Model/acoustic_inversion_method_high_concentration.py

@@ -20,16 +20,11 @@
 
 # -*- coding: utf-8 -*-
 
-import logging
 
 import numpy as np
 import settings as stg
 from Model.GrainSizeTools import demodul_granulo, mix_gaussian_model
 
-from tools import trace
-
-logger = logging.getLogger("acoused")
-
 
 class AcousticInversionMethodHighConcentration():
 
@@ -208,6 +203,7 @@ class AcousticInversionMethodHighConcentration():
                           r2D,
                           water_attenuation_freq1, water_attenuation_freq2,
                           X):
+
         logVBI = ((zeta_freq2 *
                   np.log(j_cross_section_freq1 * np.exp(4 * r2D * water_attenuation_freq1) /
                          (freq1 ** X)) -
@@ -227,3 +223,5 @@ class AcousticInversionMethodHighConcentration():
     def SSC_sand(self, VBI, freq, X, ks):
         SSC_sand = (16 * np.pi * VBI * freq ** X) / (3 * ks**2)
         return SSC_sand
+
+

Model/create_table_for_save_as.py

@@ -100,17 +100,13 @@ class CreateTableForSaveAs:
           acoustic_data INTEGER,
           temperature FLOAT,
           distance_to_free_surface FLOAT,
-          tmin_index INTEGER, tmin_value FLOAT,
-          tmax_index INTEGER, tmax_value FLOAT,
-          rmin_index INTEGER, rmin_value FLOAT,
-          rmax_index INTEGER, rmax_value FLOAT,
+          tmin_index FLOAT, tmin_value FLOAT,
+          tmax_index FLOAT, tmax_value FLOAT,
+          rmin_index FLOAT, rmin_value FLOAT,
+          rmax_index FLOAT, rmax_value FLOAT,
           freq_bottom_detection_index FLOAT,
           freq_bottom_detection_value STRING,
-          depth_bottom_detection_min FLOAT,
-          depth_bottom_detection_max FLOAT,
-          depth_bottom_detection_inverval FLOAT,
-          SNR_filter_value FLOAT,
-          Nb_cells_to_average_BS_signal FLOAT
+          SNR_filter_value FLOAT, Nb_cells_to_average_BS_signal FLOAT
         )
         """
 
@@ -159,17 +155,6 @@ class CreateTableForSaveAs:
         )
         """
 
-        self.create_Calibration_parameters = """
-        CREATE TABLE CalibrationParameters(
-          ID INTEGER PRIMARY KEY AUTOINCREMENT,
-          acoustic_data INTEGER,
-          freq_1 INTEGER,
-          freq_2 INTEGER,
-          fine_profiles TEXT,
-          sand_target INTEGER
-        )
-        """
-
         self.create_Calibration = """
         CREATE TABLE Calibration(
           ID INTEGER PRIMARY KEY AUTOINCREMENT,
@@ -199,21 +184,8 @@ class CreateTableForSaveAs:
         )
         """
 
-        self.create_Notes = """
-        CREATE TABLE Notes(
-          ID INTEGER PRIMARY KEY AUTOINCREMENT,
-          notes TEXT
-        )
-        """
-
-    def save_as(self):
         self.open_file_dialog()
-        self.save()
 
-    def save(self):
-        start = time.time()
-        self.create_table()
-        logger.info(f"end : {time.time() - start} sec")
 
     def open_file_dialog(self):
         name, _ = QFileDialog.getSaveFileName(
@@ -237,6 +209,10 @@ class CreateTableForSaveAs:
                 os.chdir(stg.dirname_save_as)
             except OSError as e:
                 logger.warning(f"chdir: {str(e)}")
+
+            start = time.time()
+            self.create_table()
+            print(f"end : {time.time() - start} sec")
         else:
             msgBox = QMessageBox()
             msgBox.setWindowTitle("Save Error")
@@ -255,10 +231,8 @@ class CreateTableForSaveAs:
         self.create_table_settings(cnx, cur)
         self.create_table_sediments_file(cnx, cur)
         self.create_table_sediments_data(cnx, cur)
-        self.create_table_calibration_parameters(cnx, cur)
         self.create_table_calibration(cnx, cur)
         self.create_table_inversion(cnx, cur)
-        self.create_table_notes(cnx, cur)
 
         cnx.commit()
 
@@ -439,25 +413,19 @@ class CreateTableForSaveAs:
                   tmin_index, tmin_value, tmax_index, tmax_value,
                   rmin_index, rmin_value, rmax_index, rmax_value,
                   freq_bottom_detection_index, freq_bottom_detection_value,
-                  depth_bottom_detection_min,
-                  depth_bottom_detection_max,
-                  depth_bottom_detection_inverval,
                   SNR_filter_value, Nb_cells_to_average_BS_signal
                 )
-                VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)
+                VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)
                 """,
                 (
                     stg.acoustic_data[i], stg.temperature,
                     stg.distance_from_ABS_to_free_surface[i],
-                    int(stg.tmin[i][0]), stg.tmin[i][1],
-                    int(stg.tmax[i][0]), stg.tmax[i][1],
-                    int(stg.rmin[i][0]), stg.rmin[i][1],
-                    int(stg.rmax[i][0]), stg.rmax[i][1],
+                    stg.tmin[i][0], stg.tmin[i][1],
+                    stg.tmax[i][0], stg.tmax[i][1],
+                    stg.rmin[i][0], stg.rmin[i][1],
+                    stg.rmax[i][0], stg.rmax[i][1],
                     stg.freq_bottom_detection[i][0],
                     stg.freq_bottom_detection[i][1],
-                    stg.depth_bottom_detection_min,
-                    stg.depth_bottom_detection_max,
-                    stg.depth_bottom_detection_interval,
                     stg.SNR_filter_value[i],
                     stg.Nb_cells_to_average_BS_signal[i]
                 )
@@ -549,36 +517,6 @@ class CreateTableForSaveAs:
 
         logger.info(f"table SedimentsData : {time.time() - start_table_SedimentsData} sec")
 
-    def create_table_calibration_parameters(self, cnx, cur):
-        start_table = time.time()
-
-        cur.execute("DROP TABLE if exists CalibrationParameters")
-
-        cur.execute(self.create_Calibration_parameters)
-
-        if stg.calib_acoustic_data != -1:
-            cur.execute(
-                """
-                INSERT INTO CalibrationParameters(
-                  acoustic_data,
-                  freq_1, freq_2,
-                  fine_profiles,
-                  sand_target
-                )
-                VALUES(?, ?, ?, ?, ?)
-                """,
-                (
-                    stg.calib_acoustic_data,
-                    stg.calib_freq_1, stg.calib_freq_2,
-                    ",".join(map(str, stg.calib_fine_profiles)),
-                    stg.calib_sand_target,
-                )
-            )
-
-        cnx.commit()
-
-        logger.info(f"table CalibrationParameters : {time.time() - start_table} sec")
-
     def create_table_calibration(self, cnx, cur):
         start_table_Calibration = time.time()
 
@@ -589,7 +527,7 @@ class CreateTableForSaveAs:
         if len(stg.range_lin_interp) != 0:
             cur.execute(
                 """
-                INSERT INTO Calibration(
+                INSERT into Calibration(
                   path_calibration_file, filename_calibration_file,
                   range_lin_interp, M_profile_fine,
                   ks, sv, X_exponent, alpha_s, zeta,
@@ -643,25 +581,3 @@ class CreateTableForSaveAs:
         cnx.commit()
 
         logger.info(f"table Inversion : {time.time() - start_table_Inversion} sec")
-
-    def create_table_notes(self, cnx, cur):
-        start_table = time.time()
-
-        cur.execute("DROP TABLE if exists Notes")
-
-        cur.execute(self.create_Notes)
-
-        for i in range(len(stg.SSC_fine)):
-            cur.execute(
-                """
-                INSERT into Notes(
-                  notes
-                )
-                VALUES(?)
-                """,
-                (stg.notes,)
-            )
-
-        cnx.commit()
-
-        logger.info(f"table Notes : {time.time() - start_table} sec")

Model/read_table_for_open.py

@@ -66,6 +66,7 @@ class ReadTableForOpen:
             self.read_table()
             self.opened = True
 
+
     def execute(self, query):
         return self._cur.execute(query).fetchall()
 
@@ -83,9 +84,7 @@ class ReadTableForOpen:
         self.read_table_settings()
         self.read_table_sediment_file()
         self.read_table_table_sediment_data()
-        self.read_table_table_calibration_parameters()
         self.read_table_table_calibration()
-        self.read_table_table_notes()
 
         logger.debug(f"Reading '{stg.filename_open}' done")
 
@@ -113,6 +112,7 @@ class ReadTableForOpen:
               WHERE (acoustic_data = {k})
             '''
             data = self.execute(query)[0]
+            print("data acoustic file", data)
 
             stg.filename_BS_raw_data.append(
                 str(data[1]) + '.aqa'
@@ -125,8 +125,6 @@ class ReadTableForOpen:
             stg.noise_value.append(data[6])
             stg.data_preprocessed.append(data[7])
 
-            self.read_table_acoustic_file_init_others_data()
-
             logger.debug("data acoustic file:")
             logger.debug(f"-  {stg.filename_BS_raw_data}")
             logger.debug(f"-  {stg.ABS_name}")
@@ -136,14 +134,6 @@ class ReadTableForOpen:
             logger.debug(f"-  {stg.noise_value}")
             logger.debug(f"-  {stg.data_preprocessed}")
 
-    def read_table_acoustic_file_init_others_data(self):
-        stg.kt2D.append(np.array([]))
-        stg.kt3D.append(np.array([]))
-        stg.J_cross_section.append([np.array([]), np.array([])])
-        stg.VBI_cross_section.append(np.array([]))
-        stg.SSC_fine.append(np.array([]))
-        stg.SSC_sand.append(np.array([]))
-
     def read_table_measure(self):
         stg.date = [0]*len(stg.acoustic_data)
         stg.hour = [0]*len(stg.acoustic_data)
@@ -199,17 +189,12 @@ class ReadTableForOpen:
             logger.debug(f"- stg.kt_read {stg.kt_read}")
             logger.debug(f"- stg.kt_corrected {stg.kt_corrected}")
             logger.debug(f"- stg.nb_profiles {stg.nb_profiles}")
-            logger.debug(
-                f"- stg.nb_profiles_per_sec {stg.nb_profiles_per_sec}"
-            )
+            logger.debug(f"- stg.nb_profiles_per_sec {stg.nb_profiles_per_sec}")
             logger.debug(f"- stg.nb_cells {stg.nb_cells}")
             logger.debug(f"- stg.cell_size {stg.cell_size}")
             logger.debug(f"- stg.pulse_length {stg.pulse_length}")
             logger.debug(f"- stg.nb_pings_per_sec {stg.nb_pings_per_sec}")
-            logger.debug(
-                "- stg.nb_pings_averaged_per_profile "
-                + f"{stg.nb_pings_averaged_per_profile}"
-            )
+            logger.debug(f"- stg.nb_pings_averaged_per_profile {stg.nb_pings_averaged_per_profile}")
             logger.debug(f"- stg.gain_rx {stg.gain_rx}")
             logger.debug(f"- stg.gain_tx {stg.gain_tx}")
 
@@ -384,8 +369,8 @@ class ReadTableForOpen:
 
         it = iter(data)
 
-        time = np_f64_parse(next(it))
-        depth = np_f64_parse(next(it))
+        time = next(it)
+        depth = next(it)
         BS = np_f64_parse(next(it))
 
         if len(BS) == 0:
@@ -395,12 +380,12 @@ class ReadTableForOpen:
             stg.BS_noise_averaged_data.append(np.array([]))
         else:
             stg.time_noise.append(
-                time.reshape(
+                np_f64_parse(time).reshape(
                     (stg.freq[i].shape[0], -1)
                 )
             )
             stg.depth_noise.append(
-                depth.reshape(
+                np_f64_parse(depth).reshape(
                     (stg.freq[i].shape[0], -1)
                 )
             )
@@ -438,18 +423,10 @@ class ReadTableForOpen:
         for dest, resh in SNR_vars:
             SNR = np_f64_parse(next(it))
 
