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AviaNZ_batch_GUI.py
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# Version 3.0 14/09/20
# Authors: Stephen Marsland, Nirosha Priyadarshani, Julius Juodakis, Virginia Listanti
# This contains all the GUI parts for batch running of AviaNZ.
# AviaNZ bioacoustic analysis program
# Copyright (C) 2017--2020
# 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 <http://www.gnu.org/licenses/>.
from PyQt5.QtGui import QIcon, QPixmap, QColor
from PyQt5.QtWidgets import QMessageBox, QMainWindow, QLabel, QPlainTextEdit, QPushButton, QRadioButton, QTimeEdit, QSpinBox, QDesktopWidget, QApplication, QComboBox, QLineEdit, QSlider, QListWidgetItem, QCheckBox, QGroupBox, QGridLayout, QHBoxLayout, QVBoxLayout, QFrame, QProgressDialog
from PyQt5.QtCore import Qt, QDir, QSize
import fnmatch, gc, sys, os, json, re
import numpy as np
import wavio
from pyqtgraph.Qt import QtGui
from pyqtgraph.dockarea import *
import pyqtgraph as pg
import AviaNZ_batch
import SignalProc
import Segment
import SupportClasses, SupportClasses_GUI
import Dialogs
import colourMaps
import webbrowser, copy, math
class AviaNZ_batchWindow(QMainWindow):
def __init__(self, configdir=''):
# Allow the user to browse a folder and push a button to process that folder to find a target species
# and sets up the window.
QMainWindow.__init__(self)
self.batchProc = AviaNZ_batch.AviaNZ_batchProcess(self,mode="GUI",configdir=configdir,sdir='',recogniser=None,wind=False)
self.FilterDicts = self.batchProc.FilterDicts
self.dirName=''
self.statusBar().showMessage("Select a directory to process")
self.setWindowTitle('AviaNZ - Batch Processing')
self.setWindowIcon(QIcon('img/Avianz.ico'))
self.createMenu()
self.createFrame()
self.center()
def createFrame(self):
# Make the window and set its size
self.area = DockArea()
self.setCentralWidget(self.area)
self.setMinimumSize(850, 720)
# Make the docks
self.d_detection = Dock("Automatic Detection",size=(550, 700))
self.d_files = Dock("File list", size=(300, 700))
self.area.addDock(self.d_detection, 'right')
self.area.addDock(self.d_files, 'left')
self.w_browse = QPushButton(" Browse Folder")
self.w_browse.setToolTip("Select a folder to process (may contain sub folders)")
self.w_browse.setFixedSize(165, 50)
self.w_browse.setIcon(self.style().standardIcon(QtGui.QStyle.SP_DialogOpenButton))
self.w_browse.setStyleSheet('QPushButton {font-weight: bold; padding: 3px 3px 3px 3px}')
self.w_dir = QPlainTextEdit()
self.w_dir.setFixedHeight(50)
self.w_dir.setReadOnly(True)
self.w_dir.setPlainText('')
self.w_dir.setToolTip("The folder being processed")
self.w_dir.setStyleSheet("color : #808080;")
w_speLabel1 = QLabel("Select one or more recognisers to use:")
self.w_spe1 = QComboBox()
self.speCombos = [self.w_spe1]
# populate this box (always show all filters here)
spp = list(self.FilterDicts.keys())
self.w_spe1.addItems(spp)
self.w_spe1.addItem("Any sound")
self.w_spe1.addItem("Any sound (Intermittent sampling)")
self.w_spe1.currentTextChanged.connect(self.fillSpeciesBoxes)
self.addSp = QPushButton("Add another recogniser")
self.addSp.clicked.connect(self.addSpeciesBox)
w_timeLabel = QLabel("Want to process a subset of recordings only e.g. dawn or dusk?\nThen select the time window, otherwise skip")
self.w_timeStart = QTimeEdit()
self.w_timeStart.setDisplayFormat('hh:mm:ss')
self.w_timeEnd = QTimeEdit()
self.w_timeEnd.setDisplayFormat('hh:mm:ss')
self.w_wind = QCheckBox("Add wind filter")
# Sliders for minlen and maxgap are in ms scale
self.minlen = QSlider(Qt.Horizontal)
self.minlen.setTickPosition(QSlider.TicksBelow)
