Add tables and an FK for cryo-EM sample tracking (#217)

* Add tables for cryo-EM sample tracking
* Make FK cols not nullable, add "on update" and "on delete" actions for FKs

schemas/ispyb/updates/2024_01_22_cryoEM_tracking.sql

@@ -0,0 +1,61 @@
+INSERT IGNORE INTO SchemaStatus (scriptName, schemaStatus) VALUES ('2024_01_22_cryoEM_tracking.sql', 'ONGOING');
+
+CREATE TABLE Atlas (
+  atlasId int(11) unsigned auto_increment PRIMARY KEY,
+  dataCollectionGroupId int(11) NOT NULL,
+  atlasImage varchar(255) NOT NULL COMMENT 'path to atlas image',
+  pixelSize float NOT NULL COMMENT 'pixel size of atlas image',
+  cassetteSlot int unsigned,
+  CONSTRAINT Atlas_fk_dataCollectionGroupId
+    FOREIGN KEY (dataCollectionGroupId)
+      REFERENCES DataCollectionGroup (dataCollectionGroupId)
+        ON UPDATE CASCADE ON DELETE RESTRICT
+) COMMENT 'Atlas of a Cryo-EM grid';
+
+CREATE TABLE GridSquare (
+  gridSquareId int(11) unsigned auto_increment PRIMARY KEY,
+  atlasId int(11) unsigned NOT NULL,
+  gridSquareLabel int COMMENT 'grid square reference from acquisition software',
+  gridSquareImage varchar(255) COMMENT 'path to grid square image',
+  pixelLocationX int COMMENT 'pixel location of grid square centre on atlas image (x)',
+  pixelLocationY int COMMENT 'pixel location of grid square centre on atlas image (y)',
+  height int COMMENT 'grid square height on atlas image in pixels',
+  width int COMMENT 'grid square width on atlas image in pixels',
+  angle float COMMENT 'angle of grid square relative to atlas image',
+  stageLocationX float COMMENT 'x stage position (microns)',
+  stageLocationY float COMMENT 'y stage position (microns)',
+  qualityIndicator float COMMENT 'metric for determining quality of grid square',
+  pixelSize float COMMENT 'pixel size of grid square image',
+  CONSTRAINT GridSquare_fk_atlasId
+    FOREIGN KEY (atlasId)
+      REFERENCES Atlas (atlasId)
+        ON UPDATE CASCADE ON DELETE RESTRICT
+) COMMENT 'Details of a Cryo-EM grid square including image captured at grid square magnification';
+
+CREATE TABLE FoilHole (
+  foilHoleId int(11) unsigned auto_increment PRIMARY KEY,
+  gridSquareId int(11) unsigned NOT NULL,
+  foilHoleLabel varchar(30) NOT NULL COMMENT 'foil hole reference name from acquisition software',
+  foilHoleImage varchar(255) COMMENT 'path to foil hole image, nullable as there is not always a foil hole image',
+  pixelLocationX int COMMENT 'pixel location of foil hole centre on grid square image (x)',
+  pixelLocationY int COMMENT 'pixel location of foil hole centre on grid square image (y)',
+  diameter int COMMENT 'foil hole diameter on grid square image in pixels',
+  stageLocationX float COMMENT 'x stage position (microns)',
+  stageLocationY float COMMENT 'y stage position (microns)',
+  qualityIndicator float COMMENT 'metric for determining quality of foil hole',
+  pixelSize float COMMENT 'pixel size of foil hole image',
+  CONSTRAINT FoilHole_fk_gridSquareId
+    FOREIGN KEY (gridSquareId)
+      REFERENCES GridSquare (gridSquareId)
+        ON UPDATE CASCADE ON DELETE RESTRICT
+) COMMENT 'Details of a Cryo-EM foil hole within a grid square including image captured at foil hole magnification if applicable';
+
+ALTER TABLE Movie
+  ADD foilHoleId int(11) unsigned,
+  ADD templateLabel int unsigned,
+  ADD CONSTRAINT Movie_fk_foilHoleId
+    FOREIGN KEY (foilHoleId)
+      REFERENCES FoilHole (foilHoleId)
+        ON UPDATE CASCADE ON DELETE RESTRICT;
+
+UPDATE SchemaStatus SET schemaStatus = 'DONE' WHERE scriptName = '2024_01_22_cryoEM_tracking.sql';