-            try:
-                if len(SNR) != 0:
-                    dest.append(SNR.reshape(resh[i].shape))
-                else:
-                    dest.append(np.array([]))
-            except:
-                logger.warning(
-                    "SQL: read_table_BS_raw_data_SNR: "
-                    + "failed to reshape data from "
-                    + f"{SNR.shape} to {resh[i].shape}"
-                )
+            if len(SNR) == 0:
                 dest.append(np.array([]))
+            else:
+                dest.append(SNR.reshape(resh[i].shape))
 
     def read_table_BS_raw_data_rest(self, query, i):
         np_f64_parse = lambda d: np.frombuffer(d, dtype=np.float64)
@@ -509,34 +486,27 @@ class ReadTableForOpen:
                 tmin_index, tmin_value, tmax_index, tmax_value,
                 rmin_index, rmin_value, rmax_index, rmax_value,
                 freq_bottom_detection_index, freq_bottom_detection_value,
-                depth_bottom_detection_min,
-                depth_bottom_detection_max,
-                depth_bottom_detection_inverval,
                 SNR_filter_value, Nb_cells_to_average_BS_signal
               FROM Settings
               WHERE (acoustic_data = {s})
             '''
 
             data = self.execute(query3)
-            it = iter(data[0])
+            x = data[0]
 
-            acoustic_data = next(it)
-            stg.temperature = [next(it)][0]
-            stg.distance_from_ABS_to_free_surface.append(next(it))
-            stg.tmin.append((next(it), next(it)))
-            stg.tmax.append((next(it), next(it)))
-            stg.rmin.append((next(it), next(it)))
-            stg.rmax.append((next(it), next(it)))
-            stg.freq_bottom_detection.append((next(it), next(it)))
-            stg.depth_bottom_detection_min = next(it)
-            stg.depth_bottom_detection_max = next(it)
-            stg.depth_bottom_detection_interval = next(it)
-            stg.SNR_filter_value.append(next(it))
-            stg.Nb_cells_to_average_BS_signal.append(next(it))
+            stg.temperature = [x[1]][0]
+            stg.distance_from_ABS_to_free_surface.append(x[2])
+            stg.tmin.append((x[3], x[4]))
+            stg.tmax.append((x[5], x[6]))
+            stg.rmin.append((x[7], x[8]))
+            stg.rmax.append((x[9], x[10]))
+            stg.freq_bottom_detection.append((x[11], x[12]))
+            stg.SNR_filter_value.append(x[13])
+            stg.Nb_cells_to_average_BS_signal.append(x[14])
 
             logger.debug(f"stg.temperature: {stg.temperature}")
             logger.debug(f"stg.tmin: {stg.tmin}")
-            logger.debug(f"stg.tmax: {stg.tmax}")
+            logger.debug(f"stg.tmin: {stg.tmax}")
             logger.debug(f"stg.SNR_filter_value: {stg.SNR_filter_value}")
 
     def read_table_sediment_file(self):
@@ -572,6 +542,7 @@ class ReadTableForOpen:
             + list(stg.radius_grain_sand)
         )
 
+    @trace
     def read_table_table_sediment_data(self):
         np_f64_parse = lambda d: np.frombuffer(d, dtype=np.float64)
 
@@ -629,68 +600,7 @@ class ReadTableForOpen:
 
         logger.debug(f"fine: {stg.Ctot_fine}, sand: {stg.sample_sand}")
 
-    def read_table_table_calibration_parameters(self):
-        np_f64_parse = lambda d: np.frombuffer(d, dtype=np.float64)
-
-        query = f'''
-          SELECT
-            acoustic_data,
-            freq_1, freq_2,
-            fine_profiles,
-            sand_target
-          FROM CalibrationParameters
-        '''
-
-        data = self.execute(query)
-        it = iter(data[0])
-
-        stg.calib_acoustic_data = next(it)
-        stg.calib_freq_1 = next(it)
-        stg.calib_freq_2 = next(it)
-        stg.calib_fine_profiles = list(
-            map(
-                int,
-                filter(
-                    lambda x: x != '',
-                    next(it).split(",")
-                )
-            )
-        )
-        stg.calib_sand_target = next(it)
-
-        logger.debug(f"stg.calib_acoustic_data: {stg.calib_acoustic_data}")
-        logger.debug(f"stg.calib_freq_1: {stg.calib_freq_1}")
-        logger.debug(f"stg.calib_freq_2: {stg.calib_freq_2}")
-        logger.debug(f"stg.calib_fine_profiles: {stg.calib_fine_profiles}")
-        logger.debug(f"stg.calib_sand_target: {stg.calib_sand_target}")
-
-        stg.frequencies_for_calibration.clear()
-        for freq in [stg.calib_freq_1, stg.calib_freq_2]:
-            stg.frequencies_for_calibration.append(
-                (
-                    stg.freq[stg.calib_acoustic_data][freq],
-                    freq
-                )
-            )
-
-        stg.fine_sample_profile.clear()
-        for profile_id in stg.calib_fine_profiles:
-            stg.fine_sample_profile.append(
-                (
-                    stg.sample_fine[profile_id],
-                    profile_id
-                )
-            )
-
-        stg.sand_sample_target.clear()
-        if stg.calib_sand_target != -1:
-            stg.sand_sample_target.append(
-                (
-                    stg.sample_sand[stg.calib_sand_target],
-                    stg.calib_sand_target
-                )
-            )
-
+    @trace
     def read_table_table_calibration(self):
         np_f64_parse = lambda d: np.frombuffer(d, dtype=np.float64)
 
@@ -714,23 +624,11 @@ class ReadTableForOpen:
         stg.filename_calibration_file = next(it)
         stg.range_lin_interp = np_f64_parse(next(it))
         stg.M_profile_fine = np_f64_parse(next(it))
-        stg.ks = np_f64_parse(next(it)).tolist()
-        stg.sv = np_f64_parse(next(it)).tolist()
-        stg.X_exponent = np_f64_parse(next(it)).tolist()
-        stg.alpha_s = np_f64_parse(next(it)).tolist()
-        stg.zeta = np_f64_parse(next(it)).tolist()
-        stg.FCB = np_f64_parse(next(it)).tolist()
-        stg.depth_real = np_f64_parse(next(it)).tolist()
-        stg.lin_reg = np_f64_parse(next(it)).tolist()
-
-    def read_table_table_notes(self):
-        np_f64_parse = lambda d: np.frombuffer(d, dtype=np.float64)
-
-        query = f'''
-          SELECT notes
-          FROM Notes
-        '''
-
-        data = self.execute(query)
-        if len(data) != 0:
-            stg.notes = data[0][0]
+        stg.ks = np_f64_parse(next(it))
+        stg.sv = np_f64_parse(next(it))
+        stg.X_exponent = np_f64_parse(next(it))
+        stg.alpha_s = np_f64_parse(next(it))
+        stg.zeta = np_f64_parse(next(it))
+        stg.FCB = np_f64_parse(next(it))
+        stg.depth_real = np_f64_parse(next(it))
+        stg.lin_reg = np_f64_parse(next(it))

