze()  # type: ignore
+        if self._store is None:  # pragma: no cover
+            warnings.warn("No data written.", stacklevel=2)
+            return np.empty([])
+        return self._store[ts_index].read().result().squeeze()  # type: ignore [no-any-return]
 
     def new_store(
         self, frame: np.ndarray, seq: useq.MDASequence | None, meta: FrameMetaV1

pymmcore_plus/metadata/__init__.py

@@ -20,17 +20,17 @@ __all__ = [
     "ConfigPreset",
     "ConfigPreset",
     "DeviceInfo",
-    "frame_metadata",
     "FrameMetaV1",
     "ImageInfo",
-    "json_dumps",
     "PixelSizeConfigPreset",
     "Position",
     "PropertyInfo",
     "PropertyValue",
     "StagePosition",
-    "summary_metadata",
     "SummaryMetaV1",
     "SystemInfo",
+    "frame_metadata",
+    "json_dumps",
+    "summary_metadata",
     "to_builtins",
 ]

pymmcore_plus/metadata/functions.py

@@ -8,9 +8,8 @@ from pymmcore_plus._util import timestamp
 from pymmcore_plus.core._constants import DeviceType, PixelFormat
 
 if TYPE_CHECKING:
-    from typing import Unpack
-
     import useq
+    from typing_extensions import Unpack
 
     from pymmcore_plus.core import CMMCorePlus
 
@@ -36,6 +35,7 @@ if TYPE_CHECKING:
         images_remaining_in_buffer: int
         camera_metadata: dict[str, Any]
         extra: dict[str, Any]
+        position: Position
 
 # -----------------------------------------------------------------
 # These are the two main functions that are called from the outside
@@ -78,10 +78,11 @@ def frame_metadata(
     runner_time_ms: float = -1,
     camera_device: str | None = None,
     property_values: tuple[PropertyValue, ...] = (),
+    include_position: bool = False,
     **kwargs: Unpack[_OptionalFrameMetaKwargs],
 ) -> FrameMetaV1:
     """Return metadata for the current frame."""
-    return {
+    info: FrameMetaV1 = {
         "format": "frame-dict",
         "version": "1.0",
         "runner_time_ms": runner_time_ms,
@@ -89,9 +90,11 @@ def frame_metadata(
         "property_values": property_values,
         "exposure_ms": core.getExposure(),
         "pixel_size_um": core.getPixelSizeUm(cached),
-        "position": position(core),
         **kwargs,
     }
+    if include_position and "position" not in kwargs:
+        info["position"] = position(core)
+    return info
 
 
 # ----------------------------------------------
@@ -213,12 +216,19 @@ def image_infos(core: CMMCorePlus) -> tuple[ImageInfo, ...]:
 def position(core: CMMCorePlus, all_stages: bool = False) -> Position:
     """Return current position of active (and, optionally, all) stages."""
     position: Position = {}
-    with suppress(Exception):
-        position["x"] = core.getXPosition()
-    with suppress(Exception):
-        position["y"] = core.getYPosition()
+
+    try:
+        # single shot faster when it works
+        position["x"], position["y"] = core.getXYPosition()
+    except RuntimeError:
+        with suppress(Exception):
+            position["x"] = core.getXPosition()
+        with suppress(Exception):
+            position["y"] = core.getYPosition()
+
     with suppress(Exception):
         position["z"] = core.getPosition()
+
     if all_stages:
         pos_list: list[StagePosition] = []
         for stage in core.getLoadedDevicesOfType(DeviceType.Stage):

pymmcore_plus/metadata/schema.py

@@ -4,16 +4,16 @@ import useq
 from typing_extensions import NotRequired
 
 __all__ = [
-    "FrameMetaV1",
-    "SummaryMetaV1",
     "ConfigGroup",
     "ConfigPreset",
     "DeviceInfo",
+    "FrameMetaV1",
     "ImageInfo",
     "PixelSizeConfigPreset",
     "Position",
     "PropertyInfo",
     "PropertyValue",
+    "SummaryMetaV1",
     "SystemInfo",
 ]
 
@@ -430,14 +430,15 @@ class FrameMetaV1(TypedDict):
         The label of the camera device used to acquire the image.
     exposure_ms: float
         The exposure time in milliseconds.
-    position: Position
-        The current stage position(s) in 3D space.
     property_values: tuple[PropertyValue, ...]
         Device property settings.  This is not a comprehensive list of all device
         properties, but only those that may have changed for this frame (such as
         properties in the channel config or light path config).
     runner_time_ms: float
         Elapsed time in milliseconds since the beginning of the MDA sequence.
+    position: Position
+        *NotRequired*. The current stage position(s) in 3D space.  This is often slow
+        to retrieve, so its inclusion is optional and left to the implementer.
     mda_event: useq.MDAEvent
         *NotRequired*. The MDA event object that commanded the acquisition of this
         frame.
@@ -461,9 +462,9 @@ class FrameMetaV1(TypedDict):
     pixel_size_um: float
     camera_device: Optional[str]
     exposure_ms: float
-    position: Position
     property_values: tuple[PropertyValue, ...]
     runner_time_ms: float
+    position: NotRequired[Position]
     mda_event: NotRequired[useq.MDAEvent]
     hardware_triggered: NotRequired[bool]
     images_remaining_in_buffer: NotRequired[int]

