debug workflow of python app

ELoss/PCEnergyAnalysis.py

@@ -13,7 +13,7 @@ import uproot
 import pycatima as catima
 from scipy.integrate import cumulative_trapezoid
 import matplotlib
-matplotlib.use("TkAgg")
+matplotlib.use("Agg")
 import matplotlib.pyplot as plt
 import threading
 import time
@@ -482,21 +482,28 @@ class MyInteractiveApp(cmd.Cmd):
             
     def do_uproot_file(self, arg):
         """Open a specific root file for inspection"""
-        global rootfile
+    
         args = shlex.split(arg)
+    
         if len(args) > 0:
             filename = args[0]
         else:
             filename = self.rootFile
+    
         try:
             print(f"Opening {filename}")
-            with uproot.open(f"../Armory/{filename}") as rootfile:
+    
-                self.file = rootfile
+            # Try Armory path first
-        except FileNotFoundError:
+            try:
-            with uproot.open(f"{filename}") as rootfile:
+                self.file = uproot.open(f"../Armory/{filename}")
-                self.file = rootfile
+            except FileNotFoundError:
-        except:
+                self.file = uproot.open(filename)
-            print("Error: file not found")
+    
+            print("File loaded successfully.")
+            print("Keys:", self.file.keys())
+    
+        except Exception as e:
+            print("Error opening file:", e)
     
     def do_print_file(self, arg):
         """Print contents of ROOT file"""
@@ -508,20 +515,27 @@ class MyInteractiveApp(cmd.Cmd):
             print("Class names: ", file.classnames())
         
     def do_set_tree(self, arg):
-        """Set a specific tree from the file (default to 'tree')"""
+    
-        file = self.file
+        if self.file is None:
-        if len(arg) > 0:
+            print("No ROOT file loaded.")
-            treeName = f"{arg}"
+            return
-        else:
+    
-            treeName = "tree"
+        keys = self.file.keys()
+    
+        print("Available trees:", keys)
+    
+        treeName = arg if len(arg) > 0 else "tree"
+    
         try:
-            self.tree = file[treeName]
+            # uproot automatically resolves ";1"
-            global tree
+            self.tree = self.file[treeName]
-            tree = self.tree
+    
-            print(f"Tree: {tree}")
+            print(f"Tree loaded: {self.tree}")
-            print("Branches: ", tree.keys())
+            print("Branches:", self.tree.keys())
-        except:
+    
-            print("\nError, trees include ", file.keys())
+        except Exception as e:
+            print("Error loading tree:", treeName)
+            print("Exception:", e)
 
     def run_command_line(self):
         import readline
@@ -607,7 +621,8 @@ class MyInteractiveApp(cmd.Cmd):
     
         branches = [
             "Tb",
-            "thetab"
+            "thetab",
+            "sx3Z"
         ]
     
         if max_events:
@@ -622,8 +637,10 @@ class MyInteractiveApp(cmd.Cmd):
             library="np",
             entry_stop=max_events
         )
-    
+        global Ei
         Ei = data["Tb"]
+        global sx3Z
+        sx3Z = data["sx3Z"]
     
         theta = np.radians(data["thetab"])
     
@@ -642,14 +659,16 @@ class MyInteractiveApp(cmd.Cmd):
         dsx3 = radii[2] / sin_theta
     
         print("Calculating energy losses...")
-    
+        global EA
         EA = energy_loss(particle, Ei, dA)
-    
+        global EC
         EC = energy_loss(particle, Ei, dC)
-    
+        global Esx3
         Esx3 = energy_loss(particle, Ei, dsx3)
-    
+        global Eprop
         Eprop = EA - EC
+        global Elost
+        Elost = Ei - Esx3
 
         print("Analysis complete")
 
@@ -661,40 +680,65 @@ class MyInteractiveApp(cmd.Cmd):
 
         print(f"sx3 average energy: {np.mean(Esx3):.3f} MeV")
 
+        print(f"Average total energy loss to sx3: {np.mean(Elost):.3f} MeV")
+
+        print(f"Maximum total energy loss to sx3: {np.max(Elost):.3f} MeV")
+
+        print(f"Minimum total energy loss to sx3: {np.min(Elost):.3f} MeV")
+
         print(f"Proportion counter average energy difference: {np.mean(Eprop):.3f} MeV")
 
         print(f"Maximum proportion counter energy difference: {np.max(Eprop):.3f} MeV")
 
         print(f"Minimum proportion counter energy difference: {np.min(Eprop):.3f} MeV")
 
+
         output_filename = "energy_analysis.root"
 
         print(f"Writing new tree to {output_filename}")
 
         # Load ALL original branches
-        all_data = self.tree.arrays(library="np", entry_stop=max_events)
+        all_data = self.tree.arrays(
+            library="np",
+            entry_stop=max_events
+        )
 
         # Create full-length arrays initialized to NaN
         n_total = len(data["Tb"])
 
         EA_full = np.full(n_total, np.nan)
+
         EC_full = np.full(n_total, np.nan)
+
         Esx3_full = np.full(n_total, np.nan)
+
         Eprop_full = np.full(n_total, np.nan)
 
