From 63925ec0ba3613a363e4be2e1d17e3415f264c1c Mon Sep 17 00:00:00 2001
From: Emilia Allison <EAllison@highresbio.com>
Date: Tue, 22 Oct 2024 16:21:00 -0500
Subject: [PATCH] Spelling utilities

---
 sample_inputs/E.csv           | 65 +++++++++++++++++++++++++++++++++++
 sample_inputs/H.csv           | 57 ++++++++++++++++++++++++++++++
 sample_inputs/O.csv           | 65 +++++++++++++++++++++++++++++++++++
 sample_inputs/R.csv           | 61 ++++++++++++++++++++++++++++++++
 sample_inputs/S.csv           | 61 ++++++++++++++++++++++++++++++++
 util/picklist_to_locations.py | 65 +++++++++++++++++++++++++++++++++++
 6 files changed, 374 insertions(+)
 create mode 100755 sample_inputs/E.csv
 create mode 100755 sample_inputs/H.csv
 create mode 100755 sample_inputs/O.csv
 create mode 100755 sample_inputs/R.csv
 create mode 100755 sample_inputs/S.csv
 create mode 100644 util/picklist_to_locations.py

diff --git a/sample_inputs/E.csv b/sample_inputs/E.csv
new file mode 100755
index 0000000..6ba17c5
--- /dev/null
+++ b/sample_inputs/E.csv
@@ -0,0 +1,65 @@
+SrcWell,DestWell,XferVol
+A1,A1,2.5
+A2,A2,2.5
+B1,B1,2.5
+B2,B2,2.5
+C1,C1,2.5
+C2,C2,2.5
+D1,D1,2.5
+D2,D2,2.5
+E1,E1,2.5
+E2,E2,2.5
+F1,F1,2.5
+F2,F2,2.5
+G1,G1,2.5
+G2,G2,2.5
+H1,H1,2.5
+H2,H2,2.5
+A6,A1,2.5
+A7,A2,2.5
+B6,B1,2.5
+B7,B2,2.5
+C6,C1,2.5
+C7,C2,2.5
+D6,D1,2.5
+D7,D2,2.5
+E6,E1,2.5
+E7,E2,2.5
+F6,F1,2.5
+F7,F2,2.5
+G6,G1,2.5
+G7,G2,2.5
+H6,H1,2.5
+H7,H2,2.5
+A11,A1,2.5
+A12,A2,2.5
+B11,B1,2.5
+B12,B2,2.5
+C11,C1,2.5
+C12,C2,2.5
+D11,D1,2.5
+D12,D2,2.5
+E11,E1,2.5
+E12,E2,2.5
+F11,F1,2.5
+F12,F2,2.5
+G11,G1,2.5
+G12,G2,2.5
+H11,H1,2.5
+H12,H2,2.5
+G3,A1,2.5
+G4,A2,2.5
+G5,A3,2.5
+G6,A4,2.5
+G7,A5,2.5
+G8,A6,2.5
+G9,A7,2.5
+G10,A8,2.5
+H3,B1,2.5
+H4,B2,2.5
+H5,B3,2.5
+H6,B4,2.5
+H7,B5,2.5
+H8,B6,2.5
+H9,B7,2.5
+H10,B8,2.5
diff --git a/sample_inputs/H.csv b/sample_inputs/H.csv
new file mode 100755
index 0000000..0dd57f9
--- /dev/null
+++ b/sample_inputs/H.csv
@@ -0,0 +1,57 @@
+SrcWell,DestWell,XferVol
+A1,A1,2.5
+A2,A2,2.5
+A3,A3,2.5
+A4,A4,2.5
+A5,A5,2.5
+A6,A6,2.5
+A7,A7,2.5
+A8,A8,2.5
+A9,A9,2.5
+A10,A10,2.5
+A11,A11,2.5
+A12,A12,2.5
+B1,B1,2.5
+B2,B2,2.5
+B3,B3,2.5
+B4,B4,2.5
+B5,B5,2.5
+B6,B6,2.5
+B7,B7,2.5
+B8,B8,2.5
+B9,B9,2.5
+B10,B10,2.5
+B11,B11,2.5
+B12,B12,2.5
+G1,A1,2.5
+G2,A2,2.5
+G3,A3,2.5
+G4,A4,2.5
+G5,A5,2.5
+G6,A6,2.5
+G7,A7,2.5
+G8,A8,2.5