self.minlen.setTickInterval(0.5*1000)
self.minlen.setRange(0.25*1000, 10*1000)
self.minlen.setSingleStep(1*1000)
self.minlen.setValue(0.5*1000)
self.minlen.valueChanged.connect(self.minLenChange)
self.minlenlbl = QLabel("Minimum segment length: 0.5 sec")
self.maxlen = QSlider(Qt.Horizontal)
self.maxlen.setTickPosition(QSlider.TicksBelow)
self.maxlen.setTickInterval(5*1000)
self.maxlen.setRange(5*1000, 120*1000)
self.maxlen.setSingleStep(5*1000)
self.maxlen.setValue(10*1000)
self.maxlen.valueChanged.connect(self.maxLenChange)
self.maxlenlbl = QLabel("Maximum segment length: 10 sec")
self.maxgap = QSlider(Qt.Horizontal)
self.maxgap.setTickPosition(QSlider.TicksBelow)
self.maxgap.setTickInterval(0.5*1000)
self.maxgap.setRange(0.25*1000, 10*1000)
self.maxgap.setSingleStep(0.5*1000)
self.maxgap.setValue(1*1000)
self.maxgap.valueChanged.connect(self.maxGapChange)
self.maxgaplbl = QLabel("Maximum gap between syllables: 1 sec")
self.w_processButton = SupportClasses_GUI.MainPushButton(" Process Folder")
self.w_processButton.setIcon(QIcon(QPixmap('img/process.png')))
self.w_processButton.clicked.connect(self.detect)
self.w_processButton.setFixedWidth(165)
self.w_processButton.setEnabled(False)
self.w_browse.clicked.connect(self.browse)
self.d_detection.addWidget(self.w_dir, row=0, col=0, colspan=2)
self.d_detection.addWidget(self.w_browse, row=0, col=2)
self.d_detection.addWidget(w_speLabel1, row=1, col=0)
# Filter selection group
self.boxSp = QGroupBox("")
self.formSp = QVBoxLayout()
self.formSp.addWidget(w_speLabel1)
self.formSp.addWidget(self.w_spe1)
self.formSp.addWidget(self.addSp)
self.boxSp.setLayout(self.formSp)
self.d_detection.addWidget(self.boxSp, row=1, col=0, colspan=3)
# Time Settings group
self.boxTime = QGroupBox()
formTime = QGridLayout()
formTime.addWidget(w_timeLabel, 0, 0, 1, 2)
formTime.addWidget(QLabel("Start time (hh:mm:ss)"), 1, 0)
formTime.addWidget(self.w_timeStart, 1, 1)
formTime.addWidget(QLabel("End time (hh:mm:ss)"), 2, 0)
formTime.addWidget(self.w_timeEnd, 2, 1)
self.boxTime.setLayout(formTime)
self.d_detection.addWidget(self.boxTime, row=2, col=0, colspan=3)
self.warning = QLabel("Warning!\nThe chosen \"Any sound\" mode will delete ALL the existing annotations\nin the above selected folder")
self.warning.setStyleSheet('QLabel {font-size:14px; color:red;}')
self.d_detection.addWidget(self.warning, row=3, col=0, colspan=3)
self.warning.hide()
# Post Proc checkbox group
self.boxPost = QGroupBox("Post processing")
formPost = QGridLayout()
formPost.addWidget(self.w_wind, 0, 1)
formPost.addWidget(self.maxgaplbl, 2, 0)
formPost.addWidget(self.maxgap, 2, 1)
formPost.addWidget(self.minlenlbl, 3, 0)
formPost.addWidget(self.minlen, 3, 1)
formPost.addWidget(self.maxlenlbl, 4, 0)
formPost.addWidget(self.maxlen, 4, 1)
self.boxPost.setLayout(formPost)
self.d_detection.addWidget(self.boxPost, row=4, col=0, colspan=3)
if len(spp) > 0:
self.maxgaplbl.hide()
self.maxgap.hide()
self.minlenlbl.hide()
self.minlen.hide()
self.maxlenlbl.hide()
self.maxlen.hide()
self.d_detection.addWidget(self.w_processButton, row=6, col=2)
self.w_files = pg.LayoutWidget()
self.d_files.addWidget(self.w_files)
# List to hold the list of files
colourNone = QColor(self.batchProc.config['ColourNone'][0], self.batchProc.config['ColourNone'][1], self.batchProc.config['ColourNone'][2], self.batchProc.config['ColourNone'][3])
colourPossibleDark = QColor(self.batchProc.config['ColourPossible'][0], self.batchProc.config['ColourPossible'][1], self.batchProc.config['ColourPossible'][2], 255)