+        Elost_full = np.full(n_total, np.nan)
+
         # Put values back into valid entries
         EA_full[mask] = EA
+
         EC_full[mask] = EC
+
         Esx3_full[mask] = Esx3
+
         Eprop_full[mask] = Eprop
 
+        Elost_full[mask] = Elost
+
         # Add new branches
         all_data["EA"] = EA_full
+
         all_data["EC"] = EC_full
+
         all_data["Esx3"] = Esx3_full
+
         all_data["Eprop"] = Eprop_full
 
-        # Write new ROOT file
+        all_data["Elost"] = Elost_full
+
+        # Write new ROOT file as a classic TTree
         with uproot.recreate(output_filename) as fout:
 
             branch_types = {
@@ -708,8 +752,117 @@ class MyInteractiveApp(cmd.Cmd):
 
         print("Finished writing augmented ROOT file")   
         
+    def do_make_plots(self, arg):
     
+        import os
     
+        args = shlex.split(arg)
+    
+        particle = args[0] if len(args) > 0 else "proton"
+        max_events = int(args[1]) if len(args) > 1 else None
+    
+        if self.tree is None:
+            self.do_set_tree("")
+            print(f"Using TTree: {self.tree}")
+    
+        branches = ["Tb", "thetab", "sx3Z"]
+    
+        data = self.tree.arrays(
+            branches,
+            library="np",
+            entry_stop=max_events
+        )
+    
+        Ei = data["Tb"]
+        theta = np.radians(data["thetab"])
+        sx3Z = data["sx3Z"]
+    
+        mask = np.sin(theta) != 0
+    
+        Ei = Ei[mask]
+        theta = theta[mask]
+        sx3Z = sx3Z[mask]
+    
+        sin_theta = np.sin(theta)
+    
+        radii = np.array([3.2, 4.2, 6.6])
+    
+        dA = radii[0] / sin_theta
+        dC = radii[1] / sin_theta
+        dsx3 = radii[2] / sin_theta
+    
+        print("Computing energies...")
+    
+        EA = energy_loss(particle, Ei, dA)
+        EC = energy_loss(particle, Ei, dC)
+        Esx3 = energy_loss(particle, Ei, dsx3)
+    
+        Elost = Ei - Esx3
+        Eprop = EA - EC
+    
+        base = f"{particle}_plots"
+        os.makedirs(base, exist_ok=True)
+    
+        print(f"Saving plots to folder: {base}")
+    
+        # 1. Histogram: energy loss
+        plt.figure(figsize=(7,5))
+        plt.hist(Elost, bins=200)
+        plt.xlabel("Energy Loss (MeV)")
+        plt.ylabel("Counts")
+        plt.title("Total Energy Loss Distribution")
+        plt.grid(True)
+        plt.tight_layout()
+        plt.savefig(f"{base}/Elost_hist.png", dpi=300)
+        plt.close()
+    
+        # 2. Histogram: sx3Z
+        plt.figure(figsize=(7,5))
+        plt.hist(sx3Z, bins=100)
+        plt.xlabel("SX3 Z")
+        plt.ylabel("Counts")
+        plt.title("SX3 Position Distribution")
+        plt.grid(True)
+        plt.tight_layout()
+        plt.savefig(f"{base}/sx3Z_hist.png", dpi=300)
+        plt.close()
+    
+        # 3. 2D: Elost vs sx3Z
+        plt.figure(figsize=(7,6))
+        plt.hist2d(Elost, sx3Z, bins=200)
+        plt.xlabel("Energy Loss (MeV)")
+        plt.ylabel("SX3 Z")
+        plt.title("Energy Loss vs SX3 Position")
+        plt.colorbar(label="Counts")
+        plt.tight_layout()
+        plt.savefig(f"{base}/Elost_vs_sx3Z.png", dpi=300)
+        plt.close()
+    
+        #Anode energy vs sx3 energy
+        plt.figure(figsize=(7,6))
+        plt.hist2d(EA, Esx3, bins=200)
+        plt.xlabel("EA (MeV)")
+        plt.ylabel("Esx3 (MeV)")
+        plt.title("Anode vs SX3 Energy")
+        plt.colorbar(label="Counts")
+        plt.tight_layout()
+        plt.savefig(f"{base}/EA_vs_Esx3.png", dpi=300)
+        plt.close()
+        
+        #Prop counter energy loss
+        plt.figure(figsize=(7,6))
+        plt.hist2d(Eprop, sx3Z, bins=200)
+        plt.xlabel("EA - EC (MeV)")
+        plt.ylabel("SX3 Z")
+        plt.title("Energy Propagation Difference vs Position")
+        plt.colorbar(label="Counts")
+        plt.tight_layout()
+        plt.savefig(f"{base}/Eprop_vs_sx3Z.png", dpi=300)
+        plt.close()
+    
+        print("Plotting complete.")
+                
+#exec(open("PCEnergyAnalysis.py").read())
 
 if __name__ == "__main__":
     MyInteractiveApp().cmdloop()