Model/update_table_for_save.py

@@ -0,0 +1,469 @@
+# ============================================================================== #
+    # update_table_for_save.py - AcouSed                                   #
+    # Copyright (C) 2024  INRAE                                              #
+    #                                                                        #
+    # This program is free software: you can redistribute it and/or modify   #
+    # it under the terms of the GNU General Public License as published by   #
+    # the Free Software Foundation, either version 3 of the License, or      #
+    # (at your option) any later version.                                    #
+    #                                                                        #
+    # This program is distributed in the hope that it will be useful,        #
+    # but WITHOUT ANY WARRANTY; without even the implied warranty of         #
+    # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the          #
+    # GNU General Public License for more details.                           #
+    #                                                                        #
+    # You should have received a copy of the GNU General Public License      #
+    # along with this program.  If not, see <https://www.gnu.org/licenses/>. #
+
+    #                                                      by Brahim MOUDJED #
+# ============================================================================== #
+
+# -*- coding: utf-8 -*-
+
+
+import numpy as np
+from PyQt5.QtWidgets import QFileDialog, QApplication, QMessageBox
+import sqlite3
+import settings as stg
+from os import chdir, getcwd
+import time
+
+
+class UpdateTableForSave:
+
+    def __init__(self):
+
+        if stg.dirname_save_as:
+            start = time.time()
+            chdir(stg.dirname_save_as)
+            print("get cwd for save :", getcwd())
+            print("stg.filename_save_as ", stg.filename_save_as)
+            self.update_table()
+            print(f"end : {time.time() - start} sec")
+        else:
+            msgBox = QMessageBox()
+            msgBox.setWindowTitle("Save Error")
+            msgBox.setIcon(QMessageBox.Warning)
+            msgBox.setText("Use 'Save as' before 'Save'")
+            msgBox.setStandardButtons(QMessageBox.Ok)
+            msgBox.exec()
+
+    def update_table(self):
+
+        # Create a new database and open a database connection to allow sqlite3 to work with it.
+        cnx = sqlite3.connect(stg.filename_save_as)
+
+        # Create database cursor to execute SQL statements and fetch results from SQL queries.
+        cur = cnx.cursor()
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # +++++++++++++++++++++++++++
+                                                # --- Table Acoustic File ---
+                                                # +++++++++++++++++++++++++++
+
+        start_table_AcousticFile = time.time()
+
+        cur.execute('''DROP TABLE AcousticFile''')
+
+        cur.execute("""CREATE TABLE AcousticFile(ID INTEGER PRIMARY KEY AUTOINCREMENT,
+                                                 acoustic_data INTEGER,
+                                                 acoustic_file STRING,
+                                                 ABS_name STRING,
+                                                 path_BS_noise_data STRING,
+                                                 filename_BS_noise_data STRING,
+                                                 noise_method FLOAT,
+                                                 noise_value FLOAT,
+                                                 data_preprocessed STRING
+                                                 )"""
+                    )
+
+        for i in stg.acoustic_data:
+            print("stg.acoustic_data ", stg.acoustic_data[i])
+            print("stg.filename_BS_raw_data ", stg.filename_BS_raw_data[i])
+            print('stg.ABS_name', stg.ABS_name)
+            print("stg.path_BS_raw_data ", stg.path_BS_raw_data[i])
+
+            cur.execute(''' INSERT into AcousticFile(acoustic_data, acoustic_file, ABS_name, path_BS_noise_data,
+                                                         filename_BS_noise_data, noise_method, noise_value, data_preprocessed)
+                                            VALUES(?, ?, ?, ?, ?, ?, ?, ?)''',
+                        (stg.acoustic_data[i], stg.filename_BS_raw_data[i].split('.')[0], stg.ABS_name[i],
+                         stg.path_BS_noise_data[i], stg.filename_BS_noise_data[i], stg.noise_method[i],
+                         stg.noise_value[i], stg.data_preprocessed[i])
+                        )
+
+        cnx.commit()
+        print(f"Table AcousticFile : {time.time() - start_table_AcousticFile} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # ++++++++++++++++++++++++++
+                                                # --- Table Measurements ---
+                                                # ++++++++++++++++++++++++++
+
+        start_table_Measure = time.time()
+
+        # Drop Table if exists
+        cur.execute("DROP TABLE if exists Measure")
+
+        cur.execute(
+            """
+            CREATE TABLE Measure(
+              ID INTEGER PRIMARY KEY AUTOINCREMENT,
+              acoustic_data INTEGER,
+              Date STRING,
+              Hour STRING,
+              frequency FLOAT,
+              sound_attenuation FLOAT,
+              kt_read FLOAT,
+              kt_corrected FLOAT,
+              NbProfiles FLOAT,
+              NbProfilesPerSeconds FLOAT,
+              NbCells FLOAT,
+              CellSize FLOAT,
+              PulseLength FLOAT,
+              NbPingsPerSeconds FLOAT,
+              NbPingsAveragedPerProfile FLOAT,
+              GainRx FLOAT,
+              GainTx FLOAT
+            )"""
+        )
+
+        # Fill the table Measure
+        for i in stg.acoustic_data:
+            for j in range(stg.freq[i].shape[0]):
+                cur.execute(
+                    '''
+                    INSERT into Measure(
+                      acoustic_data,
+                      Date, Hour,
+                      frequency,
+                      sound_attenuation,
+                      kt_read, kt_corrected,
+                      NbProfiles, NbProfilesPerSeconds,
+                      NbCells, CellSize,
+                      PulseLength,
+                      NbPingsPerSeconds,
+                      NbPingsAveragedPerProfile,
+                      GainRx, GainTx
+                    ) VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)''',
+                    (
+                        stg.acoustic_data[i],
+                        stg.date[i].isoformat(),
+                        stg.hour[i].isoformat(),
+                        stg.freq[i][j],
+                        stg.water_attenuation[i][j],
+                        stg.kt_read[j],
+                        stg.kt_corrected[j],
+                        stg.nb_profiles[i][j],
+                        stg.nb_profiles_per_sec[i][j],
+                        stg.nb_cells[i][j],
+                        stg.cell_size[i][j],
+                        stg.pulse_length[i][j],
+                        stg.nb_pings_per_sec[i][j],
+                        stg.nb_pings_averaged_per_profile[i][j],
+                        stg.gain_rx[i][j], stg.gain_tx[i][j]
+                    )
+                )
+
+        # Commit the transaction after executing INSERT.
+        cnx.commit()
+
+        print(f"table Measure : {time.time() - start_table_Measure} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # +++++++++++++++++++++++++++
+                                                # --- Table Acoustic Data ---
+                                                # +++++++++++++++++++++++++++
+
+        start_table_BSRawData = time.time()
+
+        cur.execute(''' DROP TABLE BSRawData ''')
+
+        cur.execute('''CREATE TABLE BSRawData(ID INTEGER PRIMARY KEY AUTOINCREMENT,
+                                                acoustic_data INTEGER,
+                                                time BLOB, depth BLOB, BS_raw_data BLOB,
+                                                time_reshape BLOB, depth_reshape BLOB, BS_raw_data_reshape BLOB,
+                                                time_cross_section BLOB, depth_cross_section BLOB, BS_cross_section BLOB, BS_stream_bed BLOB,
+                                                depth_bottom, val_bottom, ind_bottom,
+                                                time_noise BLOB, depth_noise BLOB, BS_noise_raw_data BLOB,
+                                                SNR_raw_data BLOB, SNR_cross_section BLOB, SNR_stream_bed BLOB,
+                                                BS_raw_data_pre_process_SNR BLOB, BS_raw_data_pre_process_average BLOB,
+                                                BS_cross_section_pre_process_SNR BLOB, BS_cross_section_pre_process_average BLOB,
+                                                BS_stream_bed_pre_process_SNR BLOB, BS_stream_bed_pre_process_average BLOB,
+                                                BS_mean BLOB
+                                                )''')
+
+        for i in stg.acoustic_data:
+
+            cur.execute(''' INSERT into BSRawData(acoustic_data, time, depth, BS_raw_data,
+                                                      time_reshape, depth_reshape, BS_raw_data_reshape,
+                                                      time_cross_section, depth_cross_section,
+                                                      BS_cross_section, BS_stream_bed,
+                                                      depth_bottom, val_bottom, ind_bottom,
+                                                      time_noise, depth_noise, BS_noise_raw_data,
+                                                      SNR_raw_data, SNR_cross_section, SNR_stream_bed,
+                                                      BS_raw_data_pre_process_SNR, BS_raw_data_pre_process_average,
+                                                      BS_cross_section_pre_process_SNR, BS_cross_section_pre_process_average,
+                                                      BS_stream_bed_pre_process_SNR, BS_stream_bed_pre_process_average,
+                                                      BS_mean)
+                                    VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)''',
+                            (stg.acoustic_data[i], stg.time[i].tobytes(), stg.depth[i].tobytes(), stg.BS_raw_data[i].tobytes(),
+                             stg.time_reshape[i].tobytes(),
+                             stg.depth_reshape[i].tobytes(),
+                             stg.BS_raw_data_reshape[i].tobytes(),
+                             stg.time_cross_section[i].tobytes(),
+                             stg.depth_cross_section[i].tobytes(),
+                             stg.BS_cross_section[i].tobytes(),
+                             np.array(stg.BS_stream_bed[i]).tobytes(),
+                             np.array(stg.depth_bottom[i]).tobytes(),
+                             np.array(stg.val_bottom[i]).tobytes(),
+                             np.array(stg.ind_bottom[i]).tobytes(),
+                             np.array(stg.time_noise[i]).tobytes(),
+                             np.array(stg.depth_noise[i]).tobytes(),
+                             np.array(stg.BS_noise_raw_data[i]).tobytes(),
+                             np.array(stg.SNR_raw_data[i]).tobytes(),
+                             np.array(stg.SNR_cross_section[i]).tobytes(),
+                             np.array(stg.SNR_stream_bed[i]).tobytes(),
+                             np.array(stg.BS_raw_data_pre_process_SNR[i]).tobytes(),
+                             np.array(stg.BS_raw_data_pre_process_average[i]).tobytes(),
+                             np.array(stg.BS_cross_section_pre_process_SNR[i]).tobytes(),
+                             np.array(stg.BS_cross_section_pre_process_average[i]).tobytes(),
+                             np.array(stg.BS_stream_bed_pre_process_SNR[i]).tobytes(),
+                             np.array(stg.BS_stream_bed_pre_process_average[i]).tobytes(),
+                             np.array(stg.BS_mean[i]).tobytes()
+                             )
+                            )
+
+            cnx.commit()
+
+        print(f"table BSRawData : {time.time() - start_table_BSRawData} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # ++++++++++++++++++++++
+                                                # --- Table Settings ---
+                                                # ++++++++++++++++++++++
+
+        start_table_Settings = time.time()
+
+        cur.execute(''' DROP TABLE Settings''')
+
+        cur.execute('''
+        CREATE TABLE Settings(
+          ID INTEGER PRIMARY KEY AUTOINCREMENT,
+          acoustic_data INTEGER,
+          temperature FLOAT,
+          distance_to_free_surface FLOAT,
+          tmin_index FLOAT, tmin_value FLOAT,
+          tmax_index FLOAT, tmax_value FLOAT,
+          rmin_index FLOAT, rmin_value FLOAT,
+          rmax_index FLOAT, rmax_value FLOAT,
+          freq_bottom_detection_index FLOAT,
+          freq_bottom_detection_value STRING,
+          SNR_filter_value FLOAT,
+          Nb_cells_to_average_BS_signal FLOAT
+        )
+        '''
+                    )
+
+        for i in stg.acoustic_data:
+            cur.execute('''
+              INSERT into Settings(
+                acoustic_data, temperature,
+                distance_to_free_surface,
+                tmin_index, tmin_value, tmax_index, tmax_value,
+                rmin_index, rmin_value, rmax_index, rmax_value,
+                freq_bottom_detection_index, freq_bottom_detection_value,
+                SNR_filter_value, Nb_cells_to_average_BS_signal
+              ) VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)
+            ''',
+                        (
+                            stg.acoustic_data[i], stg.temperature,
+                            stg.distance_from_ABS_to_free_surface[i],
+                            stg.tmin[i][0], stg.tmin[i][1],
+                            stg.tmax[i][0], stg.tmax[i][1],
+                            stg.rmin[i][0], stg.rmin[i][1],
+                            stg.rmax[i][0], stg.rmax[i][1],
+                            stg.freq_bottom_detection[i][0],
+                            stg.freq_bottom_detection[i][1],
+                            stg.SNR_filter_value[i],
+                            stg.Nb_cells_to_average_BS_signal[i]
+                        )
+            )
+
+        cnx.commit()
+
+        print(f"table Settings : {time.time() - start_table_Settings} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # ++++++++++++++++++++++++++++
+                                                # --- Table Sediments File ---
+                                                # ++++++++++++++++++++++++++++
+
+        start_table_SedimentsFile = time.time()
+
+        cur.execute("DROP TABLE if exists SedimentsFile")
+
+        cur.execute("""CREATE TABLE SedimentsFile(ID INTEGER PRIMARY KEY AUTOINCREMENT,
+                                                          path_fine STRING,
+                                                          filename_fine STRING,
+                                                          radius_grain_fine BLOB,
+                                                          path_sand STRING,
+                                                          filename_sand STRING,
+                                                          radius_grain_sand BLOB,
+                                                          time_column_label STRING,
+                                                          distance_from_bank_column_label STRING,
+                                                          depth_column_label STRING,
+                                                          Ctot_fine_column_label STRING,
+                                                          D50_fine_column_label STRING,
+                                                          Ctot_sand_column_label STRING,
+                                                          D50_sand_column_label STRING
+                                                          )"""
+                    )
+
+        cur.execute('''INSERT into SedimentsFile(path_fine, filename_fine, radius_grain_fine,
+                                                     path_sand, filename_sand, radius_grain_sand,
+                                                     time_column_label, distance_from_bank_column_label,
+                                                     depth_column_label, Ctot_fine_column_label,
+                                                     D50_fine_column_label, Ctot_sand_column_label,
+                                                     D50_sand_column_label)
+                            VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)''',
+                    (stg.path_fine, stg.filename_fine, stg.radius_grain_fine.tobytes(),
+                     stg.path_sand, stg.filename_sand, stg.radius_grain_sand.tobytes(),
+                     stg.columns_fine[0], stg.columns_fine[1], stg.columns_fine[2],
+                     stg.columns_fine[3], stg.columns_fine[4], stg.columns_sand[3], stg.columns_sand[4]))
+
+        cnx.commit()
+
+        print(f"table SedimentsFile : {time.time() - start_table_SedimentsFile} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # ++++++++++++++++++++++++++++
+                                                # --- Table Sediments Data ---
+                                                # ++++++++++++++++++++++++++++
+
+        start_table_SedimentsData = time.time()
+
+        cur.execute("DROP TABLE if exists SedimentsData")
+
+        cur.execute("""CREATE TABLE SedimentsData(ID INTEGER PRIMARY KEY AUTOINCREMENT,
+                                                  sample_fine_name STRING,
+                                                  sample_fine_index INTEGER,
+                                                  distance_from_bank_fine FLOAT,
+                                                  depth_fine FLOAT,
+                                                  time_fine FLOAT,
+                                                  Ctot_fine FLOAT,
+                                                  Ctot_fine_per_cent FLOAT,
+                                                  D50_fine FLOAT,
+                                                  frac_vol_fine BLOB,
+                                                  frac_vol_fine_cumul BLOB,
+                                                  sample_sand_name STRING,
+                                                  sample_sand_index INTEGER,
+                                                  distance_from_bank_sand FLOAT,
+                                                  depth_sand FLOAT,
+                                                  time_sand FLOAT,
+                                                  Ctot_sand FLOAT,
+                                                  Ctot_sand_per_cent FLOAT,
+                                                  D50_sand FLOAT,
+                                                  frac_vol_sand BLOB,
+                                                  frac_vol_sand_cumul BLOB
+                                                  )"""
+                    )
+
+        for f in range(len(stg.sample_fine)):
+            cur.execute('''INSERT into SedimentsData(sample_fine_name, sample_fine_index, distance_from_bank_fine,
+                                            depth_fine, time_fine, Ctot_fine, Ctot_fine_per_cent, D50_fine, frac_vol_fine,
+                                            frac_vol_fine_cumul,
+                                            sample_sand_name, sample_sand_index, distance_from_bank_sand,
+                                            depth_sand, time_sand, Ctot_sand, Ctot_sand_per_cent, D50_sand, frac_vol_sand,
+                                            frac_vol_sand_cumul)
+                                VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)''',
+                        (stg.sample_fine[f][0], stg.sample_fine[f][1],
+                         stg.distance_from_bank_fine[f], stg.depth_fine[f], stg.time_fine[f], stg.Ctot_fine[f],
+                         stg.Ctot_fine_per_cent[f], stg.D50_fine[f],
+                         stg.frac_vol_fine[f].tobytes(), stg.frac_vol_fine_cumul[f].tobytes(),
+                         stg.sample_sand[f][0], stg.sample_sand[f][1],
+                         stg.distance_from_bank_sand[f], stg.depth_sand[f], stg.time_sand[f], stg.Ctot_sand[f],
+                         stg.Ctot_sand_per_cent[f], stg.D50_sand[f],
+                         stg.frac_vol_sand[f].tobytes(), stg.frac_vol_sand_cumul[f].tobytes()
+                         ))
+
+        cnx.commit()
+
+        print(f"table SedimentsData : {time.time() - start_table_SedimentsData} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # ++++++++++++++++++++++++++++++
+                                                # --- Table Calibration ---
+                                                # ++++++++++++++++++++++++++++++
+
+        start_table_Calibration = time.time()
+
+        cur.execute("DROP TABLE if exists Calibration")
+
+        cur.execute("""CREATE TABLE Calibration(ID INTEGER PRIMARY KEY AUTOINCREMENT,
+                                                path_calibration_file STRING,
+                                                filename_calibration_file STRING,
+                                                range_lin_interp BLOB,
+                                                M_profile_fine BLOB,
+                                                ks BLOB,
+                                                sv BLOB,
+                                                X_exponent BLOB,
+                                                alpha_s BLOB,
+                                                zeta BLOB,
+                                                FCB BLOB,
+                                                depth_real BLOB,
+                                                lin_reg BLOB
+                                                )"""
+                    )
+
+        cur.execute('''INSERT into Calibration(path_calibration_file, filename_calibration_file,
+                                                            range_lin_interp, M_profile_fine,
+                                                            ks, sv, X_exponent, alpha_s, zeta,
+                                                            FCB, depth_real, lin_reg)
+                                    VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)''',
+                    (stg.path_calibration_file, stg.filename_calibration_file,
+                     stg.range_lin_interp.tobytes(), stg.M_profile_fine.tobytes(),
+                     np.array(stg.ks).tobytes(), np.array(stg.sv).tobytes(), np.array(stg.X_exponent).tobytes(),
+                     np.array(stg.alpha_s).tobytes(), np.array(stg.zeta).tobytes(),
+                     stg.FCB.tobytes(), stg.depth_real.tobytes(), np.array(stg.lin_reg).tobytes())
+                    )
+
+        cnx.commit()
+
+        print(f"table Calibration : {time.time() - start_table_Calibration} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+                                                # ++++++++++++++++++++++++++++++
+                                                # --- Table Inversion ---
+                                                # ++++++++++++++++++++++++++++++
+
+        start_table_Inversion = time.time()
+
+        cur.execute("DROP TABLE if exists Inversion")
+
+        cur.execute("""CREATE TABLE Inversion(ID INTEGER PRIMARY KEY AUTOINCREMENT,
+                                              J_cross_section_freq1 BLOB,
+                                              J_cross_section_freq2 BLOB,
+                                              VBI_cross_section BLOB,
+                                              SSC_fine BLOB,
+                                              SSC_sand BLOB
+                                              )""")
+
+        for i in range(len(stg.SSC_fine)):
+            cur.execute('''INSERT into Inversion(J_cross_section_freq1, J_cross_section_freq2,
+                                                            VBI_cross_section, SSC_fine, SSC_sand)
+                                        VALUES(?, ?, ?, ?, ?)''',
+                        (stg.J_cross_section[i][0].tobytes(), stg.J_cross_section[i][1].tobytes(),
+                         stg.VBI_cross_section[i].tobytes(), stg.SSC_fine[i].tobytes(), stg.SSC_sand[i].tobytes())
+                        )
+
+        cnx.commit()
+
+        print(f"table Inversion : {time.time() - start_table_Inversion} sec")
+
+        # --------------------------------------------------------------------------------------------------------------
+
+        # Close database cursor
+        cur.close()
+
+        # Close database connection
+        cnx.close()

