pigeon-tem-comms 0.4.10__py3-none-any.whl → 0.5.0__py3-none-any.whl

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,
 }

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"
+    )

TEM_comms/tile/__init__.py

@@ -1,35 +1,24 @@
-from pigeon import BaseMessage
+from .metadata import TileMetadata
 from . import statistics
 
 
-class Preview(BaseMessage):
-    tile_id: str
+class Preview(TileMetadata):
     image: str
 
 
-class Minimap(BaseMessage):
-    tile_id: str
-    path: str
+class Minimap(TileMetadata):
+    image: str
 
 
-class Raw(BaseMessage):
-    tile_id: str
-    montage_id: str
+class Raw(TileMetadata):
     path: str
-    row: int
-    column: int
-    overlap: int
 
 
-class Transform(BaseMessage):
-    montage_id: str
-    tile_id: str
+class Transform(TileMetadata):
     rotation: float
     x: float
     y: float
 
 
-class Processed(BaseMessage):
-    montage_id: str
-    tile_id: str
+class Processed(TileMetadata):
     path: str

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

TEM_comms/tile/statistics.py

@@ -1,22 +1,16 @@
-from pigeon import BaseMessage
+from .metadata import TileMetadata
+from typing import List
 
 
-class Focus(BaseMessage):
-    montage_id: str
-    tile_id: str
+class Focus(TileMetadata):
     focus: float
 
 
-class Histogram(BaseMessage):
-    montage_id: str
-    tile_id: str
-    path: str
+class Histogram(TileMetadata):
+    hist: List[int]
 
 
-class MinMaxMean(BaseMessage):
-    montage_id: str
-    tile_id: str
+class MinMaxMean(TileMetadata):
     min: int
     max: int
     mean: int
-

{pigeon_tem_comms-0.4.10.dist-info → pigeon_tem_comms-0.5.0.dist-info}/METADATA

@@ -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-0.5.0.dist-info/RECORD

@@ -0,0 +1,21 @@
+TEM_comms/__init__.py,sha256=YCjLxCTzYjlYToUwPCuUeTUWIi3yrEPb0P6h_gJJ_Po,1263
+TEM_comms/buffer.py,sha256=Jr6fUIbUPreQSSGKWR7jkA1McyZZv3lVE8uQSER8VL4,123
+TEM_comms/camera.py,sha256=L9ebaZra-M3g571PUzQCAuC92Auw4ox3gRceJ2uKRhs,522
+TEM_comms/montage.py,sha256=PCfve__0M3S2RSmBtrDRlDlmIW_qJffDRE8gnlEHoxY,281
+TEM_comms/qc.py,sha256=sujy2i0wimMvrHDPEXKdaiO7xxvRcHiy83mVpATLyqA,141
+TEM_comms/roi.py,sha256=37fKMT-KNJfWOwWvFAPTFHuBzkV1h6RS42kQsU00teQ,1145
+TEM_comms/scope.py,sha256=lPEKzWT2raR6ailiAitvWXH-Xu6fxWwYBf3GPfVIizc,761
+TEM_comms/ui.py,sha256=Yxd0i4wjmddDl9sVzcFHHu5b6n0ICzaO0b_8SmAysxg,1459
+TEM_comms/stage/__init__.py,sha256=UVtYKzMBI01FUADS24xSItNIjhqdZtlDeJdqsDJNVIc,67
+TEM_comms/stage/aperture.py,sha256=lyJO34_K76MKrZ-o2izd5V7eEN55d3lGu__RvZq-NlA,227
+TEM_comms/stage/motion.py,sha256=1NSuGQvPjlxwnkaV410VGDBBtmsISQn_XjZcPuUXvQg,244
+TEM_comms/stage/rotation.py,sha256=J7tAIP2nskjInhZmdIbqwrvxTFXihEynVOAyxbDDfjU,262
+TEM_comms/tile/__init__.py,sha256=bC8Tm7cFyFHdFkW20uD5vAtGvz7HrCn0E9sOxtCLo_E,319
+TEM_comms/tile/metadata.py,sha256=pUxmi_C02e5nwTm51rIULkKaRz6ij5mlXylzAcDU-9c,149
+TEM_comms/tile/statistics.py,sha256=ij0ggk15J_jikIkuSDmhvY96yjliofFRN5SNdsGA0lA,232
+pigeon_tem_comms-0.5.0.dist-info/LICENSE,sha256=tZfQIUX7uNGacTb751ZWInVenJl6OwYQihcGbYrKSts,1463
+pigeon_tem_comms-0.5.0.dist-info/METADATA,sha256=lOD0EGJK7vzX-hWJabxrJ1w4TDbtsque1OUurU20vaE,1553
+pigeon_tem_comms-0.5.0.dist-info/WHEEL,sha256=In9FTNxeP60KnTkGw7wk6mJPYd_dQSjEZmXdBdMCI-8,91
+pigeon_tem_comms-0.5.0.dist-info/entry_points.txt,sha256=X2WfBCDgfH9XVVqiI4rLu7BLyMNuLW6WWckqXxfbrgk,38
+pigeon_tem_comms-0.5.0.dist-info/top_level.txt,sha256=3_1RcQ7xvS2dJEYnPIigo9snoKcSXSNJzPqunY0qydI,10
+pigeon_tem_comms-0.5.0.dist-info/RECORD,,

