668 lines
24 KiB
Python
668 lines
24 KiB
Python
# ============================================================================== #
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# create_table_for_save_as.py - AcouSed #
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# Copyright (C) 2024 INRAE #
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# #
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# This program is free software: you can redistribute it and/or modify #
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# it under the terms of the GNU General Public License as published by #
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# the Free Software Foundation, either version 3 of the License, or #
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# (at your option) any later version. #
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# #
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# This program is distributed in the hope that it will be useful, #
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# but WITHOUT ANY WARRANTY; without even the implied warranty of #
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the #
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# GNU General Public License for more details. #
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# #
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# You should have received a copy of the GNU General Public License #
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# along with this program. If not, see <https://www.gnu.org/licenses/>. #
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# by Brahim MOUDJED #
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# ============================================================================== #
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# -*- coding: utf-8 -*-
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import os
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import time
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import sqlite3
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import logging
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import numpy as np
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from PyQt5.QtWidgets import QFileDialog, QApplication, QMessageBox
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import settings as stg
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from settings import ABS_name
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logger = logging.getLogger("acoused")
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class CreateTableForSaveAs:
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def __init__(self):
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self.create_AcousticFile = """
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CREATE TABLE AcousticFile(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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acoustic_data INTEGER,
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acoustic_file STRING,
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ABS_name STRING,
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path_BS_noise_data STRING,
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filename_BS_noise_data STRING,
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noise_method INTERGER,
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noise_value FLOAT,
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data_preprocessed STRING
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)
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"""
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self.create_Measure = """
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CREATE TABLE Measure(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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acoustic_data INTEGER,
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Date DATE,
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Hour TIME,
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frequency FLOAT,
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sound_attenuation FLOAT,
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kt_read FLOAT,
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kt_corrected FLOAT,
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NbProfiles FLOAT,
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NbProfilesPerSeconds FLOAT,
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NbCells FLOAT,
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CellSize FLOAT,
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PulseLength FLOAT,
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NbPingsPerSeconds FLOAT,
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NbPingsAveragedPerProfile FLOAT,
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GainRx FLOAT,
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GainTx FLOAT
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)
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"""
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self.create_BSRawData = """
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CREATE TABLE BSRawData(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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acoustic_data INTEGER,
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time BLOB, depth BLOB, BS_raw_data BLOB,
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time_reshape BLOB, depth_reshape BLOB, BS_raw_data_reshape BLOB,
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time_cross_section BLOB, depth_cross_section BLOB,
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BS_cross_section BLOB, BS_stream_bed BLOB,
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depth_bottom BLOB, val_bottom BLOB, ind_bottom BLOB,
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time_noise BLOB, depth_noise BLOB, BS_noise_raw_data BLOB,
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SNR_raw_data BLOB, SNR_cross_section BLOB, SNR_stream_bed BLOB,
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BS_raw_data_pre_process_SNR BLOB,
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BS_raw_data_pre_process_average BLOB,
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BS_cross_section_pre_process_SNR BLOB,
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BS_cross_section_pre_process_average BLOB,
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BS_stream_bed_pre_process_SNR BLOB,
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BS_stream_bed_pre_process_average BLOB,
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BS_mean BLOB
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)
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"""
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self.create_Settings = """
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CREATE TABLE Settings(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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acoustic_data INTEGER,
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temperature FLOAT,
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distance_to_free_surface FLOAT,
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tmin_index INTEGER, tmin_value FLOAT,
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tmax_index INTEGER, tmax_value FLOAT,
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rmin_index INTEGER, rmin_value FLOAT,
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rmax_index INTEGER, rmax_value FLOAT,
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freq_bottom_detection_index INTEGER,
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freq_bottom_detection_value STRING,
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depth_bottom_detection_min FLOAT,
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depth_bottom_detection_max FLOAT,
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depth_bottom_detection_inverval FLOAT,
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SNR_filter_value FLOAT,
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Nb_cells_to_average_BS_signal FLOAT
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)
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"""
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self.create_SedimentsFile = """
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CREATE TABLE SedimentsFile(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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path_fine STRING,
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filename_fine STRING,
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radius_grain_fine BLOB,
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path_sand STRING,
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filename_sand STRING,
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radius_grain_sand BLOB,
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time_column_label STRING,
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distance_from_bank_column_label STRING,
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depth_column_label STRING,
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Ctot_fine_column_label STRING,
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D50_fine_column_label STRING,
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Ctot_sand_column_label STRING,
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D50_sand_column_label STRING
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)
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"""
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self.create_SedimentsData = """
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CREATE TABLE SedimentsData(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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sample_fine_name STRING,
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sample_fine_index INTEGER,
