change after rebuilding

src/processing_mapping_results/complete_processing_of_mapping_results.py

@@ -8,10 +8,9 @@ import matplotlib.pyplot as plt
 import seaborn as sns
 import numpy as np
 import pandas as pd
-from Visualisation_des_donnes_de_mapping import up_down_path_plot, barplot
+from visu_datas_mapping import up_down_path_plot, barplot
 from utils import column_recovery, comma_cleaning, cor_index, excel_file_writer, excel_m_file_writer
 
-sys.path.append('C:\\Users\\mumec\\Desktop\\Dossier_gitlab_local\\traitement_des_données')
 LOC = "C:\\Users\\mumec\\Desktop\\fichier_mis_en_forme_programme_total\\"
 
 

src/processing_mapping_results/Tests_unitaires/main.py → src/processing_mapping_results/main.py

@@ -7,13 +7,12 @@ from math import log
 from time import time
 import pandas as pd
 import py4cytoscape as p4c
-sys.path.append('C:\\Users\\mumec\\Desktop\\Dossier_gitlab_local\\traitement_des_données')
-sys.path.append('C:\\Users\\mumec\\Desktop\\Dossier_gitlab_local\\chebi-ids.git')
+sys.path.append('.\chebi_id')
 from pdf_generation_toolbox import out_pdf_mapping
-from Recovery_of_associated_Chebi_IDs import chebi_horizontal
+from recovery_of_associated_chebi_id import chebi_horizontal
 from utils import excel_file_writer, pre_cut, recup_all_inf_excel
 from complete_processing_of_mapping_results import c_p_o_m_r
-from Mapping_using_the_API import opti_multimapping
+from mapping_using_api import opti_multimapping
 from network_visualization import paths_link_cpdb, network_visu
 
 FOLDER = "C:\\Users\\mumec\\Desktop\\fichier_mis_en_forme_programme_total\\main\\patho_oeil_06-03-2024\\"
@@ -141,7 +140,7 @@ def workflow(infile, out_folder):
             for i_line in liste:
                 new_line.append(str(i_line[i_col]))
             liste_reverse[i_liste].append(new_line)
-    file_path = "Modele_de_pdf_feneratio_en_anglais_rev_19-02-2024.docx"
+    file_path = "static\\Modele_de_pdf_feneratio_en_anglais_rev_19-02-2024.docx"
     out_pdf_mapping(file_path, data_input, chebi_hori, recap_pdf,
                     result_ramp_pdf[:8], result_cpdb_pdf[:4],
                     out_folder, l_visu)

src/processing_mapping_results/network_visualization.py

@@ -5,7 +5,7 @@ import sys
 import pandas as pd
 import py4cytoscape as p4c
 from utils import excel_file_writer, column_recovery, cor_index
-sys.path.append('C:\\Users\\mumec\\Desktop\\Dossier_gitlab_local\\traitement_des_données')
+
 LOCAL = "C:\\Users\\mumec\\Desktop\\Mini_codes\\network_visualization\\"
 
 

src/processing_mapping_results/pdf_generation_toolbox.py

@@ -3,6 +3,7 @@ this module is design to create pdf of results mapping
 """
 from fpdf import FPDF
 from docx import Document
+import sys
 
 
 class PDF(FPDF):
@@ -148,8 +149,8 @@ class PDF(FPDF):
         displays a page with the correct format.
         """
         self.add_page()
-        self.image("logo_metabohub_metex.png", 175, 4, 33)  # X, Y, taille
-        self.image("Ensemble_des_logos_pdp.png", 20, 275, 170)
+        self.image("static\\logo_metabohub_metex.png", 175, 4, 33)  # X, Y, taille
+        self.image("static\\Ensemble_des_logos_pdp.png", 20, 275, 170)
         self.ln(15)
 
     def guard_page(self, str_tw):
@@ -192,9 +193,8 @@ class PDF(FPDF):
         self.ln(4)
         for str_end1 in cont_end[begin_2pages+1:]:
             self.chapter_body(str_end1)
-        pypdf_f = "C:\\Users\\mumec\\Desktop\\Mini_codes\\pdf_PyPDF2\\"
-        self.image(pypdf_f + "carte_france_fin_doc.png", 90, 100, 100)
-        self.image(pypdf_f + "bandeau_fin_doc.png", 15, 100, 60)
+        self.image("static\\carte_france_fin_doc.png", 90, 100, 100)
+        self.image("static\\bandeau_fin_doc.png", 15, 100, 60)
 
 
 def read_docx(file_path):
@@ -229,9 +229,9 @@ def out_pdf_mapping(file_path, data_input, chebi_hori, recap, results_map_ramp,
     one PDF of global mapping results.
     """
     result_pdf = PDF()
-    result_pdf.add_font('DejaVu', 'I', 'DejaVuSansCondensed.ttf')
-    result_pdf.add_font('DejaVu', 'B', 'DejaVuSansCondensed.ttf')
-    result_pdf.add_font('DejaVu', '', 'DejaVuSansCondensed.ttf')
+    result_pdf.add_font('DejaVu', 'I', 'static\\DejaVuSansCondensed.ttf')
+    result_pdf.add_font('DejaVu', 'B', 'static\\DejaVuSansCondensed.ttf')
+    result_pdf.add_font('DejaVu', '', 'static\\DejaVuSansCondensed.ttf')
     result_pdf.set_font('DejaVu', '', 14)
     content = read_docx(file_path)
     index_toc = content.index('Table of contents')
@@ -313,7 +313,7 @@ if __name__ == "__main__":
                  FOLD_V+"CPDBbar_plot_of_metabolites.png",
                  FOLD_V+"CPDBmetabolites_bo_of_frequency.png",
                  FOLD_V+"CPDBup_down_path_plot.png"]
-    FP = "Modele_de_pdf_feneratio_en_anglais_rev_19-02-2024.docx"
+    FP = "static\\Modele_de_pdf_feneratio_en_anglais_rev_19-02-2024.docx"
 
     out_pdf_mapping(FP, dinput, Chebi_optimal, reca,
                     r_m_r, r_m_c, FOLD_V, list_visu)