colourNamed = QColor(self.batchProc.config['ColourNamed'][0], self.batchProc.config['ColourNamed'][1], self.batchProc.config['ColourNamed'][2], self.batchProc.config['ColourNamed'][3])
self.listFiles = SupportClasses_GUI.LightedFileList(colourNone, colourPossibleDark, colourNamed)
self.listFiles.itemDoubleClicked.connect(self.listLoadFile)
self.w_files.addWidget(QLabel('Double click to select a folder'), row=0, col=0)
self.w_files.addWidget(self.listFiles, row=2, col=0)
self.d_detection.layout.setContentsMargins(20, 20, 20, 20)
self.d_detection.layout.setSpacing(20)
self.d_files.layout.setContentsMargins(10, 10, 10, 10)
self.d_files.layout.setSpacing(10)
self.show()
def minLenChange(self, value):
self.minlenlbl.setText("Minimum segment length: %s sec" % str(round(int(value)/1000, 2)))
def maxLenChange(self, value):
self.maxlenlbl.setText("Maximum segment length: %s sec" % str(round(int(value)/1000, 2)))
def maxGapChange(self, value):
self.maxgaplbl.setText("Maximum gap between syllables: %s sec" % str(round(int(value)/1000, 2)))
def createMenu(self):
""" Create the basic menu.
"""
helpMenu = self.menuBar().addMenu("&Help")
helpMenu.addAction("Help", self.showHelp,"Ctrl+H")
aboutMenu = self.menuBar().addMenu("&About")
aboutMenu.addAction("About", self.showAbout,"Ctrl+A")
quitMenu = self.menuBar().addMenu("&Quit")
quitMenu.addAction("Restart program", self.restart)
quitMenu.addAction("Quit", QApplication.quit, "Ctrl+Q")
def showAbout(self):
""" Create the About Message Box. Text is set in SupportClasses_GUI.MessagePopup"""
msg = SupportClasses_GUI.MessagePopup("a", "About", ".")
msg.exec_()
return
def showHelp(self):
""" Show the user manual (a pdf file)"""
webbrowser.open_new(r'file://' + os.path.realpath('./Docs/AviaNZManual.pdf'))
# webbrowser.open_new(r'http://avianz.net/docs/AviaNZManual.pdf')
def restart(self):
print("Restarting")
QApplication.exit(1)
def detect(self):
if not self.dirName:
msg = SupportClasses_GUI.MessagePopup("w", "Select Folder", "Please select a folder to process!")
msg.exec_()
return(1)
# retrieve selected filter(s)
self.species = set()
for box in self.speCombos:
if box.currentText() != "":
self.species.add(box.currentText())
self.species = list(self.species)
print("Recogniser:", self.species)
self.batchProc.detect()
def check_msg(self,title,text):
msg = SupportClasses_GUI.MessagePopup("t", title, text)
msg.setStandardButtons(QMessageBox.Yes | QMessageBox.No)
response = msg.exec_()
if response == QMessageBox.Cancel:
# catch unclean (Esc) exits
return False
if response == QMessageBox.No:
return False
else:
return True
def clean_UI(self,total,cnt):
self.w_processButton.setEnabled(False)
self.update()
self.repaint()
self.dlg = QProgressDialog("Analysing file 1 / %d. Time remaining: ? h ?? min" % total, "Cancel run", cnt, total+1, self)
self.dlg.setFixedSize(350, 100)
self.dlg.setWindowIcon(QIcon('img/Avianz.ico'))
self.dlg.setWindowTitle("AviaNZ - running Batch Analysis")
self.dlg.setWindowFlags(self.dlg.windowFlags() ^ Qt.WindowContextHelpButtonHint ^ Qt.WindowCloseButtonHint)
self.dlg.open()
self.dlg.setValue(cnt)
self.dlg.update()
self.dlg.repaint()
QApplication.processEvents()
#QApplication.processEvents()
def error_fileproc(self,total,e):
self.statusBar().showMessage("Analysis stopped due to error")
self.dlg.setValue(total+1)
msg = SupportClasses_GUI.MessagePopup("w", "Analysis error!", e)
msg.setStyleSheet("{color: #cc0000}")
msg.exec_()
self.w_processButton.setEnabled(True)
def endproc(self,total):
self.statusBar().showMessage("Processed all %d files" % total)
self.w_processButton.setEnabled(True)
text = "Finished processing.\nWould you like to return to the start screen?"