+G9,A9,2.5
+G10,A10,2.5
+G11,A11,2.5
+G12,A12,2.5
+H1,B1,2.5
+H2,B2,2.5
+H3,B3,2.5
+H4,B4,2.5
+H5,B5,2.5
+H6,B6,2.5
+H7,B7,2.5
+H8,B8,2.5
+H9,B9,2.5
+H10,B10,2.5
+H11,B11,2.5
+H12,B12,2.5
+C6,A1,2.5
+C7,A2,2.5
+D6,B1,2.5
+D7,B2,2.5
+E6,C1,2.5
+E7,C2,2.5
+F6,D1,2.5
+F7,D2,2.5
diff --git a/sample_inputs/O.csv b/sample_inputs/O.csv
new file mode 100755
index 0000000..5e5e6d0
--- /dev/null
+++ b/sample_inputs/O.csv
@@ -0,0 +1,65 @@
+SrcWell,DestWell,XferVol
+A1,A1,2.5
+A2,A2,2.5
+B1,B1,2.5
+B2,B2,2.5
+C1,C1,2.5
+C2,C2,2.5
+D1,D1,2.5
+D2,D2,2.5
+E1,E1,2.5
+E2,E2,2.5
+F1,F1,2.5
+F2,F2,2.5
+G1,G1,2.5
+G2,G2,2.5
+H1,H1,2.5
+H2,H2,2.5
+A3,A1,2.5
+A4,A2,2.5
+A5,A3,2.5
+A6,A4,2.5
+A7,A5,2.5
+A8,A6,2.5
+A9,A7,2.5
+A10,A8,2.5
+A11,A9,2.5
+A12,A10,2.5
+B3,B1,2.5
+B4,B2,2.5
+B5,B3,2.5
+B6,B4,2.5
+B7,B5,2.5
+B8,B6,2.5
+B9,B7,2.5
+B10,B8,2.5
+B11,B9,2.5
+B12,B10,2.5
+C11,A1,2.5
+C12,A2,2.5
+D11,B1,2.5
+D12,B2,2.5
+E11,C1,2.5
+E12,C2,2.5
+F11,D1,2.5
+F12,D2,2.5
+G11,E1,2.5
+G12,E2,2.5
+H11,F1,2.5
+H12,F2,2.5
+G3,A1,2.5
+G4,A2,2.5
+G5,A3,2.5
+G6,A4,2.5
+G7,A5,2.5
+G8,A6,2.5
+G9,A7,2.5
+G10,A8,2.5
+H3,B1,2.5
+H4,B2,2.5
+H5,B3,2.5
+H6,B4,2.5
+H7,B5,2.5
+H8,B6,2.5
+H9,B7,2.5
+H10,B8,2.5
diff --git a/sample_inputs/R.csv b/sample_inputs/R.csv
new file mode 100755
index 0000000..af22775
--- /dev/null
+++ b/sample_inputs/R.csv
@@ -0,0 +1,61 @@
+SrcWell,DestWell,XferVol
+G1,A1,2.5
+G2,A2,2.5
+G3,A3,2.5
+G4,A4,2.5
+G5,A5,2.5
+G6,A6,2.5
+G7,A7,2.5
+G8,A8,2.5
+G9,A9,2.5
+G10,A10,2.5
+G11,A11,2.5
+G12,A12,2.5
+H1,B1,2.5
+H2,B2,2.5
+H3,B3,2.5
+H4,B4,2.5
+H5,B5,2.5
+H6,B6,2.5
+H7,B7,2.5
+H8,B8,2.5
+H9,B9,2.5
+H10,B10,2.5
+H11,B11,2.5
+H12,B12,2.5
+A1,A1,2.5
+A2,A2,2.5
+B1,B1,2.5
+B2,B2,2.5
+C1,C1,2.5
+C2,C2,2.5
+D1,D1,2.5
+D2,D2,2.5
+E1,E1,2.5
+E2,E2,2.5
+F1,F1,2.5
+F2,F2,2.5
+A3,A1,2.5
+A4,A2,2.5
+B3,B1,2.5
+B4,B2,2.5
+C5,A1,2.5
+C6,A2,2.5
+D5,B1,2.5
+D6,B2,2.5
+E5,C1,2.5
+E6,C2,2.5
+F5,D1,2.5
+F6,D2,2.5
+B7,A1,2.5
+B8,A2,2.5
+B9,A3,2.5
+B10,A4,2.5
+B11,A5,2.5
+B12,A6,2.5
+C7,B1,2.5
+C8,B2,2.5
+C9,B3,2.5
+C10,B4,2.5
+C11,B5,2.5
+C12,B6,2.5
diff --git a/sample_inputs/S.csv b/sample_inputs/S.csv
new file mode 100755
index 0000000..72358f8
--- /dev/null
+++ b/sample_inputs/S.csv
@@ -0,0 +1,61 @@
+SrcWell,DestWell,XferVol
+A1,A1,2.5
+A2,A2,2.5
+B1,B1,2.5
+B2,B2,2.5
+C1,C1,2.5
+C2,C2,2.5
+D1,D1,2.5
+D2,D2,2.5
+E1,E1,2.5
+E2,E2,2.5
+F1,F1,2.5
+F2,F2,2.5
