adding snakefile for e850 analysis

Projects/ana_e850/Snakefile

+import os
+import subprocess
+
+# Lire le répertoire d'entrée depuis les arguments de configuration
+#input_directory = config["folder"]
+input_directory = "/home/morfouacep/Physics/ganil/pista/analysisenv-e850-2023/np_raw/part1"
+origin = [] 
+# Iterate over files in input_directory
+for filename in os.listdir(input_directory):
+  f = os.path.join(input_directory, filename)
+  if f.endswith(".root"):
+    origin.append(filename)
+
+# Définir le répertoire de sortie pour les fichiers convertis
+phy_directory = "/home/morfouacep/Physics/NPTool/nptool/Projects/ana_e850/root/analysis"
+#phy_directory = "./"
+
+# define target files directory
+analysedfile = []
+for inputfile in origin:
+  #analysedfile.append("/home/morfouacep/Physics/NPTool/nptool/Projects/ana_e850/root/analysis/"+inputfile.replace("_raw_","_"))
+  analysedfile.append("/home/morfouacep/Physics/NPTool/nptool/Projects/ana_e850/root/analysis/"+inputfile)
+
+## batch rules
+rule all:
+  input:
+    expand("{file}",file=analysedfile)
+
+# Règle pour convertir les fichiers .fast dans le dossier .cat en .root
+rule npanalysis:
+    input:
+       f"{input_directory}/{{name}}.root"
+    output:
+        f"{phy_directory}/{{name}}.root"
+    shell:
+        "npanalysis -T {input} RawTree -C Calibration_part1.txt -D pista_e850_part1.detector -O {output}"
+
+

Projects/ana_e850/convert_snakemake.sh

+#!/bin/bash
+echo "- executing snakemake file for npanalysis..."
+snakemake --cores 8 --forceall --keep-incomplete --keep-going --rerun-incomplete
+echo "- snakemake executed successfully!"