From f25be47095848fa2f80c6886347b63e0c7dad8b1 Mon Sep 17 00:00:00 2001
From: Guilherme de Freitas <guilherme.de-freitas@diamond.ac.uk>
Date: Fri, 8 May 2026 11:17:24 +0100
Subject: [PATCH] Add MillingStep table

---
 .../updates/2026_05_08_MillingStep_table.sql  | 80 +++++++++++++++++++
 1 file changed, 80 insertions(+)
 create mode 100644 schemas/ispyb/updates/2026_05_08_MillingStep_table.sql

diff --git a/schemas/ispyb/updates/2026_05_08_MillingStep_table.sql b/schemas/ispyb/updates/2026_05_08_MillingStep_table.sql
new file mode 100644
index 0000000..f45b1b4
--- /dev/null
+++ b/schemas/ispyb/updates/2026_05_08_MillingStep_table.sql
@@ -0,0 +1,80 @@
+-- To undo:
+-- drop table MillingStep;
+-- drop table MillingStepName;
+-- delete from SchemaStatus where scriptName = '2026_05_08_MillingStep_table.sql';
+
+
+INSERT IGNORE INTO SchemaStatus (scriptName, schemaStatus) VALUES ('2026_05_08_MillingStep_table.sql', 'ONGOING');
+
+CREATE TABLE MillingStepName (
+    millingStepNameId int(11) unsigned PRIMARY KEY AUTO_INCREMENT,
+    step varchar(45) NOT NULL,
+    recipe varchar(45) NOT NULL
+) COMMENT "Milling step names and recipes";
+
+INSERT INTO MillingStepName (step, recipe) VALUES
+    ("Eucentric Tilt", "Preparation"),
+    ("Artificial Features", "Preparation"),
+    ("Milling Angle", "Preparation"),
+    ("Image Acquisition", "Preparation"),
+    ("Lamella Placement", "Preparation"),
+    ("Milling", "Preparation"),
+    ("Delay", "Milling"),
+    ("Reference Definition", "Milling"),
+    ("Electron Reference Definition", "Milling"),
+    ("Stress Relief Cuts", "Milling"),
+    ("Reference Redefinition 1", "Milling"),
+    ("Rough Milling", "Milling"),
+    ("Rough Milling - Electron Image", "Milling"),
+    ("Reference Redefinition 2", "Milling"),
+    ("Medium Milling", "Milling"),
+    ("Medium Milling - Electron Image", "Milling"),
+    ("Fine Milling", "Milling"),
+    ("Fine Milling - Electron Image", "Milling"),
+    ("Finer Milling", "Milling"),
+    ("Finer Milling - Electron Image", "Milling"),
+    ("Thinning", "Milling"),
+    ("Delay", "Thinning"),
+    ("Polishing 1", "Thinning"),
+    ("Polishing 1 - Electron Image", "Thinning"),
+    ("Polishing 2", "Thinning"),
+    ("Polishing 2 - Ion Image", "Thinning"),
+    ("Polishing 2 - Electron Image", "Thinning");
+
+CREATE TABLE MillingStep (
+    millingStepId int(11) unsigned PRIMARY KEY AUTO_INCREMENT,
+    millingStepNameId int(11) unsigned,
+    isEnabled tinyint(1) DEFAULT 0 COMMENT "This marks whether the milling step is enabled and queued up; when the FIB starts this step, it will be set to False",
+    status enum("Finished", "Failed", "Aborted") COMMENT "Describes the status of the milling step",
+    executionTime float COMMENT "The time in seconds the step took to complete",
+    stageX float COMMENT "Stage position in metres",
+    stageY float COMMENT "Stage position in metres",
+    stageZ float COMMENT "Stage position in metres",
+    rotation float COMMENT "Rotation of stage in xy plane in degrees",
+    alphaTilt float COMMENT "Unit: degrees",
+    beamType enum("Electron", "Ion") COMMENT "Type of beam used",
+    beamVoltage float COMMENT "Unit: volts",
+    beamCurrent float COMMENT "Unit: amperes",
+    millingAngle float COMMENT "The angle the stage is tilted to for milling, in degrees",
+    depthCorrection float,
+    lamellaOffset float COMMENT "Unit: metres",
+    trenchHeightFront float COMMENT "Unit: metres",
+    trenchHeightRear float COMMENT "Unit: metres",
+    widthOverlapFrontLeft float COMMENT "Unit: metres",
+    widthOverlapFrontRight float COMMENT "Unit: metres",
+    widthOverlapRearLeft float COMMENT "Unit: metres",
+    widthOverlapRearRight float COMMENT "Unit: metres",
+    gridSquareId int(11) unsigned NOT NULL,
+    CONSTRAINT MillingStep_fk_gridSquareId
+      FOREIGN KEY (gridSquareId)
+        REFERENCES GridSquare (gridSquareId)
+          ON DELETE CASCADE
+          ON UPDATE CASCADE,
+    CONSTRAINT MillingStep_fk_millingStepNameId
+      FOREIGN KEY (millingStepNameId)
+        REFERENCES MillingStepName (millingStepNameId)
+          ON DELETE CASCADE
+          ON UPDATE CASCADE
+) COMMENT = "FIB Milling Step";
+
+UPDATE SchemaStatus SET schemaStatus = 'DONE' WHERE scriptName = '2026_05_08_MillingStep_table.sql';