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distance_from_bank_fine FLOAT,
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depth_fine FLOAT,
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time_fine FLOAT,
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Ctot_fine FLOAT,
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Ctot_fine_per_cent FLOAT,
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D50_fine FLOAT,
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frac_vol_fine BLOB,
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frac_vol_fine_cumul BLOB,
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sample_sand_name STRING,
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sample_sand_index INTEGER,
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distance_from_bank_sand FLOAT,
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depth_sand FLOAT,
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time_sand FLOAT,
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Ctot_sand FLOAT,
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Ctot_sand_per_cent FLOAT,
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D50_sand FLOAT,
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frac_vol_sand BLOB,
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frac_vol_sand_cumul BLOB
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)
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"""
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self.create_Calibration_parameters = """
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CREATE TABLE CalibrationParameters(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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acoustic_data INTEGER,
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freq_1 INTEGER,
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freq_2 INTEGER,
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fine_profiles TEXT,
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sand_target INTEGER
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)
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"""
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self.create_Calibration = """
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CREATE TABLE Calibration(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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path_calibration_file STRING,
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filename_calibration_file STRING,
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range_lin_interp BLOB,
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M_profile_fine BLOB,
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ks BLOB,
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sv BLOB,
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X_exponent BLOB,
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alpha_s BLOB,
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zeta BLOB,
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FCB BLOB,
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depth_real BLOB,
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lin_reg BLOB
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)
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"""
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self.create_Inversion = """
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CREATE TABLE Inversion(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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J_cross_section_freq1 BLOB,
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J_cross_section_freq2 BLOB,
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VBI_cross_section BLOB,
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SSC_fine BLOB,
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SSC_sand BLOB
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)
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"""
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self.create_Notes = """
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CREATE TABLE Notes(
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ID INTEGER PRIMARY KEY AUTOINCREMENT,
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notes TEXT
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)
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"""
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def save_as(self):
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self.open_file_dialog()
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self.save()
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def save(self):
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start = time.time()
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self.create_table()
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logger.info(f"end : {time.time() - start} sec")
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def open_file_dialog(self):
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name, _ = QFileDialog.getSaveFileName(
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caption="Save As",
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directory="",
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filter="AcouSed Files (*.acd)",
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options=QFileDialog.DontUseNativeDialog
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)
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if name != "":
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filename = os.path.basename(name)
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if os.path.splitext(filename)[1] != ".acd":
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filename += ".acd"
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logger.debug(f"selected save file: '{filename}'")
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stg.dirname_save_as = os.path.dirname(name)
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stg.filename_save_as = filename
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try:
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os.chdir(stg.dirname_save_as)
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except OSError as e:
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logger.warning(f"chdir: {str(e)}")
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else:
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msgBox = QMessageBox()
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msgBox.setWindowTitle("Save Error")
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msgBox.setIcon(QMessageBox.Warning)
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msgBox.setText("No file saved")
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msgBox.setStandardButtons(QMessageBox.Ok)
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msgBox.exec()
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def create_table(self):
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cnx = sqlite3.connect(stg.filename_save_as)
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cur = cnx.cursor()
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self.create_table_acoustic_file(cnx, cur)
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self.create_table_measure(cnx, cur)
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self.create_table_BSRawData(cnx, cur)
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self.create_table_settings(cnx, cur)
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self.create_table_sediments_file(cnx, cur)
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self.create_table_sediments_data(cnx, cur)
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self.create_table_calibration_parameters(cnx, cur)
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self.create_table_calibration(cnx, cur)
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self.create_table_inversion(cnx, cur)
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self.create_table_notes(cnx, cur)
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cnx.commit()
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cur.close()
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cnx.close()
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def create_table_acoustic_file(self, cnx, cur):
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start_table_File = time.time()
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cur.execute("DROP TABLE if exists AcousticFile")
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cur.execute(self.create_AcousticFile)
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for i in stg.acoustic_data:
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logger.debug(f"stg.acoustic_data: {stg.acoustic_data[i]}")
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logger.debug("stg.filename_BS_raw_data: "
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+ f"{stg.filename_BS_raw_data[i]}")
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logger.debug(f"stg.ABS_name: {stg.ABS_name}")
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logger.debug(f"stg.path_BS_raw_data: {stg.path_BS_raw_data[i]}")
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cur.execute(
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"""
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INSERT into AcousticFile(
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acoustic_data,
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acoustic_file,
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ABS_name,
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path_BS_noise_data,
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filename_BS_noise_data,
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noise_method,
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noise_value,
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data_preprocessed)
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VALUES(?, ?, ?, ?, ?, ?, ?, ?)
