Script to help fix the mess Codex made of the repository

Author: flengyel

Cleanup/fix_damage_caused_by_Codex.sh

@@ -0,0 +1,60 @@
+#!/bin/bash
+set -euo pipefail
+
+# 1. Create experiments dir if it doesn't exist (it should)
+mkdir -p experiments
+
+# List of files that are actually scripts, currently hiding in src/
+# I identified these based on your uploads and typical patterns.
+SCRIPTS=(
+    "count_standard_basis_tensors.py"
+    "verify_injective_face_map.py"
+    "verify_degenerate_preference.py"
+    "verify_degenerate_preference_range_tensor.py"
+    "degenerate_counterexample.py"
+    "discrepancy_test.py"
+    "fixed_index_face_independence.py"
+    "homotopy_constraint_verification.py"
+    "homotopy_constraint_verification_with_independence_test.py"
+    "n_cycle_conjugation.py"
+    "n_hypergroupoid_conjecture.py"
+    "petersen_permutation_test.py"
+    "random_zero_one_mask_cocycle_test.py"
+)
+
+echo "--- Moving Logic from src/ to experiments/ ---"
+
+for file in "${SCRIPTS[@]}"; do
+    src_path="src/simplicial_tensors/$file"
+    dest_path="experiments/$file"
+    trampoline_path="examples/$file"
+
+    if [[ -f "$src_path" ]]; then
+        echo "Moving $src_path -> $dest_path"
+        mv "$src_path" "$dest_path"
+
+        # 2. Fix the imports
+        # Scripts inside the package used relative imports (from .tensor_ops).
+        # Scripts outside must use absolute imports (from simplicial_tensors.tensor_ops).
+        # We also strip the logging setup if it duplicates standard behavior, but for now we just fix imports.
+        sed -i 's/from \.tensor_ops/from simplicial_tensors.tensor_ops/g' "$dest_path"
+        sed -i 's/from \./from simplicial_tensors./g' "$dest_path"
+    else
+        echo "Warning: $src_path not found, skipping."
+    fi
+
+    # 3. Delete the trampoline in examples/ if it exists
+    if [[ -f "$trampoline_path" ]]; then
+        echo "Deleting trampoline $trampoline_path"
+        rm "$trampoline_path"
+    fi
+done
+
+# 4. Cleanup the "Hallucination" file if it exists
+if [[ -f "src/simplicial_tensors/Gemini_hallicination.py" ]]; then
+    echo "Deleting src/simplicial_tensors/Gemini_hallicination.py"
+    rm "src/simplicial_tensors/Gemini_hallicination.py"
+fi
+
+echo "--- Cleanup Complete ---"
+echo "Your src/ directory is now lighter, and experiments/ contains the runnable code."