pigeon-tem-comms 0.4.10__tar.gz → 0.5.0__tar.gz

{pigeon_tem_comms-0.4.10 → pigeon_tem_comms-0.5.0}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: pigeon-tem-comms
-Version: 0.4.10
+Version: 0.5.0
 Summary: Pigeon messages for the next generation TEM imaging system.
 Author-email: Cameron Devine <cameron.devine@alleninstitute.org>
 License: BSD 3 Clause

{pigeon_tem_comms-0.4.10 → pigeon_tem_comms-0.5.0}/TEM_comms/__init__.py

@@ -1,12 +1,4 @@
-from . import buffer
-from . import camera
-from . import scope
-from . import stage
-from . import tile
-from . import ui
-from . import montage
-from . import qc
-
+from . import buffer, camera, montage, qc, roi, scope, stage, tile, ui
 
 topics = {
     "buffer.status": buffer.Status,
@@ -36,4 +28,7 @@ topics = {
     "montage.start": montage.Start,
     "montage.finished": montage.Finished,
     "qc.status": qc.Status,
+    "roi.load": roi.LoadROI,
+    "roi.create": roi.CreateROI,
+    "roi.current": roi.ROI,
 }

pigeon_tem_comms-0.5.0/TEM_comms/roi.py

@@ -0,0 +1,45 @@
+from pigeon import BaseMessage
+from typing import List, Tuple, Optional
+from pydantic import Field
+
+
+class Vertex(BaseMessage):
+    x: float
+    y: float
+
+
+class ROI(BaseMessage):
+    vertices: List[Vertex]
+    rotation_angle: float
+    buffer_size: float = 0.0
+    montage_id: str
+    specimen_id: Optional[str] = None
+    grid_id: Optional[str] = None
+    section_id: Optional[str] = None
+    metadata: Optional[dict] = None
+    queue_position: Optional[int] = Field(
+        None, description="Position in queue, None means set as current"
+    )
+
+
+class LoadROI(BaseMessage):
+    specimen_id: str
+    section_id: str
+    grid_id: Optional[str] = None
+    queue_position: Optional[int] = Field(
+        None, description="Position in queue, None means set as current"
+    )
+
+
+class CreateROI(BaseMessage):
+    center: Vertex
+    width: float
+    height: float
+    rotation_angle: float = 0.0
+    montage_id: str
+    specimen_id: Optional[str] = None
+    grid_id: Optional[str] = None
+    section_id: Optional[str] = None
+    queue_position: Optional[int] = Field(
+        None, description="Position in queue, None means set as current"
+    )

pigeon_tem_comms-0.5.0/TEM_comms/tile/__init__.py

@@ -0,0 +1,24 @@
+from .metadata import TileMetadata
+from . import statistics
+
+
+class Preview(TileMetadata):
+    image: str
+
+
+class Minimap(TileMetadata):
+    image: str
+
+
+class Raw(TileMetadata):
+    path: str
+
+
+class Transform(TileMetadata):
+    rotation: float
+    x: float
+    y: float
+
+
+class Processed(TileMetadata):
+    path: str

pigeon_tem_comms-0.5.0/TEM_comms/tile/metadata.py

@@ -0,0 +1,9 @@
+from pigeon import BaseMessage
+
+
+class TileMetadata(BaseMessage):
+    tile_id: str
+    montage_id: str
+    row: int
+    column: int
+    overlap: int

pigeon_tem_comms-0.5.0/TEM_comms/tile/statistics.py

@@ -0,0 +1,16 @@
+from .metadata import TileMetadata
+from typing import List
+
+
+class Focus(TileMetadata):
+    focus: float
+
+
+class Histogram(TileMetadata):
+    hist: List[int]
+
+
+class MinMaxMean(TileMetadata):
+    min: int
+    max: int
+    mean: int

{pigeon_tem_comms-0.4.10 → pigeon_tem_comms-0.5.0}/pigeon_tem_comms.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: pigeon-tem-comms
-Version: 0.4.10
+Version: 0.5.0
 Summary: Pigeon messages for the next generation TEM imaging system.
 Author-email: Cameron Devine <cameron.devine@alleninstitute.org>
 License: BSD 3 Clause

{pigeon_tem_comms-0.4.10 → pigeon_tem_comms-0.5.0}/pigeon_tem_comms.egg-info/SOURCES.txt

@@ -6,6 +6,7 @@ TEM_comms/buffer.py
 TEM_comms/camera.py
 TEM_comms/montage.py
 TEM_comms/qc.py
+TEM_comms/roi.py
 TEM_comms/scope.py
 TEM_comms/ui.py
 TEM_comms/stage/__init__.py
@@ -13,6 +14,7 @@ TEM_comms/stage/aperture.py
 TEM_comms/stage/motion.py
 TEM_comms/stage/rotation.py
 TEM_comms/tile/__init__.py
+TEM_comms/tile/metadata.py
 TEM_comms/tile/statistics.py
 pigeon_tem_comms.egg-info/PKG-INFO
 pigeon_tem_comms.egg-info/SOURCES.txt

{pigeon_tem_comms-0.4.10 → pigeon_tem_comms-0.5.0}/pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "pigeon-tem-comms"
-version = "0.4.10"
+version = "0.5.0"
 authors = [
   { name="Cameron Devine", email="cameron.devine@alleninstitute.org" },
 ]

pigeon_tem_comms-0.4.10/TEM_comms/tile/__init__.py

@@ -1,35 +0,0 @@
-from pigeon import BaseMessage
-from . import statistics
-
-
-class Preview(BaseMessage):
-    tile_id: str
-    image: str
-
-
-class Minimap(BaseMessage):
-    tile_id: str
-    path: str
-
-
-class Raw(BaseMessage):
-    tile_id: str
-    montage_id: str
-    path: str
-    row: int
-    column: int
-    overlap: int
-
-
-class Transform(BaseMessage):
-    montage_id: str
-    tile_id: str
-    rotation: float
-    x: float
-    y: float
-
-
-class Processed(BaseMessage):
-    montage_id: str
-    tile_id: str
-    path: str

pigeon_tem_comms-0.4.10/TEM_comms/tile/statistics.py

@@ -1,22 +0,0 @@
-from pigeon import BaseMessage
-
-
-class Focus(BaseMessage):
-    montage_id: str
-    tile_id: str
-    focus: float
-
-
-class Histogram(BaseMessage):
-    montage_id: str
-    tile_id: str
-    path: str
-
-
-class MinMaxMean(BaseMessage):
-    montage_id: str
-    tile_id: str
-    min: int
-    max: int
-    mean: int
-