+G1,G1,2.5
+G2,G2,2.5
+H1,H1,2.5
+H2,H2,2.5
+A6,A1,2.5
+A7,A2,2.5
+B6,B1,2.5
+B7,B2,2.5
+C6,C1,2.5
+C7,C2,2.5
+D6,D1,2.5
+D7,D2,2.5
+E6,E1,2.5
+E7,E2,2.5
+F6,F1,2.5
+F7,F2,2.5
+G6,G1,2.5
+G7,G2,2.5
+H6,H1,2.5
+H7,H2,2.5
+A11,A1,2.5
+A12,A2,2.5
+B11,B1,2.5
+B12,B2,2.5
+C11,C1,2.5
+C12,C2,2.5
+D11,D1,2.5
+D12,D2,2.5
+E11,E1,2.5
+E12,E2,2.5
+F11,F1,2.5
+F12,F2,2.5
+G11,G1,2.5
+G12,G2,2.5
+H11,H1,2.5
+H12,H2,2.5
+G3,A1,2.5
+G4,A2,2.5
+G5,A3,2.5
+H3,B1,2.5
+H4,B2,2.5
+H5,B3,2.5
+A8,A1,2.5
+A9,A2,2.5
+A10,A3,2.5
+B8,B1,2.5
+B9,B2,2.5
+B10,B3,2.5
diff --git a/util/picklist_to_locations.py b/util/picklist_to_locations.py
new file mode 100644
index 0000000..fd5455d
--- /dev/null
+++ b/util/picklist_to_locations.py
@@ -0,0 +1,65 @@
+import json
+from sys import argv
+from os import path, kill
+from dataclasses import dataclass
+
+
+@dataclass(frozen=True)
+class Location:
+    row: int
+    col: int
+
+
+def main():
+    input_file = argv[1]
+    output_file = argv[2]
+
+    if not test_file(input_file):
+        print("Input file does not exist")
+        kill(1)
+    if test_file(output_file):
+        print("Output file already exists")
+        kill(1)
+
+    locations = read_input_csv_to_wells(input_file)
+    json_obj = tubes_to_tubes_json(locations)
+
+    with open(output_file, 'w') as file:
+        json.dump(json_obj, file)
+
+
+def read_input_csv_to_wells(p: str) -> [Location]:
+    with open(p, 'r') as file:
+        lines = file.readlines()
+    # Assume 96w format only
+    def get_first_col(line): return line.split(',')[0]
+    def get_row(x): return ord(x.upper()) - 64
+
+    def get_row_col(line: str) -> Location:
+        col = get_first_col(line)[1:]
+        row = get_row(get_first_col(line)[0])
+        return Location(row, int(col))
+
+    return list(set([get_row_col(line) for line in lines[1:]]))
+
+
+def tubes_to_tubes_json(i: [Location]) -> dict:
+    target_positions_list = []
+
+    for tube in i:
+        target_positions_list.append((tube.row - 1) * 12
+                                     + tube.col)
+
+    output_obj = {}
+    output_obj["TargetPositions"] = [{"PositionIndex": p}
+                                     for p in target_positions_list]
+
+    return output_obj
+
+
+def test_file(p: str) -> bool:
+    return path.exists(p) and path.isfile(p)
+
+
+if __name__ == "__main__":
+    main()