reply = self.check_msg("Finished",text)
if reply:
QApplication.exit(1)
else:
return(0)
def update_progress(self,cnt,total,progrtext):
self.dlg.setValue(cnt)
self.dlg.setLabelText("Analysed "+progrtext)
self.dlg.update()
if self.dlg.wasCanceled():
print("Analysis cancelled")
self.dlg.setValue(total+1)
self.statusBar().showMessage("Analysis cancelled")
self.w_processButton.setEnabled(True)
return(2)
# Refresh GUI after each file (only the ProgressDialog which is modal)
QApplication.processEvents()
def center(self):
# geometry of the main window
qr = self.frameGeometry()
# center point of screen
cp = QDesktopWidget().availableGeometry().center()
# move rectangle's center point to screen's center point
qr.moveCenter(cp)
# top left of rectangle becomes top left of window centering it
self.move(qr.topLeft())
def browse(self):
if self.dirName:
self.dirName = QtGui.QFileDialog.getExistingDirectory(self,'Choose Folder to Process',str(self.dirName))
else:
self.dirName = QtGui.QFileDialog.getExistingDirectory(self,'Choose Folder to Process')
self.w_dir.setPlainText(self.dirName)
self.w_dir.setReadOnly(True)
# populate file list and update rest of interface:
if self.fillFileList()==0:
self.statusBar().showMessage("Ready for processing")
self.w_processButton.setEnabled(True)
else:
self.statusBar().showMessage("Select a directory to process")
self.w_processButton.setEnabled(False)
def addSpeciesBox(self):
""" Deals with adding and moving species comboboxes """
# create a new combobox
newSpBox = QComboBox()
self.speCombos.append(newSpBox)
# populate it with possible species (that have same Fs)
self.fillSpeciesBoxes()
# create a "delete" button for it
delSpBtn = QPushButton("X")
delSpBtn.speciesbox = newSpBox
delSpBtn.setFixedWidth(30)
# connect the listener for deleting
delSpBtn.clicked.connect(self.removeSpeciesBox)
# insert those just above Add button
btncombo = QHBoxLayout()
delSpBtn.layout = btncombo
btncombo.addWidget(newSpBox)
btncombo.addWidget(delSpBtn)
self.formSp.insertLayout(len(self.speCombos), btncombo)
self.boxSp.setMinimumHeight(30*len(self.speCombos)+90)
self.setMinimumHeight(610+30*len(self.speCombos))
self.boxSp.updateGeometry()
def removeSpeciesBox(self):
""" Deals with removing and moving species comboboxes """
# identify the clicked button
called = self.sender()
lay = called.layout
# delete the corresponding combobox and button from their HBox
self.speCombos.remove(called.speciesbox)
lay.removeWidget(called.speciesbox)
called.speciesbox.deleteLater()
lay.removeWidget(called)
called.deleteLater()
# remove the empty HBox
self.formSp.removeItem(lay)
lay.deleteLater()
self.boxSp.setMinimumHeight(30*len(self.speCombos)+90)
self.setMinimumHeight(610+30*len(self.speCombos))
self.boxSp.updateGeometry()
def fillSpeciesBoxes(self):
# select filters with Fs matching box 1 selection
# and show/hide any other UI elements specific to bird filters or AnySound methods
spp = []
currname = self.w_spe1.currentText()
if currname not in ["Any sound", "Any sound (Intermittent sampling)"]:
currfilt = self.FilterDicts[currname]
# (can't use AllSp with any other filter)
# Also don't add the same name again
for name, filter in self.FilterDicts.items():
if filter["SampleRate"]==currfilt["SampleRate"] and name!=currname:
spp.append(name)
self.minlen.hide()
self.minlenlbl.hide()
self.maxlen.hide()
self.maxlenlbl.hide()
self.maxgap.hide()
self.maxgaplbl.hide()
self.boxPost.show()
self.boxTime.show()
self.addSp.show()
self.warning.hide()
elif currname != "Any sound (Intermittent sampling)":
self.minlen.show()
self.minlenlbl.show()
self.maxlen.show()
self.maxlenlbl.show()
self.maxgap.show()
self.maxgaplbl.show()
self.boxPost.show()
self.boxTime.show()
self.addSp.hide()
self.warning.show()
else:
self.boxPost.hide()
self.boxTime.hide()
self.addSp.hide()
self.warning.show()
if currname=="NZ Bats":
self.addSp.setEnabled(False)
self.addSp.setToolTip("Bat recognisers cannot be combined with others")
self.w_wind.setChecked(False)
self.w_wind.setEnabled(False)
self.w_wind.setToolTip("Filter not applicable to bats")
else:
self.addSp.setEnabled(True)
self.addSp.setToolTip("")
self.w_wind.setEnabled(True)
self.w_wind.setToolTip("")
# (skip first box which is fixed)
for box in self.speCombos[1:]:
# clear old items:
for i in reversed(range(box.count())):
box.removeItem(i)
box.setCurrentIndex(-1)
box.setCurrentText("")
box.addItems(spp)
def fillFileList(self, fileName=None):
""" Populates the list of files for the file listbox.