pymmcore_plus/mocks.py

@@ -0,0 +1,49 @@
+from typing import Any
+from unittest.mock import MagicMock
+
+
+class MockSequenceableCore(MagicMock):
+    """Sequenceable mock for testing."""
+
+    def __init__(self, *args: Any, max_len: int = 100, **kwargs: Any) -> None:
+        super().__init__(*args, **kwargs)
+
+        from pymmcore_plus import CMMCorePlus
+
+        if isinstance(kwargs.get("wraps", None), CMMCorePlus):
+            self.isExposureSequenceable.return_value = True
+            self.getExposureSequenceMaxLength.return_value = max_len
+
+            self.isStageSequenceable.return_value = True
+            self.getStageSequenceMaxLength.return_value = max_len
+
+            self.isXYStageSequenceable.return_value = True
+            self.getXYStageSequenceMaxLength.return_value = max_len
+
+            self.getSLMSequenceMaxLength.return_value = max_len
+            self.getPropertySequenceMaxLength.return_value = max_len
+
+            self.isPropertySequenceable.side_effect = self._isPropertySequenceable
+
+            self.loadExposureSequence.return_value = None
+            self.loadStageSequence.return_value = None
+            self.loadXYStageSequence.return_value = None
+            self.loadSLMSequence.return_value = None
+
+            self.loadPropertySequence.return_value = None
+
+            self.startExposureSequence.return_value = None
+            self.stopExposureSequence.return_value = None
+
+            self.startStageSequence.return_value = None
+            self.stopStageSequence.return_value = None
+
+            self.startXYStageSequence.return_value = None
+            self.stopXYStageSequence.return_value = None
+
+            self.startPropertySequence.return_value = None
+            self.stopPropertySequence.return_value = None
+
+    def _isPropertySequenceable(self, dev: str, prop: str) -> bool:
+        # subclass to implement more interesting behavior
+        return True

pymmcore_plus/model/_config_file.py

@@ -20,7 +20,7 @@ if TYPE_CHECKING:
 
     Executor: TypeAlias = Callable[[Microscope, Sequence[str]], None]
 
-__all__ = ["load_from_string", "dump"]
+__all__ = ["dump", "load_from_string"]
 
 
 def load_from_string(text: str, scope: Microscope | None = None) -> Microscope:

pymmcore_plus/model/_core_device.py

@@ -1,7 +1,7 @@
 from __future__ import annotations
 
 from dataclasses import dataclass, field
-from typing import TYPE_CHECKING
+from typing import TYPE_CHECKING, Any
 
 from pymmcore_plus import CMMCorePlus, DeviceType, Keyword
 
@@ -50,6 +50,15 @@ class CoreDevice(Device):
     def __post_init__(self) -> None:
         self.CORE_GETTERS = {}
 
+    def __setstate__(self, state: dict[str, Any]) -> None:
+        super().__setstate__(state)
+        prop_objects = []
+        for prop in self.properties:
+            if isinstance(prop, dict):
+                prop = Property(**prop)
+            prop_objects.append(prop)
+        self.properties = prop_objects
+
     def __hash__(self) -> int:
         return super().__hash__()
 

pymmcore_plus/model/_device.py

@@ -2,7 +2,7 @@ from __future__ import annotations
 
 import dataclasses
 from contextlib import suppress
-from dataclasses import dataclass, field
+from dataclasses import asdict, dataclass, field
 from typing import TYPE_CHECKING
 
 from pymmcore_plus import CMMCorePlus, DeviceType, FocusDirection, Keyword
@@ -193,11 +193,7 @@ class Device(CoreObject):
             raise RuntimeError(f"Device {self.name} is not loaded in the core.")
 
         self.device_type = core.getDeviceType(self.name)
-        self.CORE_GETTERS = {
-            DeviceType.StateDevice: STATE_DEVICE_GETTERS,
-            DeviceType.StageDevice: STAGE_DEVICE_GETTERS,
-            DeviceType.Hub: HUB_DEVICE_GETTERS,
-        }.get(self.device_type, DEVICE_GETTERS)
+        self._update_core_getters()
 
         super().update_from_core(core, exclude=exclude, on_err=on_err)
         self.properties = [
@@ -205,6 +201,21 @@ class Device(CoreObject):
             for prop_name in core.getDevicePropertyNames(self.name)
         ]
 