View/about_window.py

@@ -29,18 +29,19 @@ import os
 class Logos():
 
     def __init__(self):
-        self.logo_AcouSed = os.path.join('logos', "AcouSed.png")
 
-        self.logo_INRAE = os.path.join('logos', "BlocMarque-INRAE-Inter.jpg")
+        self.logo_AcouSed = (os.path.join('logos', "AcouSed.png"))
 
-        self.logo_OSR = os.path.join('logos', "OSR.png")
-        self.logo_europe = os.path.join('logos', "Europe.png")
-        self.logo_saone_rhone = os.path.join('logos', "plan_Rhone_Saone.png")
-        self.logo_carnot = os.path.join('logos', "Carnot_EE.png")
+        self.logo_INRAE = (os.path.join('logos', "BlocMarque-INRAE-Inter.jpg"))
 
-        self.logo_CNR = os.path.join('logos', "CNR.png")
-        self.logo_EDF = os.path.join('logos', "EDF.png")
-        self.logo_Ubertone = os.path.join('logos', "Ubertone.jpg")
+        self.logo_OSR = (os.path.join('logos', "OSR.png"))
+        self.logo_europe = (os.path.join('logos', "Europe.png"))
+        self.logo_saone_rhone = (os.path.join('logos', "plan_Rhone_Saone.png"))
+        self.logo_carnot = (os.path.join('logos', "Carnot_EE.png"))
+
+        self.logo_CNR = (os.path.join('logos', "CNR.png"))
+        self.logo_EDF = (os.path.join('logos', "EDF.png"))
+        self.logo_Ubertone = (os.path.join('logos', "Ubertone.jpg"))
 
 logos_inst = Logos()
 
@@ -48,6 +49,7 @@ logos_inst = Logos()
 class AboutWindow(QDialog):
 
     def __init__(self):
+
         super().__init__()
 
         self.setGeometry(400, 200, 350, 200)
@@ -69,12 +71,12 @@ class AboutWindow(QDialog):
 
         self.label_acoused = QLabel()
         self.label_acoused.setText("Acoused 2.0")
-        self.label_acoused.setFont(QFont("DejaVu Sans", 14))
+        self.label_acoused.setFont(QFont("Ubuntu", 14))
         self.gridLayout.addWidget(self.label_acoused, 0, 1, 1, 1, Qt.AlignCenter)
 
         self.label_date = QLabel()
         self.label_date.setText("2025.01.01")
-        self.label_date.setFont(QFont("DejaVu Sans", 12))
+        self.label_date.setFont(QFont("Ubuntu", 12))
         self.gridLayout.addWidget(self.label_date, 1, 1, 1, 1, Qt.AlignCenter)
 
         self.label_logo_INRAE = QLabel()
@@ -300,3 +302,5 @@ class Authors(QDialog):
 #     w = AboutWindow()
 #     w.show()
 #     sys.exit(app.exec_())
+
+

View/checkable_combobox.py

@@ -121,18 +121,6 @@ class CheckableComboBox(QComboBox):
                 res.append(self.model().item(i).data())
         return res
 
-    def currentIndexes(self):
-        # Return the list of selected items id
-        res = []
-        for i in range(self.model().rowCount()):
-            if self.model().item(i).checkState() == Qt.Checked:
-                res.append(i)
-        return res
-
-    def setCurrentIndexes(self, indexes):
-        for i in range(self.model().rowCount()):
-            if i in indexes:
-                self.model().item(i).setCheckState(Qt.Checked)
 
 # class CheckableComboBox(QComboBox):
 #     def __init__(self):
@@ -163,3 +151,4 @@ class CheckableComboBox(QComboBox):
 #     def itemChecked(self, index):
 #         item = self.model().item(index, self.modelColumn())
 #         return item.checkState() == Qt.Checked
+

View/mainwindow.py

@@ -39,6 +39,7 @@ from subprocess import Popen
 
 from PyQt5 import QtCore, QtGui, QtWidgets
 from Model.create_table_for_save_as import CreateTableForSaveAs
+from Model.update_table_for_save import UpdateTableForSave
 from Model.read_table_for_open import ReadTableForOpen
 from Model.calibration_constant_kt import CalibrationConstantKt
 from View.about_window import AboutWindow
@@ -265,9 +266,7 @@ class Ui_MainWindow(object):
         self.centralwidget.addAction(self.actionDB_Browser_for_SQLite)
 
     def save_as(self):
-        db = CreateTableForSaveAs()
-        db.save_as()
-
+        CreateTableForSaveAs()
         self.mainwindow.setWindowTitle(
             "AcouSed - " +
             stg.filename_save_as
@@ -275,8 +274,7 @@ class Ui_MainWindow(object):
 
     def save(self):
         if stg.dirname_save_as:
-            db = CreateTableForSaveAs()
-            db.save()
+            UpdateTableForSave()
         else:
             self.save_as()
 
@@ -301,6 +299,7 @@ class Ui_MainWindow(object):
             msg_box.exec()
 
     def about_window(self):
+        print("about")
         aw = AboutWindow()
         aw.exec()
 
@@ -313,6 +312,7 @@ class Ui_MainWindow(object):
         )
 
     def open_doc_file(self, filename):
+        print(self.current_file_path("filename.pdf"))
         QtGui.QDesktopServices.openUrl(
             QtCore.QUrl(
                 f"file://{self.current_file_path(filename)}"
@@ -333,11 +333,15 @@ class Ui_MainWindow(object):
             name = QtWidgets.QFileDialog.getExistingDirectory(
                 caption="Select Directory - Acoustic BS raw data Table"
             )
+            print("name table to save ", name)
 
             # --- Save the raw acoustic backscatter data from a
             # --- Dataframe to csv file ---
 
             t0 = time.time()
+            print("len(stg.BS_raw_data_reshape) ",
+                  len(stg.BS_raw_data_reshape))
+
             if name:
                 for i in range(len(stg.BS_raw_data_reshape)):
                     header_list = []
@@ -387,7 +391,8 @@ class Ui_MainWindow(object):
                     )
 
             t1 = time.time() - t0
-            logger.debug(f"Time duration export BS {t1}")
+            print("time duration export BS ", t1)
+            print("table of BS value Export finished")
 
     def retranslateUi(self):
         _translate = QtCore.QCoreApplication.translate

View/note_tab.py

@@ -1,4 +1,3 @@
-import os
 import logging
 
 from PyQt5.QtWidgets import (
@@ -7,7 +6,7 @@ from PyQt5.QtWidgets import (
     QSizePolicy, QFontComboBox, QColorDialog
 )
 from PyQt5.QtGui import QPixmap, QIcon, QFont
-from PyQt5.QtCore import Qt, QTimer
+from PyQt5.QtCore import Qt
 
 import settings as stg
 
@@ -19,13 +18,13 @@ class NoteTab(QWidget):
 
     ''' This class generates a enhanced notepad in Note Tab '''
 
-    def _path_icon(self, icon):
-        return os.path.join("icons", icon)
-
     def __init__(self, widget_tab):
         super().__init__()
 
-        self.changed = False
+        path_icon = "./icons/"
+
+        # FIXME: The note are disabled because there are never saved
+        widget_tab.setEnabled(False)
 
         self.verticalLayout_main_note_tab = QVBoxLayout(widget_tab)
 