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""",
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(
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stg.acoustic_data[i],
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stg.filename_BS_raw_data[i].split('.')[0],
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stg.ABS_name[i],
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stg.path_BS_noise_data[i],
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stg.filename_BS_noise_data[i],
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stg.noise_method[i],
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stg.noise_value[i],
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stg.data_preprocessed[i]
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)
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)
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cnx.commit()
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logger.info(f"table File : {time.time() - start_table_File} sec")
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def create_table_measure(self, cnx, cur):
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start_table_Measure = time.time()
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# Drop Table if exists
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cur.execute("DROP TABLE if exists Measure")
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# Execute the CREATE TABLE statement
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cur.execute(self.create_Measure)
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logger.debug(f"stg.date: {stg.date}, stg.hour: {stg.hour}")
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for i in stg.acoustic_data:
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for j in range(stg.freq[i].shape[0]):
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cur.execute(
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"""
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INSERT into Measure(
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acoustic_data,
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Date, Hour,
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frequency,
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sound_attenuation,
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kt_read, kt_corrected,
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NbProfiles, NbProfilesPerSeconds,
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NbCells, CellSize,
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PulseLength,
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NbPingsPerSeconds,
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NbPingsAveragedPerProfile,
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GainRx, GainTx
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)
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VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)
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""",
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(
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stg.acoustic_data[i],
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stg.date[i].isoformat(),
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stg.hour[i].isoformat(),
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stg.freq[i][j],
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stg.water_attenuation[i][j],
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stg.kt_read[j], stg.kt_corrected[j],
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stg.nb_profiles[i][j], stg.nb_profiles_per_sec[i][j],
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stg.nb_cells[i][j], stg.cell_size[i][j],
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stg.pulse_length[i][j],
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stg.nb_pings_per_sec[i][j],
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stg.nb_pings_averaged_per_profile[i][j],
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stg.gain_rx[i][j], stg.gain_tx[i][j]
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)
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)
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# Commit the transaction after executing INSERT.
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cnx.commit()
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logger.info(f"table Measure : {time.time() - start_table_Measure} sec")
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def create_table_BSRawData(self, cnx, cur):
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start_table_BSRawData = time.time()
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cur.execute('DROP TABLE if exists BSRawData')
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# Drop Table BSRawData_i if exists
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cur.execute(self.create_BSRawData)
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for i in stg.acoustic_data:
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cur.execute(
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"""
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INSERT into BSRawData(
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acoustic_data,
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time, depth,
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BS_raw_data,
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time_reshape,
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depth_reshape,
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BS_raw_data_reshape,
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time_cross_section, depth_cross_section,
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BS_cross_section, BS_stream_bed,
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depth_bottom, val_bottom, ind_bottom,
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time_noise, depth_noise, BS_noise_raw_data,
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SNR_raw_data, SNR_cross_section, SNR_stream_bed,
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BS_raw_data_pre_process_SNR, BS_raw_data_pre_process_average,
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BS_cross_section_pre_process_SNR, BS_cross_section_pre_process_average,
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BS_stream_bed_pre_process_SNR, BS_stream_bed_pre_process_average,
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BS_mean
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)
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VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?,
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?, ?, ?, ?, ?, ?)
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""",
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(
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stg.acoustic_data[i], stg.time[i].tobytes(),
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stg.depth[i].tobytes(), stg.BS_raw_data[i].tobytes(),
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stg.time_reshape[i].tobytes(), stg.depth_reshape[i].tobytes(),
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stg.BS_raw_data_reshape[i].tobytes(),
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stg.time_cross_section[i].tobytes(),
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stg.depth_cross_section[i].tobytes(),
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stg.BS_cross_section[i].tobytes(), stg.BS_stream_bed[i].tobytes(),
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stg.depth_bottom[i].tobytes(), np.array(stg.val_bottom[i]).tobytes(),
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np.array(stg.ind_bottom[i]).tobytes(),
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stg.time_noise[i].tobytes(), stg.depth_noise[i].tobytes(),
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stg.BS_noise_raw_data[i].tobytes(),
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stg.SNR_raw_data[i].tobytes(), stg.SNR_cross_section[i].tobytes(),
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stg.SNR_stream_bed[i].tobytes(),
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stg.BS_raw_data_pre_process_SNR[i].tobytes(),
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stg.BS_raw_data_pre_process_average[i].tobytes(),
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stg.BS_cross_section_pre_process_SNR[i].tobytes(),
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stg.BS_cross_section_pre_process_average[i].tobytes(),
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stg.BS_stream_bed_pre_process_SNR[i].tobytes(),
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stg.BS_stream_bed_pre_process_average[i].tobytes(),
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stg.BS_mean[i].tobytes()
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)
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)
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# Commit the transaction after executing INSERT.
