diff --git a/src/processing_mapping_results/complete_processing_of_mapping_results.py b/src/processing_mapping_results/complete_processing_of_mapping_results.py
index 2403b63f3da3bfeb92b69f587784e4939f25a9b4..30067cc1dcfdc9eccf6ccbb6a9e584bcf84c7dad 100644
--- a/src/processing_mapping_results/complete_processing_of_mapping_results.py
+++ b/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\\"
diff --git a/src/processing_mapping_results/Tests_unitaires/main.py b/src/processing_mapping_results/main.py
similarity index 95%
rename from src/processing_mapping_results/Tests_unitaires/main.py
rename to src/processing_mapping_results/main.py
index b38b180c5678ce918b6d6658ee59a76eab2fc5fb..d26a54e1cfa44ecdbb2cbe6575d8af06e8688dec 100644
--- a/src/processing_mapping_results/Tests_unitaires/main.py
+++ b/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)
diff --git a/src/processing_mapping_results/network_visualization.py b/src/processing_mapping_results/network_visualization.py
index e575f4e2d1ccf1aed2199759c4b5463c38c81908..263ef9536835732c6051294eca6896729a59dea6 100644
--- a/src/processing_mapping_results/network_visualization.py
+++ b/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\\"
diff --git a/src/processing_mapping_results/pdf_generation_toolbox.py b/src/processing_mapping_results/pdf_generation_toolbox.py
index d18f30e330e2f9ba8dbedafc959644f2eddf314d..cbd95926131a72134b99317c3e498983ad78ca12 100644
--- a/src/processing_mapping_results/pdf_generation_toolbox.py
+++ b/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)