@@ -37,104 +36,96 @@ class NoteTab(QWidget):
         self.filename_text = ""
 
         self.pushbutton_new_txt = QPushButton()
-        self.icon_new_txt = QPixmap(self._path_icon("new_text.png"))
+        self.icon_new_txt = QPixmap(path_icon + "new_text.png")
         self.pushbutton_new_txt.setIcon(QIcon(self.icon_new_txt))
         # self.pushbutton_new_txt.clicked.connect(self.new_text)
         self.horizontalLayout_toolbar.addWidget(self.pushbutton_new_txt)
 
         self.pushbutton_save_txt = QPushButton()
-        self.icon_save_txt = QPixmap(self._path_icon("save_txt.png"))
+        self.icon_save_txt = QPixmap(path_icon + "save_txt.png")
         self.pushbutton_save_txt.setIcon(QIcon(self.icon_save_txt))
         # self.pushbutton_save_txt.clicked.connect(self.save_text)
         self.horizontalLayout_toolbar.addWidget(self.pushbutton_save_txt)
 
         self.pushbutton_open_txt = QPushButton()
-        self.icon_open_txt = QPixmap(self._path_icon("open_txt.png"))
+        self.icon_open_txt = QPixmap(path_icon + "open_txt.png")
         self.pushbutton_open_txt.setIcon(QIcon(self.icon_open_txt))
         # self.pushbutton_open_txt.clicked.connect(self.open_text)
         self.horizontalLayout_toolbar.addWidget(self.pushbutton_open_txt)
 
         self.fontbox = QFontComboBox()
-        self.fontbox.currentFontChanged.connect(
-            lambda font : self.textEdit.setCurrentFont(font)
-        )
+        self.fontbox.currentFontChanged.connect(lambda font : self.textEdit.setCurrentFont(font))
         self.horizontalLayout_toolbar.addWidget(self.fontbox)
 
         self.fontSize = QSpinBox()
         self.fontSize.setSuffix("pt")
-        self.fontSize.valueChanged.connect(
-            lambda size: self.textEdit.setFontPointSize(size)
-        )
+        self.fontSize.valueChanged.connect(lambda size: self.textEdit.setFontPointSize(size))
         self.fontSize.setValue(14)
         self.horizontalLayout_toolbar.addWidget(self.fontSize)
 
         self.fontColor = QPushButton()
-        self.icon_fontColor = QPixmap(self._path_icon("font_color.png"))
+        self.icon_fontColor = QPixmap(path_icon + "font_color.png")
         self.fontColor.setIcon(QIcon(self.icon_fontColor))
         # self.QAction(QIcon("couleur_police.png"), "Changer la couleur du texte", self)couleur_fond.png
         self.fontColor.clicked.connect(self.fontColorChanged)
         self.horizontalLayout_toolbar.addWidget(self.fontColor)
 
         self.backColor = QPushButton()
-        self.icon_backColor = QPixmap(self._path_icon("background_color.png"))
+        self.icon_backColor = QPixmap(path_icon + "background_color.png")
         self.backColor.setIcon(QIcon(self.icon_backColor))
         self.backColor.clicked.connect(self.highlight)
         self.horizontalLayout_toolbar.addWidget(self.backColor)
 
         self.boldAction = QPushButton()
-        self.icon_boldAction = QPixmap(self._path_icon("bold.png"))
+        self.icon_boldAction = QPixmap(path_icon + "bold.png")
         self.boldAction.setIcon(QIcon(self.icon_boldAction))
         self.boldAction.clicked.connect(self.bold)
         self.horizontalLayout_toolbar.addWidget(self.boldAction)
 
         self.italicAction = QPushButton()
-        self.icon_italicAction = QPixmap(self._path_icon("italic.png"))
+        self.icon_italicAction = QPixmap(path_icon + "italic.png")
         self.italicAction.setIcon(QIcon(self.icon_italicAction))
         self.italicAction.clicked.connect(self.italic)
         self.horizontalLayout_toolbar.addWidget(self.italicAction)
 
         self.underlineAction = QPushButton()
-        self.icon_underlineAction = QPixmap(self._path_icon("underline.png"))
+        self.icon_underlineAction = QPixmap(path_icon + "underline.png")
         self.underlineAction.setIcon(QIcon(self.icon_underlineAction))
         self.underlineAction.clicked.connect(self.underline)
         self.horizontalLayout_toolbar.addWidget(self.underlineAction)
 
         self.strikeAction = QPushButton()
-        self.icon_strikeAction = QPixmap(self._path_icon("strike.png"))
+        self.icon_strikeAction = QPixmap(path_icon + "strike.png")
         self.strikeAction.setIcon(QIcon(self.icon_strikeAction))
         self.strikeAction.clicked.connect(self.strike)
         self.horizontalLayout_toolbar.addWidget(self.strikeAction)
 
         self.alignLeftAction = QPushButton()
-        self.icon_alignLeftAction = QPixmap(self._path_icon("left.png"))
+        self.icon_alignLeftAction = QPixmap(path_icon + "left.png")
         self.alignLeftAction.setIcon(QIcon(self.icon_alignLeftAction))
         self.alignLeftAction.clicked.connect(self.alignLeft)
         self.horizontalLayout_toolbar.addWidget(self.alignLeftAction)
 
         self.alignCenterAction = QPushButton()
-        self.icon_alignCenterAction = QPixmap(self._path_icon("centre.png"))
+        self.icon_alignCenterAction = QPixmap(path_icon + "centre.png")
         self.alignCenterAction.setIcon(QIcon(self.icon_alignCenterAction))
         self.alignCenterAction.clicked.connect(self.alignCenter)
         self.horizontalLayout_toolbar.addWidget(self.alignCenterAction)
 
         self.alignRightAction = QPushButton()
-        self.icon_alignRightAction = QPixmap(self._path_icon("right.png"))
+        self.icon_alignRightAction = QPixmap(path_icon + "right.png")
         self.alignRightAction.setIcon(QIcon(self.icon_alignRightAction))
         self.alignRightAction.clicked.connect(self.alignRight)
         self.horizontalLayout_toolbar.addWidget(self.alignRightAction)
 
         self.alignJustifyAction = QPushButton()
-        self.icon_alignJustifyAction = QPixmap(self._path_icon("justify.png"))
+        self.icon_alignJustifyAction = QPixmap(path_icon + "justify.png")
         self.alignJustifyAction.setIcon(QIcon(self.icon_alignJustifyAction))
         self.alignJustifyAction.clicked.connect(self.alignJustify)
         self.horizontalLayout_toolbar.addWidget(self.alignJustifyAction)
 
-        self.horizontalSpacerItem_toolbar_note_tab = QSpacerItem(
-            500, 10, QSizePolicy.Expanding, QSizePolicy.Minimum
-        )
-        self.horizontalLayout_toolbar.addItem(
-            self.horizontalSpacerItem_toolbar_note_tab
-        )
+        self.horizontalSpacerItem_toolbar_note_tab = QSpacerItem(500, 10, QSizePolicy.Expanding, QSizePolicy.Minimum)
+        self.horizontalLayout_toolbar.addItem(self.horizontalSpacerItem_toolbar_note_tab)
 
         self.pushbutton_print_settings = QPushButton()
         self.pushbutton_print_settings.setText("EDIT SETTINGS")
@@ -143,39 +134,19 @@ class NoteTab(QWidget):
 
         self.verticalLayout_main_note_tab.addWidget(self.textEdit)
 
-        self.textEdit.textChanged.connect(self.setTextChanged)
-
-        self._alarm = QTimer()
-        self._alarm.timeout.connect(self.applyTextOnStg)
-        self._alarm.start(1000)
-
     ## -------------------------------
     ## ---------- Functions ----------
     ## -------------------------------
 
+    @trace
     def full_update(self):
-        self.blockSignals(True)
-        self.textEdit.blockSignals(True)
-        self._alarm.blockSignals(True)
-
         logger.debug(f"{__name__}: Update")
+        self.blockSignals(True)
 
-        self.applyStgOnText()
+        # TODO: Update all widgets
 
-        self._alarm.blockSignals(False)
-        self.textEdit.blockSignals(False)
         self.blockSignals(False)
 
-    def setTextChanged(self):
-        self.changed = True
-
-    def applyTextOnStg(self):
-        text = self.textEdit.toHtml()
-        stg.notes = text
-
-    def applyStgOnText(self):
-        text = self.textEdit.setText(stg.notes)
-
     # def new_text(self):
     #     window = self.ui_mainwindow.tab5
     #     window.show()

View/plot_noise_window.py

@@ -66,7 +66,7 @@ class PlotNoiseWindow(QDialog):
 
                     eval("self.ax" + str(i) + "[" + str(freq_ind) + "]" + ".text(1, .70, stg.freq_text[" + str(i) +
                                         "][" + str(freq_ind) + "]," +
-                                      "fontsize=10, fontweight='bold', fontname='DejaVu Sans', c='black', alpha=0.5," +
+                                      "fontsize=10, fontweight='bold', fontname='Ubuntu', c='black', alpha=0.5," +
                                       "horizontalalignment='right', verticalalignment='bottom'," +
                                       "transform=self.ax" + str(i) + "[" + str(freq_ind) + "].transAxes)")
 
@@ -91,3 +91,4 @@ class PlotNoiseWindow(QDialog):
 
             exec("self.verticalLayout_tab" + str(i) + ".addWidget(self.toolbar" + str(i) + ")")
             exec("self.verticalLayout_tab" + str(i) + ".addWidget(self.scroll" + str(i) + ")")
+

View/sample_data_tab.py

@@ -64,7 +64,6 @@ class SampleDataTab(QWidget):
         super().__init__()
 
         icon_folder = QIcon(os.path.join("icons", "folder.png"))
-        self._setup_attrs()
 
         ### --- General layout of widgets ---
 
@@ -258,11 +257,6 @@ class SampleDataTab(QWidget):
 
         self.combobox_PSD_plot.currentTextChanged.connect(self.plot_PSD_fine_and_sand_sediments)
 
-    def _setup_attrs(self):
-        self.figure_plot_sample_position_on_transect = None
-        self.figure_total_concentration = None
-        self.figure_plot_PSD = None
-
     # -------------------- Functions for Sample Data Tab --------------------
 
     def retranslate_data_sample_tab(self):
@@ -286,6 +280,7 @@ class SampleDataTab(QWidget):
 
         self.groupbox_plot_PSD.setTitle(_translate("CONSTANT_STRING", cs.DISTRIBUTION_PLOT))
 
+    @trace
     def full_update(self):
         logger.debug(f"{__name__}: Update")
         self.blockSignals(True)
@@ -795,9 +790,6 @@ class SampleDataTab(QWidget):
         self.verticalLayout_groupbox_plot_transect\
             .removeWidget(self.canvas_plot_sample_position_on_transect)
 
-        if self.figure_plot_sample_position_on_transect is not None:
-            self.figure_plot_sample_position_on_transect.clear()
-
         fig, axis = plt.subplots(nrows=1, ncols=1, layout="constrained")
 
         self.figure_plot_sample_position_on_transect = fig
@@ -1423,9 +1415,6 @@ class SampleDataTab(QWidget):
             self.verticalLayout_groupbox_plot_total_concentration.removeWidget(self.canvas_plot_total_concentration)
             self.verticalLayout_groupbox_plot_total_concentration.removeWidget(self.toolbar_plot_total_concentration)
 
-            if self.figure_total_concentration is not None:
-                self.figure_total_concentration.clear()
-
             self.figure_total_concentration, self.axis_total_concentration \
                 = plt.subplots(nrows=1, ncols=1, layout="constrained")
             self.canvas_plot_total_concentration = FigureCanvas(self.figure_total_concentration)
@@ -1711,9 +1700,6 @@ class SampleDataTab(QWidget):
             self.verticalLayout_groupbox_plot_PSD.removeWidget(self.canvas_plot_PSD)
             self.verticalLayout_groupbox_plot_PSD.removeWidget(self.toolbar_plot_PSD)
 
-            if self.figure_plot_PSD is not None:
-                self.figure_plot_PSD.clear()
-
             self.figure_plot_PSD, self.axis_plot_PSD \
                 = plt.subplots(nrows=1, ncols=2, layout="constrained")
             self.canvas_plot_PSD = FigureCanvas(self.figure_plot_PSD)

View/signal_processing_tab.py

@@ -75,7 +75,6 @@ class SignalProcessingTab(QWidget):
 
 
         self._setup_icons()
-        self._setup_attrs()
 