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cnx.commit()
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logger.info(f"table BSRawData : {time.time() - start_table_BSRawData} sec")
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def create_table_settings(self, cnx, cur):
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start_table_Settings = time.time()
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cur.execute("DROP TABLE if exists Settings")
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cur.execute(self.create_Settings)
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logger.debug(f"acoustic_data: {stg.acoustic_data}")
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logger.debug(f"temperature: {stg.temperature}")
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logger.debug(f"rmin: {stg.rmin}, rmax: {stg.rmax}")
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logger.debug(f"tmin: {stg.tmin}, tmax: {stg.tmax}")
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for i in stg.acoustic_data:
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cur.execute(
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"""
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INSERT into Settings(
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acoustic_data, temperature, distance_to_free_surface,
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tmin_index, tmin_value, tmax_index, tmax_value,
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rmin_index, rmin_value, rmax_index, rmax_value,
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freq_bottom_detection_index, freq_bottom_detection_value,
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depth_bottom_detection_min,
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depth_bottom_detection_max,
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depth_bottom_detection_inverval,
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SNR_filter_value, Nb_cells_to_average_BS_signal
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)
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VALUES(?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?)
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""",
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(
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stg.acoustic_data[i], stg.temperature,
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stg.distance_from_ABS_to_free_surface[i],
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int(stg.tmin[i][0]), stg.tmin[i][1],
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int(stg.tmax[i][0]), stg.tmax[i][1],
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int(stg.rmin[i][0]), stg.rmin[i][1],
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int(stg.rmax[i][0]), stg.rmax[i][1],
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stg.freq_bottom_detection[i][0],
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stg.freq_bottom_detection[i][1],
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stg.depth_bottom_detection_min[i],
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stg.depth_bottom_detection_max[i],
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stg.depth_bottom_detection_interval[i],
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stg.SNR_filter_value[i],
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stg.Nb_cells_to_average_BS_signal[i]
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)
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)
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cnx.commit()
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logger.info(f"table Settings : {time.time() - start_table_Settings} sec")
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def create_table_sediments_file(self, cnx, cur):
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start_table_SedimentsFile = time.time()
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cur.execute("DROP TABLE if exists SedimentsFile")
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cur.execute(self.create_SedimentsFile)
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if stg.path_fine != "" and stg.path_sand != "":
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cur.execute(
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"""
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INSERT into SedimentsFile(
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path_fine, filename_fine, radius_grain_fine,
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path_sand, filename_sand, radius_grain_sand,
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time_column_label, distance_from_bank_column_label,
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depth_column_label, Ctot_fine_column_label,
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|
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()
|
|
|
|
logger.info(f"table SedimentsFile : {time.time() - start_table_SedimentsFile} sec")
|
|
|
|
|
|
def create_table_sediments_data(self, cnx, cur):
|
|
start_table_SedimentsData = time.time()
|
|
|
|
cur.execute("DROP TABLE if exists SedimentsData")
|
|
|
|
cur.execute(self.create_SedimentsData)
|
|
|
|
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()
|
|
|
|
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()
|
|
|
|
cur.execute("DROP TABLE if exists Calibration")
|
|
|
|
cur.execute(self.create_Calibration)
|
|
|
|
if len(stg.range_lin_interp) != 0:
|
|
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(),
|
|
np.array(stg.FCB).tobytes(),
|
|
np.array(stg.depth_real).tobytes(),
|
|
np.array(stg.lin_reg).tobytes()
|
|
)
|
|
)
|
|
|
|
cnx.commit()
|
|
|
|
logger.info(f"table Calibration : {time.time() - start_table_Calibration} sec")
|
|
|
|
def create_table_inversion(self, cnx, cur):
|
|
start_table_Inversion = time.time()
|
|
|
|
cur.execute("DROP TABLE if exists Inversion")
|
|
|
|
cur.execute(self.create_Inversion)
|
|
|
|
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()
|
|
|
|
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")
|