pigeon_tem_comms-0.4.10.dist-info/RECORD

@@ -1,19 +0,0 @@
-TEM_comms/__init__.py,sha256=MC7FgQrqnsNQ3i7AVU9CrJXLjNv0tGbka_LZCRrmsdI,1260
-TEM_comms/buffer.py,sha256=Jr6fUIbUPreQSSGKWR7jkA1McyZZv3lVE8uQSER8VL4,123
-TEM_comms/camera.py,sha256=L9ebaZra-M3g571PUzQCAuC92Auw4ox3gRceJ2uKRhs,522
-TEM_comms/montage.py,sha256=PCfve__0M3S2RSmBtrDRlDlmIW_qJffDRE8gnlEHoxY,281
-TEM_comms/qc.py,sha256=sujy2i0wimMvrHDPEXKdaiO7xxvRcHiy83mVpATLyqA,141
-TEM_comms/scope.py,sha256=lPEKzWT2raR6ailiAitvWXH-Xu6fxWwYBf3GPfVIizc,761
-TEM_comms/ui.py,sha256=Yxd0i4wjmddDl9sVzcFHHu5b6n0ICzaO0b_8SmAysxg,1459
-TEM_comms/stage/__init__.py,sha256=UVtYKzMBI01FUADS24xSItNIjhqdZtlDeJdqsDJNVIc,67
-TEM_comms/stage/aperture.py,sha256=lyJO34_K76MKrZ-o2izd5V7eEN55d3lGu__RvZq-NlA,227
-TEM_comms/stage/motion.py,sha256=1NSuGQvPjlxwnkaV410VGDBBtmsISQn_XjZcPuUXvQg,244
-TEM_comms/stage/rotation.py,sha256=J7tAIP2nskjInhZmdIbqwrvxTFXihEynVOAyxbDDfjU,262
-TEM_comms/tile/__init__.py,sha256=RlmgJt3ELn3PWlv1kIr0dRAgMaSaMcsy6fgtsQ3hMr0,500
-TEM_comms/tile/statistics.py,sha256=big7ydZe18RaT_B_sh1ust7MiGITOZ1aJdH7mY9T2BY,307
-pigeon_tem_comms-0.4.10.dist-info/LICENSE,sha256=tZfQIUX7uNGacTb751ZWInVenJl6OwYQihcGbYrKSts,1463
-pigeon_tem_comms-0.4.10.dist-info/METADATA,sha256=FvkJBs7WKF0zBh3jQiOcVED0zl1ufZwacz7k2ojTFcA,1554
-pigeon_tem_comms-0.4.10.dist-info/WHEEL,sha256=In9FTNxeP60KnTkGw7wk6mJPYd_dQSjEZmXdBdMCI-8,91
-pigeon_tem_comms-0.4.10.dist-info/entry_points.txt,sha256=X2WfBCDgfH9XVVqiI4rLu7BLyMNuLW6WWckqXxfbrgk,38
-pigeon_tem_comms-0.4.10.dist-info/top_level.txt,sha256=3_1RcQ7xvS2dJEYnPIigo9snoKcSXSNJzPqunY0qydI,10
-pigeon_tem_comms-0.4.10.dist-info/RECORD,,