         ### --- General layout of widgets ---
 
@@ -431,13 +430,11 @@ class SignalProcessingTab(QWidget):
         self.widget_scrollArea_list_preprocessed_data.setLayout(self.verticalLayout_scrollArea_list_pre_processed_data)
 
         # Add content to the widget (labels in this example)
-        self.lineEdit_list_pre_processed_data = []
         for i in range(20):
-            self.lineEdit_list_pre_processed_data.append(QLineEdit())
-            self.verticalLayout_scrollArea_list_pre_processed_data.addWidget(
-                self.lineEdit_list_pre_processed_data[i]
-            )
-            self.lineEdit_list_pre_processed_data[i].setDisabled(True)
+            exec("self.lineEdit_list_pre_processed_data_" + str(i) + "= QLineEdit()")
+            eval("self.verticalLayout_scrollArea_list_pre_processed_data.addWidget("
+                 "self.lineEdit_list_pre_processed_data_" + str(i) + ")")
+            eval("self.lineEdit_list_pre_processed_data_" + str(i) + ".setDisabled(True)")
 
 
         # Set the widget as the scroll area's widget
@@ -514,13 +511,7 @@ class SignalProcessingTab(QWidget):
         self.icon_clear = QIcon(path_icon("clear.png"))
         self.icon_apply = QIcon(path_icon("circle_green_arrow_right.png"))
 
-    def _setup_attrs(self):
-        self.fig_profile_tail = None
-        self.fig_noise = None
-        self.fig_SNR = None
-        self.fig_BS = None
-        self.figure_profile = None
-
+    @trace
     def full_update(self):
         logger.debug(f"{__name__}: Update")
         self.blockSignals(True)
@@ -533,7 +524,7 @@ class SignalProcessingTab(QWidget):
         self.blockSignals(False)
 
     def full_update_fill_text(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         self.lineEdit_profile_tail_value.setText(
             str(stg.noise_value[data_id])
@@ -548,8 +539,9 @@ class SignalProcessingTab(QWidget):
         )
 
     def update_SignalPreprocessingTab(self):
+
         """ The tab is updated in two cases :
-            - the user remove a file (in the list widget) in the first tab (Acoustic data), so that the combobox
+                - the user remove a file (in the list widget) in the first tab (Acoustic data), so that the combobox
                     of data to be processed is updated,
                 - the user change the limits of one or all the records in the first tab (Acoustic data) """
         if len(stg.filename_BS_raw_data) == 0:
@@ -560,7 +552,7 @@ class SignalProcessingTab(QWidget):
             msgBox.setStandardButtons(QMessageBox.Ok)
             msgBox.exec()
         else:
-            data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+            data_id = self.combobox_acoustic_data_choice.currentIndex()
 
             self.combobox_acoustic_data_choice.blockSignals(True)
             self.combobox_freq_noise_from_profile_tail.blockSignals(True)
@@ -593,7 +585,7 @@ class SignalProcessingTab(QWidget):
             self.combobox_acoustic_data_choice.blockSignals(False)
 
     def _is_correct_shape(self, data):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         if stg.time_cross_section[data_id].shape != (0,):
             x_time = stg.time_cross_section[data_id]
@@ -620,57 +612,19 @@ class SignalProcessingTab(QWidget):
         return (y == depth_shape and z == time_shape)
 
     def recompute(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         self.compute_average_profile_tail()
 
         if stg.noise_method[data_id] == 0:
             if stg.filename_BS_noise_data[data_id] != "":
-                if len(stg.BS_noise_raw_data) == 0:
-                    self.load_noise_data_and_compute_SNR()
-                else:
-                    for i in range(self.combobox_acoustic_data_choice.count()):
-                        self.compute_noise(i)
+                self.load_noise_data_and_compute_SNR()
         elif stg.noise_method[data_id] == 1:
             self.compute_noise_from_profile_tail_value()
 
         self.remove_point_with_snr_filter()
         self.compute_averaged_BS_data()
 
-    @trace
-    def compute_noise(self, data_id):
-        if self._is_correct_shape(stg.BS_stream_bed):
-            BS_data = stg.BS_stream_bed
-            SNR_data = stg.SNR_stream_bed
-        elif self._is_correct_shape(stg.BS_cross_section):
-            BS_data = stg.BS_cross_section
-            SNR_data = stg.SNR_cross_section
-        else:
-            BS_data = stg.BS_raw_data
-            SNR_data = stg.SNR_raw_data
-
-        noise = np.zeros(BS_data[data_id].shape)
-        for f, _ in enumerate(BS_data[data_id]):
-            noise[f, :, :] = np.mean(
-                stg.BS_noise_raw_data[data_id][f, :, :], axis=(0, 1)
-            )
-
-        stg.BS_noise_averaged_data[data_id] = noise
-
-        SNR_data[data_id] = (
-            np.divide(
-                (
-                    BS_data[data_id] - stg.BS_noise_averaged_data[data_id]
-                ) ** 2,
-                stg.BS_noise_averaged_data[data_id] ** 2
-            )
-        )
-
-        self.combobox_frequency_profile.clear()
-        self.combobox_frequency_profile.addItems(
-            [f for f in stg.freq_text[data_id]]
-        )
-
     def replot(self):
         self.plot_averaged_profile_tail()
         self.plot_transect_with_SNR_data()
@@ -678,21 +632,19 @@ class SignalProcessingTab(QWidget):
         self.plot_pre_processed_profile()
 
     def activate_list_of_pre_processed_data(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
-
         for i in range(self.combobox_acoustic_data_choice.count()):
-            self.lineEdit_list_pre_processed_data[i].setDisabled(True)
+            eval("self.lineEdit_list_pre_processed_data_" + str(i) + ".setDisabled(True)")
+        eval("self.lineEdit_list_pre_processed_data_" + str(
+            self.combobox_acoustic_data_choice.currentIndex()) + ".setEnabled(True)")
+        eval("self.lineEdit_list_pre_processed_data_" + str(
+            self.combobox_acoustic_data_choice.currentIndex()) + ".returnPressed.connect(self.rename_preprocessed_data)")
 
-        self.lineEdit_list_pre_processed_data[data_id].setEnabled(True)
-        self.lineEdit_list_pre_processed_data[data_id]\
-            .returnPressed.connect(self.rename_preprocessed_data)
-
-        self.lineEdit_list_pre_processed_data[data_id]\
-            .setText(stg.filename_BS_raw_data[data_id])
+        eval("self.lineEdit_list_pre_processed_data_" + str(self.combobox_acoustic_data_choice.currentIndex()) +
+             ".setText(stg.filename_BS_raw_data[self.combobox_acoustic_data_choice.currentIndex()])")
 
     def rename_preprocessed_data(self):
-        stg.data_preprocessed[data_id] = \
-            self.lineEdit_list_pre_processed_data[data_id].text()
+        exec("stg.data_preprocessed[self.combobox_acoustic_data_choice.currentIndex()] = "
+             "self.lineEdit_list_pre_processed_data_" + str(self.combobox_acoustic_data_choice.currentIndex()) + ".text()")
 
         # ------------------------------------------------------
 
@@ -704,29 +656,18 @@ class SignalProcessingTab(QWidget):
 
     def groupbox_download_noise_file_size_change(self):
         duration = 500
-        self.animation_groupbox_download_noise_file = QPropertyAnimation(
-            self.groupbox_download_noise_file, b"size"
-        )
+        self.animation_groupbox_download_noise_file = QPropertyAnimation(self.groupbox_download_noise_file, b"size")
         self.animation_groupbox_download_noise_file.setDuration(duration)
 
-        self.animation_groupbox_download_noise_file.setStartValue(
-            QSize(
-                self.groupbox_download_noise_file.width(),
-                self.groupbox_download_noise_file.height()
-            )
-        )
+        self.animation_groupbox_download_noise_file.setStartValue(QSize(self.groupbox_download_noise_file.width(),
+                                                              self.groupbox_download_noise_file.height()))
 
         if self.groupbox_download_noise_file.isChecked():
             self.animation_groupbox_download_noise_file.setEndValue(
-                QSize(
-                    self.groupbox_download_noise_file.width(),
-                    self.groupbox_download_noise_file.sizeHint().height()
-                )
-            )
+                QSize(self.groupbox_download_noise_file.width(),
+                      self.groupbox_download_noise_file.sizeHint().height()))
         else:
-            self.animation_groupbox_download_noise_file.setEndValue(
-                QSize(self.groupbox_download_noise_file.width(), 25)
-            )
+            self.animation_groupbox_download_noise_file.setEndValue(QSize(self.groupbox_download_noise_file.width(), 25))
 
         self.animation_groupbox_download_noise_file.start()
 
@@ -738,35 +679,24 @@ class SignalProcessingTab(QWidget):
 
     def groupbox_option_profile_tail_size_change(self):
         duration = 500
-        self.animation_groupbox_option_profile_tail = QPropertyAnimation(
-            self.groupbox_option_profile_tail, b"size"
-        )
+        self.animation_groupbox_option_profile_tail = QPropertyAnimation(self.groupbox_option_profile_tail, b"size")
         self.animation_groupbox_option_profile_tail.setDuration(duration)
 
-        self.animation_groupbox_option_profile_tail.setStartValue(
-            QSize(
-                self.groupbox_option_profile_tail.width(),
-                self.groupbox_option_profile_tail.height()
-            )
-        )
+        self.animation_groupbox_option_profile_tail.setStartValue(QSize(self.groupbox_option_profile_tail.width(),
+                                                             self.groupbox_option_profile_tail.height()))
 
         if self.groupbox_option_profile_tail.isChecked():
             self.animation_groupbox_option_profile_tail.setEndValue(
-                QSize(
-                    self.groupbox_option_profile_tail.width(),
-                    self.groupbox_option_profile_tail.sizeHint().height()
-                )
-            )
+                QSize(self.groupbox_option_profile_tail.width(),
+                      self.groupbox_option_profile_tail.sizeHint().height()))
         else:
-            self.animation_groupbox_option_profile_tail.setEndValue(
-                QSize(self.groupbox_option_profile_tail.width(), 25)
-            )
+            self.animation_groupbox_option_profile_tail.setEndValue(QSize(self.groupbox_option_profile_tail.width(), 25))
 
         self.animation_groupbox_option_profile_tail.start()
 
     # ------------------------------------------------------
     def compute_average_profile_tail(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
         freq_noise_id = self.combobox_freq_noise_from_profile_tail.currentIndex()
 
         if ((float(self.lineEdit_val1.text()) == 0)
@@ -853,96 +783,79 @@ class SignalProcessingTab(QWidget):
             msgBox.exec()
 
         else:
-            data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
-            freq_noise_id = self.combobox_freq_noise_from_profile_tail.currentIndex()
 
-            if stg.BS_mean[data_id].shape == (0,):
-                return
+            if stg.BS_mean[self.combobox_acoustic_data_choice.currentIndex()].shape != (0,):
 
-            self.verticalLayout_groupbox_plot_profile_tail.removeWidget(self.canvas_profile_tail)
+                self.verticalLayout_groupbox_plot_profile_tail.removeWidget(self.canvas_profile_tail)
 
-            if self.fig_profile_tail is not None:
-                self.fig_profile_tail.clear()
+                self.fig_profile_tail, self.axis_profile_tail = plt.subplots(nrows=1, ncols=1, layout='constrained')
+                self.canvas_profile_tail = FigureCanvas(self.fig_profile_tail)
 
-            self.fig_profile_tail, self.axis_profile_tail = \
-                plt.subplots(nrows=1, ncols=1, layout='constrained')
-            self.canvas_profile_tail = FigureCanvas(self.fig_profile_tail)
+                self.verticalLayout_groupbox_plot_profile_tail.addWidget(self.canvas_profile_tail)
 
