launch only visualisation

scripts/visualisation.py

+  
+import yaml
+with open("config_file.yml", "r") as yamlfile:
+    config = yaml.load(yamlfile, Loader=yaml.FullLoader)
+
+import pandas as pd
+import plotly.express as px
+import os
+
+# System library to manipulate the file system
+from utils import write_excel
+import shutil
+from quads import *
+data_path = config["directory_management"]["data_path"]
+result_path = config["directory_management"]["result_path"]
+#name the files
+if config["file_management"]["table"] == "excel" :
+    df = pd.read_excel(data_path+config["file_management"]["original_data_file"],index_col=0)
+elif config["file_management"]["table"] == "csv" :
+    df = pd.read_csv(data_path+config["file_management"]["original_data_file"],index_col=0)
+
+file_name_qualitative = result_path+\
+	                    config["file_management"]["qualitative_enrichment"]
+
+cluster= config["variable_management"]["cluster_variable"]
+
+#make the visualisations
+col = {'overrepresented' : config["figure_management"]["over_represented"], \
+	   'underrepresented' : config["figure_management"]["under_represented"], \
+	   'Not significant': config["figure_management"]["not_significant"]}
+
+
+if config["file_management"]["table"] == "excel" :
+    df = pd.read_excel(file_name_qualitative,index_col=0)
+elif config["file_management"]["table"] == "csv" :
+    df = pd.read_csv(file_name_qualitative,index_col=0)
+
+sunburst = px.sunburst(df, path=[cluster, 'variables', 'modalities'],\
+                       values=config["figure_management"]["statistic"], \
+                       color = 'signification',\
+                       color_discrete_map=col)
+sunburst.add_annotation(x=0,y=1.1,\
+                        font=dict(color='black',size=14),\
+                        showarrow=False)
+sunburst.add_annotation(x=0.2,y=1,text= 'Overrepresented',\
+font = dict(color=config["figure_management"]["over_represented"],size=14),\
+showarrow=False)
+sunburst.add_annotation(x=0.2,y=0.95,text= 'Underrepresented',\
+font = dict(color=config["figure_management"]["under_represented"],size=14),\
+showarrow=False)
+sunburst.add_annotation(x=0.2,y=0.9,text= 'Not significant',\
+font = dict(color=config["figure_management"]["not_significant"],size=14),\
+showarrow=False)
+sunburst.show()
+