+    # pulled out for the sake of picklability
+    def _update_core_getters(self) -> None:
+        self.CORE_GETTERS = {
+            DeviceType.StateDevice: STATE_DEVICE_GETTERS,
+            DeviceType.StageDevice: STAGE_DEVICE_GETTERS,
+            DeviceType.Hub: HUB_DEVICE_GETTERS,
+        }.get(self.device_type, DEVICE_GETTERS)
+
+    def __reduce__(self) -> str | tuple[Any, ...]:
+        return self.__class__, (), asdict(self)
+
+    def __setstate__(self, state: dict[str, Any]) -> None:
+        self.__dict__.update(state)
+        self._update_core_getters()
+
     def load(self, core: CMMCorePlus, *, reload: bool = False) -> None:
         """Load device properties from the core."""
         if reload and self.name in core.getLoadedDevices():

pymmcore_plus/model/_property.py

@@ -1,7 +1,7 @@
 from __future__ import annotations
 
-from dataclasses import dataclass, field
-from typing import TYPE_CHECKING
+from dataclasses import asdict, dataclass, field
+from typing import TYPE_CHECKING, Any
 
 from pymmcore_plus import CMMCorePlus, PropertyType
 
@@ -53,6 +53,15 @@ class Property(CoreObject):
             "exists": CMMCorePlus.hasProperty,
         }
 
+    def __reduce__(self) -> tuple:
+        # Return the class, arguments for __init__, and any state to restore
+        state = asdict(self)
+        return self.__class__, (self.device_name, self.name), state
+
+    def __setstate__(self, state: dict[str, Any]) -> None:
+        # Restore the state of the object
+        self.__dict__.update(state)
+
     def _core_args(self) -> tuple[str, str]:
         # the first two args to all of the funcs in CORE_GETTERS
         return self.device_name, self.name

pymmcore_plus/seq_tester.py

@@ -41,7 +41,7 @@ if TYPE_CHECKING:
     import numpy as np
     from typing_extensions import Self  # py311
 
-__all__ = ["CameraInfo", "Setting", "SettingEvent", "InfoPacket", "decode_image"]
+__all__ = ["CameraInfo", "InfoPacket", "Setting", "SettingEvent", "decode_image"]
 
 
 @dataclass

{pymmcore_plus-0.12.0.dist-info → pymmcore_plus-0.13.1.dist-info}/METADATA

@@ -1,6 +1,6 @@
-Metadata-Version: 2.3
+Metadata-Version: 2.4
 Name: pymmcore-plus
-Version: 0.12.0
+Version: 0.13.1
 Summary: pymmcore superset providing improved APIs, event handling, and a pure python acquisition engine
 Project-URL: Source, https://github.com/pymmcore-plus/pymmcore-plus
 Project-URL: Tracker, https://github.com/pymmcore-plus/pymmcore-plus/issues
@@ -20,6 +20,7 @@ Classifier: Programming Language :: Python :: 3.9
 Classifier: Programming Language :: Python :: 3.10
 Classifier: Programming Language :: Python :: 3.11
 Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
 Classifier: Topic :: System :: Hardware
 Classifier: Topic :: System :: Hardware :: Hardware Drivers
 Classifier: Topic :: Utilities
@@ -29,11 +30,10 @@ Requires-Dist: platformdirs>=3.0.0
 Requires-Dist: psygnal>=0.7
 Requires-Dist: pymmcore>=10.7.0.71.0
 Requires-Dist: rich>=10.2.0
-Requires-Dist: tensorstore
+Requires-Dist: tensorstore; python_version < '3.13'
 Requires-Dist: typer>=0.4.2
 Requires-Dist: typing-extensions
-Requires-Dist: useq-schema>=0.5.0
-Requires-Dist: wrapt>=1.14
+Requires-Dist: useq-schema>=0.6.2
 Provides-Extra: cli
 Requires-Dist: rich>=10.2.0; extra == 'cli'
 Requires-Dist: typer>=0.4.2; extra == 'cli'
@@ -53,9 +53,17 @@ Requires-Dist: mkdocstrings==0.22.0; extra == 'docs'
 Provides-Extra: io
 Requires-Dist: tifffile>=2021.6.14; extra == 'io'
 Requires-Dist: zarr<3,>=2.2; extra == 'io'
+Provides-Extra: pyqt5
+Requires-Dist: pyqt5>=5.15.4; extra == 'pyqt5'
+Provides-Extra: pyqt6
+Requires-Dist: pyqt6<6.8,>=6.4.2; extra == 'pyqt6'
+Provides-Extra: pyside2
+Requires-Dist: pyside2>=5.15; extra == 'pyside2'
+Provides-Extra: pyside6
+Requires-Dist: pyside6<6.8,>=6.4.0; extra == 'pyside6'
 Provides-Extra: test
 Requires-Dist: msgpack; extra == 'test'
-Requires-Dist: msgspec; extra == 'test'
+Requires-Dist: msgspec; (python_version < '3.13') and extra == 'test'
 Requires-Dist: pytest-cov>=4; extra == 'test'
 Requires-Dist: pytest-qt>=4; extra == 'test'
 Requires-Dist: pytest>=7.3.2; extra == 'test'

pymmcore_plus-0.13.1.dist-info/RECORD

@@ -0,0 +1,71 @@
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+pymmcore_plus/_pymmcore.py,sha256=QGlCEEx2pz5JsRLy3nQX3afAvV-_rm6ptWsv05U5hxI,328
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 Root-Is-Purelib: true
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