-            self.verticalLayout_groupbox_plot_profile_tail.addWidget(self.canvas_profile_tail)
+                self.axis_profile_tail.plot(
+                        -stg.depth[self.combobox_acoustic_data_choice.currentIndex()][self.combobox_freq_noise_from_profile_tail.currentIndex()],
+                        stg.BS_mean[self.combobox_acoustic_data_choice.currentIndex()][self.combobox_freq_noise_from_profile_tail.currentIndex()],
+                        color="blue", linewidth=1)
+                self.axis_profile_tail.plot(
+                        -stg.depth[self.combobox_acoustic_data_choice.currentIndex()][
+                            self.combobox_freq_noise_from_profile_tail.currentIndex()],
+                        float(self.lineEdit_profile_tail_value.text().replace(",", ".")) *
+                            np.ones(stg.depth[self.combobox_acoustic_data_choice.currentIndex()][
+                                self.combobox_freq_noise_from_profile_tail.currentIndex()].shape[0]),
+                        linestyle='dashed', linewidth=2, color='red')
 
-            self.axis_profile_tail.plot(
-                -stg.depth[data_id][freq_noise_id],
-                stg.BS_mean[data_id][freq_noise_id],
-                color="blue", linewidth=1
-            )
-            self.axis_profile_tail.plot(
-                -stg.depth[data_id][freq_noise_id],
-                float(self.lineEdit_profile_tail_value.text().replace(",", "."))
-                * np.ones(stg.depth[data_id][freq_noise_id].shape[0]),
-                linestyle='dashed', linewidth=2, color='red'
-            )
+                self.axis_profile_tail.set_yscale('log')
+                self.axis_profile_tail.tick_params(axis='both', labelsize=8)
+                self.axis_profile_tail.text(.98, .03, "Depth (m)",
+                                            fontsize=8, fontweight='bold', fontname="DejaVu Sans", c="black", alpha=0.9,
+                                            horizontalalignment='right', verticalalignment='bottom', rotation='horizontal',
+                                            transform=self.axis_profile_tail.transAxes)
+                self.axis_profile_tail.text(.1, .45, "BS signal (v)",
+                                            fontsize=8, fontweight='bold', fontname="DejaVu Sans", c="black", alpha=0.9,
+                                            horizontalalignment='right', verticalalignment='bottom', rotation='vertical',
+                                            transform=self.axis_profile_tail.transAxes)
+                self.axis_profile_tail.text(.98, .85,
+                                            stg.freq_text[self.combobox_acoustic_data_choice.currentIndex()][
+                                                self.combobox_freq_noise_from_profile_tail.currentIndex()],
+                                            fontsize=10, fontweight='bold', fontname="DejaVu Sans", c="black", alpha=0.5,
+                                            horizontalalignment='right', verticalalignment='bottom',
+                                            transform=self.axis_profile_tail.transAxes)
 
-            self.axis_profile_tail.set_yscale('log')
-            self.axis_profile_tail.tick_params(axis='both', labelsize=8)
-            self.axis_profile_tail.text(
-                .98, .03, "Depth (m)",
-                fontsize=8, fontweight='bold',
-                fontname="DejaVu Sans", c="black", alpha=0.9,
-                horizontalalignment='right',
-                verticalalignment='bottom', rotation='horizontal',
-                transform=self.axis_profile_tail.transAxes
-            )
-            self.axis_profile_tail.text(
-                .1, .45, "BS signal (v)",
-                fontsize=8, fontweight='bold',
-                fontname="DejaVu Sans", c="black", alpha=0.9,
-                horizontalalignment='right',
-                verticalalignment='bottom', rotation='vertical',
-                transform=self.axis_profile_tail.transAxes
-            )
-            self.axis_profile_tail.text(
-                .98, .85,
-                stg.freq_text[data_id][freq_noise_id],
-                fontsize=10, fontweight='bold',
-                fontname="DejaVu Sans", c="black", alpha=0.5,
-                horizontalalignment='right', verticalalignment='bottom',
-                transform=self.axis_profile_tail.transAxes
-            )
-
-            self.fig_profile_tail.canvas.draw_idle()
+                self.fig_profile_tail.canvas.draw_idle()
 
     # ------------------------------------------------------
 
     def combobox_acoustic_data_choice_change_index(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
-
         self.combobox_frequency_profile.blockSignals(True)
 
         self.compute_average_profile_tail()
 
-        logger.debug(f"stg.SNR_filter_value: {stg.SNR_filter_value}")
-
         self.lineEdit_SNR_criterion.setText(
-            str(stg.SNR_filter_value[data_id])
+            str(stg.SNR_filter_value[
+                self.combobox_acoustic_data_choice.currentIndex()
+            ])
         )
 
         self.lineEdit_horizontal_average.setText(
-            str(stg.Nb_cells_to_average_BS_signal[data_id])
+            str(stg.Nb_cells_to_average_BS_signal[
+                self.combobox_acoustic_data_choice.currentIndex()
+            ])
         )
 
         self.combobox_frequency_profile.clear()
         self.combobox_frequency_profile.addItems(
-            [f for f in stg.freq_text[data_id]]
-        )
+            [f for f in stg.freq_text[self.combobox_acoustic_data_choice.currentIndex()]])
 
-        self.recompute()
         self.replot()
 
         if self.combobox_acoustic_data_choice.count() > 0:
-            for i in range(self.combobox_acoustic_data_choice.count()):
-                self.lineEdit_list_pre_processed_data[i].setDisabled(True)
 
-            self.lineEdit_list_pre_processed_data[data_id].setEnabled(True)
+            for i in range(self.combobox_acoustic_data_choice.count()):
+                eval("self.lineEdit_list_pre_processed_data_" + str(i) + ".setDisabled(True)")
+            #
+            eval("self.lineEdit_list_pre_processed_data_" + str(
+                self.combobox_acoustic_data_choice.currentIndex()) + ".setEnabled(True)")
 
         self.combobox_frequency_profile.blockSignals(False)
 
@@ -950,7 +863,7 @@ class SignalProcessingTab(QWidget):
         if len(stg.filename_BS_raw_data) == 0:
             pass
         else:
-            data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+            data_id = self.combobox_acoustic_data_choice.currentIndex()
 
             stg.BS_noise_raw_data[data_id] = np.array([])
             stg.BS_noise_averaged_data[data_id] = np.array([])
@@ -968,7 +881,7 @@ class SignalProcessingTab(QWidget):
 
             stg.BS_stream_bed_pre_process_SNR[data_id] = np.array([])
             stg.BS_stream_bed_pre_process_average[data_id] = np.array([])
-
+            print("stg.noise_method[data_id]", stg.noise_method[data_id])
             if stg.noise_method[data_id] == 0:
                 self.lineEdit_noise_file.clear()
 
@@ -1089,65 +1002,67 @@ class SignalProcessingTab(QWidget):
 
 
     def load_noise_data_and_compute_SNR(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         stg.noise_method[data_id] = 0
 
-        noise_data = AcousticDataLoader(
-            os.path.join(
-                stg.path_BS_noise_data[data_id],
-                stg.filename_BS_noise_data[data_id]
-            )
-        )
+        noise_data = AcousticDataLoader(stg.path_BS_noise_data[data_id] +
+                                        "/" +
+                                        stg.filename_BS_noise_data[data_id])
         stg.BS_noise_raw_data[data_id] = noise_data._BS_raw_data
 
         stg.time_noise[data_id] = noise_data._time
         stg.depth_noise[data_id] = noise_data._r
 
         if stg.BS_stream_bed[data_id].shape != (0,):
-            BS_data = stg.BS_stream_bed
-            SNR_data = stg.SNR_stream_bed
+
+            noise = np.zeros(stg.BS_stream_bed[data_id].shape)
+            for f, _ in enumerate(noise_data._freq):
+                noise[f, :, :] = np.mean(
+                    stg.BS_noise_raw_data[data_id][f, :, :], axis=(0, 1))
+            stg.BS_noise_averaged_data[data_id] = noise
+            stg.SNR_stream_bed[data_id] = (
+                np.divide((stg.BS_stream_bed[data_id] -
+                           stg.BS_noise_averaged_data[data_id]) ** 2,
+                          stg.BS_noise_averaged_data[data_id] ** 2))
+
         elif stg.BS_cross_section[data_id].shape != (0,):
-            BS_data = stg.BS_cross_section
-            SNR_data = stg.SNR_cross_section
+
+            noise = np.zeros(stg.BS_cross_section[data_id].shape)
+            for f, _ in enumerate(noise_data._freq):
+                noise[f, :, :] = np.mean(
+                    stg.BS_noise_raw_data[data_id][f, :, :], axis=(0, 1))
+            stg.BS_noise_averaged_data[data_id] = noise
+            stg.SNR_cross_section[data_id] = (
+                np.divide((stg.BS_cross_section[data_id] -
+                           stg.BS_noise_averaged_data[data_id]) ** 2,
+                          stg.BS_noise_averaged_data[data_id] ** 2))
+            # stg.SNR_reshape = np.reshape(stg.SNR_cross_section, (stg.r.shape[1] * stg.t.shape[1], stg.freq.shape[0]), order="F")
+
         else:
-            BS_data = stg.BS_raw_data
-            SNR_data = stg.SNR_raw_data
 
-        noise = np.zeros(BS_data[data_id].shape)
-        for f, _ in enumerate(noise_data._freq):
-            noise[f, :, :] = np.mean(
-                stg.BS_noise_raw_data[data_id][f, :, :], axis=(0, 1)
-            )
-
-        stg.BS_noise_averaged_data[data_id] = noise
-        SNR_data[data_id] = (
-            np.divide(
-                (
-                    BS_data[data_id] - stg.BS_noise_averaged_data[data_id]
-                ) ** 2,
-                stg.BS_noise_averaged_data[data_id] ** 2
-            )
-        )
+            noise = np.zeros(stg.BS_raw_data[data_id].shape)
+            for f, _ in enumerate(noise_data._freq):
+                noise[f, :, :] = np.mean(
+                    stg.BS_noise_raw_data[data_id][f, :, :], axis=(0, 1))
+            stg.BS_noise_averaged_data[data_id] = noise
+            stg.SNR_raw_data[data_id] = (
+                np.divide((stg.BS_raw_data[data_id] -
+                           stg.BS_noise_averaged_data[data_id]) ** 2,
+                          stg.BS_noise_averaged_data[data_id] ** 2))
 
     def open_plot_noise_window(self):
         pnw = PlotNoiseWindow()
         pnw.exec()
 
     def compute_noise_from_profile_tail_value(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         stg.noise_method[data_id] = 1
         stg.noise_value[data_id] = (
             float(self.lineEdit_profile_tail_value.text().replace(",", "."))
         )
 
-        self.compute_noise_from_profile_tail_value_compute()
-
-    @trace
-    def compute_noise_from_profile_tail_value_compute(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
-
         if stg.time_cross_section[data_id].shape != (0,):
             stg.time_noise[data_id] = (
                 stg.time_cross_section[data_id]
@@ -1167,38 +1082,48 @@ class SignalProcessingTab(QWidget):
 
         # --- Compute noise from value and compute SNR ---
         if self._is_correct_shape(stg.BS_stream_bed):
-            BS_data = stg.BS_stream_bed
-            SNR_data = stg.SNR_stream_bed
+            stg.BS_noise_raw_data[data_id] = np.array([])
+            stg.BS_noise_raw_data[data_id] = (
+                np.full(stg.BS_stream_bed[data_id].shape,
+                        float(self.lineEdit_profile_tail_value.text().replace(",", "."))))
+
+            stg.BS_noise_averaged_data[data_id] = (
+                stg.BS_noise_raw_data[data_id][:, :,
+                :stg.BS_stream_bed[data_id].shape[2]])
+            stg.SNR_stream_bed[data_id] = (
+                np.divide((stg.BS_stream_bed[data_id]
+                           - stg.BS_noise_raw_data[data_id]) ** 2,
+                          stg.BS_noise_raw_data[data_id] ** 2))
+
         elif self._is_correct_shape(stg.BS_cross_section):
-            BS_data = stg.BS_cross_section
-            SNR_data = stg.SNR_cross_section
+            stg.BS_noise_raw_data[data_id] = (
+                np.full(stg.BS_cross_section[data_id].shape,
+                        float(self.lineEdit_profile_tail_value.text().replace(",", "."))))
+
+            stg.BS_noise_averaged_data[data_id] = (
+                stg.BS_noise_raw_data[data_id][:, :,
+                :stg.BS_cross_section[data_id].shape[2]])
+            stg.SNR_cross_section[data_id] = (
+                np.divide((stg.BS_cross_section[data_id]
+                           - stg.BS_noise_raw_data[data_id]) ** 2,
+                          stg.BS_noise_raw_data[data_id] ** 2)) #
+
         else:
-            BS_data = stg.BS_raw_data
-            SNR_data = stg.SNR_raw_data
 
-        stg.BS_noise_raw_data[data_id] = (
-            np.full(
-                BS_data[data_id].shape,
-                float(self.lineEdit_profile_tail_value.text().replace(",", "."))
-            )
-        )
+            stg.BS_noise_raw_data[data_id] = (
+                np.full(stg.BS_raw_data[data_id].shape,
+                        float(self.lineEdit_profile_tail_value.text().replace(",", "."))))
 
-        stg.BS_noise_averaged_data[data_id] = (
-            stg.BS_noise_raw_data[data_id]
-        )
-        SNR_data[data_id] = (
-            np.divide(
-                (
-                    BS_data[data_id] - stg.BS_noise_raw_data[data_id]
-                ) ** 2,
-                stg.BS_noise_raw_data[data_id] ** 2
-            )
-        )
+            stg.BS_noise_averaged_data[data_id] = (
+                stg.BS_noise_raw_data[data_id])
+            stg.SNR_raw_data[data_id] = (
+                np.divide((stg.BS_raw_data[data_id]
+                           - stg.BS_noise_raw_data[data_id]) ** 2,
+                          stg.BS_noise_raw_data[data_id] ** 2))
 
         self.combobox_frequency_profile.clear()
         self.combobox_frequency_profile.addItems(
-            [f for f in stg.freq_text[data_id]]
-        )
+            [f for f in stg.freq_text[data_id]])
 
         # --- Trigger graphic widgets ---
 
@@ -1217,12 +1142,7 @@ class SignalProcessingTab(QWidget):
     def plot_noise(self):
         self.horizontalLayout_groupbox_plot_noise_data.removeWidget(self.canvas_noise)
 
-        if self.fig_noise is not None:
-            self.fig_noise.clear()
-
-        self.fig_noise, self.axis_noise = plt.subplots(
-            nrows=1, ncols=1, layout="constrained"
-        )
+        self.fig_noise, self.axis_noise = plt.subplots(nrows=1, ncols=1, layout="constrained")
         self.canvas_noise = FigureCanvas(self.fig_noise)
 
         self.horizontalLayout_groupbox_plot_noise_data.addWidget(self.canvas_noise)
@@ -1263,16 +1183,13 @@ class SignalProcessingTab(QWidget):
 
         # elif self.canvas_SNR == None:
         else:
-            data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+            data_id = self.combobox_acoustic_data_choice.currentIndex()
 
             if ((data_id != -1)
                     and (stg.BS_noise_raw_data[data_id].shape != (0,))):
                 self.verticalLayout_groupbox_plot_SNR.removeWidget(self.toolbar_SNR)
                 self.verticalLayout_groupbox_plot_SNR.removeWidget(self.scroll_SNR)
 
-                if self.fig_SNR is not None:
-                    self.fig_SNR.clear()
-
                 self.fig_SNR, self.axis_SNR = plt.subplots(
                     nrows=stg.freq[data_id].shape[0], ncols=1,
                     sharex=True, sharey=False, layout='constrained'
@@ -1392,7 +1309,7 @@ class SignalProcessingTab(QWidget):
             msgBox.exec()
 
         else:
-            data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+            data_id = self.combobox_acoustic_data_choice.currentIndex()
 
             stg.SNR_filter_value[data_id] = (
                 float(self.lineEdit_SNR_criterion.text().replace(",", ".")))
@@ -1439,7 +1356,7 @@ class SignalProcessingTab(QWidget):
             self.compute_averaged_BS_data()
 
     def plot_pre_processed_BS_signal(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         self.lineEdit_horizontal_average.setText(
             str(stg.Nb_cells_to_average_BS_signal[data_id])
@@ -1453,9 +1370,6 @@ class SignalProcessingTab(QWidget):
             self.verticalLayout_groupbox_plot_pre_processed_data_2D_field\
                 .removeWidget(self.scroll_BS)
 
-            if self.fig_BS is not None:
-                self.fig_BS.clear()
-
             self.fig_BS, self.axis_BS = plt.subplots(
                 nrows=stg.freq[data_id].shape[0], ncols=1,
                 sharex=True, sharey=False, layout="constrained"
@@ -1568,18 +1482,16 @@ class SignalProcessingTab(QWidget):
                 .addWidget(self.scroll_BS)
 
     def update_label_cells_sec(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
-
+        print("Je change la valeur du moyennage")
+        print(stg.nb_profiles_per_sec)
+        print(stg.nb_profiles_per_sec[self.combobox_acoustic_data_choice.currentIndex()][0])
+        print(self.combobox_acoustic_data_choice.currentIndex())
         self.label_cells_horizontal.clear()
         self.label_cells_horizontal.setText(
-            "cells = +/- "
-            + str(
-                (float(
-                    self.lineEdit_horizontal_average.text().replace(",", ".")
-                ) // 2)
-                * (1 / stg.nb_profiles_per_sec[data_id][0])
-            ) + " sec"
-        )
+            "cells = +/- " +
+            str((float(self.lineEdit_horizontal_average.text().replace(",", ".")) // 2) *
+                (1 / stg.nb_profiles_per_sec[self.combobox_acoustic_data_choice.currentIndex()][0])) +
+            " sec")
 
     def compute_averaged_BS_data(self):
         if len(stg.filename_BS_raw_data) == 0:
@@ -1597,7 +1509,7 @@ class SignalProcessingTab(QWidget):
             msgBox.setStandardButtons(QMessageBox.Ok)
             msgBox.exec()
         else:
-            data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+            data_id = self.combobox_acoustic_data_choice.currentIndex()
             n_average = 2 * int(float(self.lineEdit_horizontal_average.text().replace(",", "."))) + 1
             kernel_avg = np.ones(n_average)
             logger.debug(f"kernel_avg: {kernel_avg}")
@@ -1681,7 +1593,7 @@ class SignalProcessingTab(QWidget):
             )
 
     def plot_pre_processed_profile(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         if ((data_id != -1) and
                 (stg.BS_noise_raw_data[data_id].shape != (0,))):
@@ -1689,12 +1601,7 @@ class SignalProcessingTab(QWidget):
             self.verticalLayout_groupbox_plot_profile.removeWidget(self.toolbar_profile)
             self.verticalLayout_groupbox_plot_profile.removeWidget(self.canvas_profile)
 
-            if self.figure_profile is not None:
-                self.figure_profile.clear()
-
-            self.figure_profile, self.axis_profile = plt.subplots(
-                nrows=1, ncols=1, layout="constrained"
-            )
+            self.figure_profile, self.axis_profile = plt.subplots(nrows=1, ncols=1, layout="constrained")
             self.canvas_profile = FigureCanvas(self.figure_profile)
             self.toolbar_profile = NavigationToolBar(self.canvas_profile, self)
 
@@ -1913,7 +1820,7 @@ class SignalProcessingTab(QWidget):
             self.slider.setMaximum(10)
 
     def update_plot_pre_processed_profile(self):
-        data_id = max(0, self.combobox_acoustic_data_choice.currentIndex())
+        data_id = self.combobox_acoustic_data_choice.currentIndex()
 
         if ((data_id != -1) and
                 (stg.BS_noise_raw_data[data_id].shape != (0,))):

main.py

@@ -1,4 +1,3 @@
-import os
 import sys
 import logging
 import traceback
@@ -34,12 +33,8 @@ logging.basicConfig(
 )
 
 logger = logging.getLogger("acoused")
-
-if os.getenv("ACOUSED_DEBUG") == "true":
-    logger.setLevel(logging.DEBUG)
-    logger.debug("Set acoused at debug mode!")
-else:
-    logger.setLevel(logging.INFO)
+logger.setLevel(logging.DEBUG)
+#logger.setLevel(logging.INFO)
 
 class MainApplication(QMainWindow):
 
@@ -125,6 +120,16 @@ class MainApplication(QMainWindow):
         for tab in self.tabs:
             tab.full_update()
 
+        # self.acoustic_data_tab.combobox_ABS_system_choice.setCurrentText(stg.ABS_name[0])
+        # self.acoustic_data_tab.fileListWidget.addFilenames(stg.filename_BS_raw_data)
+
+        # self.signal_processing_tab.combobox_acoustic_data_choice.addItems(stg.filename_BS_raw_data)
+
+        # self.sample_data_tab.fill_comboboxes_and_plot_transect()
+        # self.sample_data_tab.lineEdit_fine_sediment.setText(stg.filename_fine)
+        # self.sample_data_tab.lineEdit_fine_sediment.setToolTip(stg.path_fine)
+        # self.sample_data_tab.fill_table_fine()
+
 if __name__ == '__main__':
     # print("sys.argv:", [arg for arg in sys.argv])
     # app = MainApplication(sys.argv)

manifest.scm

@@ -165,7 +165,7 @@ user-defined extensions).")
     (home-page "https://github.com/python/typeshed")
     (synopsis "Typing stubs for psutil")
     (description "Typing stubs for psutil.")
-    (license asl2.0)))
+    (license #f)))
 
 
 (define-public python-qtrangeslider

packages/debug.bat

@@ -1,5 +1,3 @@
 @ECHO OFF
 
-set ACOUSED_DEBUG=true
-
 acoused.exe > error.txt 2>&1

settings.py

@@ -105,11 +105,11 @@ BS_stream_bed = []              # BS data (raw or cross_section) with detected b
 depth_bottom = []               # Depth value of th bottom : 1D array                                       # List of arrays
 val_bottom = []                 # Level of the BS signal on the bottom : 1D array                           # List of arrays
 ind_bottom = []                 # Index of bottom in depth array : list of int                              # List of lists
-
 freq_bottom_detection = []      # Frequency use to detect the bottom : (index, string)                      # List of tuple
-depth_bottom_detection_min = [] # Min value to detect bottom on the first vertical                          # List of float
-depth_bottom_detection_max = [] # Max value to detect bottom on the first vertical                          # List of float
-depth_bottom_detection_interval = [] # interval for searching area                                          # List of float
+
+# depth_bottom_detection_min = []  # Min value to detect bottom on the first vertical                         # List of float
+# depth_bottom_detection_max = [] # Max value to detect bottom on the first vertical                          # List of float
+# depth_bottom_detection_1st_int_area = [] # interval for searching area                                      # List of float
 
 # ----------------------------------------------------------------------------------------------------------------------
 # =========================================================
@@ -215,12 +215,6 @@ frac_vol_sand_cumul = []        # Cumulated volume fraction (%) of the sand sedi
 
 # --- Parameters choice for calibration ---
 
-calib_acoustic_data = -1
-calib_freq_1 = -1
-calib_freq_2 = -1
-calib_fine_profiles = []
-calib_sand_target = -1
-
 frequencies_for_calibration = []  # Frequencies chosen for calibration [(f1_val, f1_ind), (f2_val, f2_ind)]  # List of 2 tuples
 frequency_for_inversion = tuple() # Frequency chosen for inversion (finv_val, finv_ind)                     # Tuple
 
@@ -266,8 +260,6 @@ sand_sample_position = []       # Sand samples indexes position for time and dep
 SSC_fine = []                   # Suspended Sediment Concentration of the fine sediments                    # List of one 3D array
 SSC_sand = []                   # Suspended Sediment Concentration of the sand sediments                    # List of one 3D array
 
-# =========================================================
-#               --- ACOUSTIC NOTES TAB ---
-# =========================================================
 
-notes = ""
+
+