Returns an error code if the specified directory is bad.
"""
if not os.path.isdir(self.dirName):
print("ERROR: directory %s doesn't exist" % self.dirName)
self.listFiles.clear()
return(1)
self.listFiles.fill(self.dirName, fileName)
# update the "Browse" field text
self.w_dir.setPlainText(self.dirName)
return(0)
def listLoadFile(self,current):
""" Listener for when the user clicks on an item in filelist """
# Need name of file
if type(current) is QListWidgetItem:
current = current.text()
current = re.sub('\/.*', '', current)
self.previousFile = current
# Update the file list to show the right one
i=0
lof = self.listFiles.listOfFiles
while i<len(lof)-1 and lof[i].fileName() != current:
i+=1
if lof[i].isDir() or (i == len(lof)-1 and lof[i].fileName() != current):
dir = QDir(self.dirName)
dir.cd(lof[i].fileName())
# Now repopulate the listbox
self.dirName=str(dir.absolutePath())
self.previousFile = None
self.fillFileList(current)
# Show the selected file
index = self.listFiles.findItems(os.path.basename(current), Qt.MatchExactly)
if len(index) > 0:
self.listFiles.setCurrentItem(index[0])
return(0)
class AviaNZ_reviewAll(QMainWindow):
# Main class for reviewing batch processing results
# Should call HumanClassify1 somehow
def __init__(self,root=None,configdir=''):
# Allow the user to browse a folder and push a button to process that folder to find a target species
# and sets up the window.
super(AviaNZ_reviewAll, self).__init__()
self.root = root
self.dirName=''
self.configdir = configdir
# At this point, the main config file should already be ensured to exist.
self.configfile = os.path.join(configdir, "AviaNZconfig.txt")
self.ConfigLoader = SupportClasses.ConfigLoader()
self.config = self.ConfigLoader.config(self.configfile)
self.saveConfig = True
# For some calltype functionality, a list of current filters is needed
filtersDir = os.path.join(configdir, self.config['FiltersDir'])
self.FilterDicts = self.ConfigLoader.filters(filtersDir)
# Make the window and associated widgets
QMainWindow.__init__(self, root)
self.statusBar().showMessage("Ready to review")
self.setWindowTitle('AviaNZ - Review Batch Results')
self.createFrame()
self.createMenu()
self.center()
def createFrame(self):
# Make the window and set its size
self.area = DockArea()
self.setCentralWidget(self.area)
self.setMinimumSize(1000, 750)
self.setWindowIcon(QIcon('img/Avianz.ico'))
# Make the docks
self.d_detection = Dock("Review",size=(600, 250), autoOrientation=False)
self.d_files = Dock("File list", size=(300, 750))
self.d_excel = Dock("Excel", size=(600, 150))
self.d_settings = Dock("Advanced settings", size=(600, 350))
self.d_excel.hideTitleBar()
self.d_settings.hideTitleBar()
self.area.addDock(self.d_files, 'left')
self.area.addDock(self.d_detection, 'right')
self.area.addDock(self.d_excel, 'bottom', self.d_detection)
self.area.addDock(self.d_settings, 'bottom', self.d_excel)
self.w_revLabel = QLabel("Reviewer")
self.w_reviewer = QLineEdit()
self.w_browse = QPushButton(" Browse Folder")
self.w_browse.setToolTip("Select a folder to review (may contain sub folders)")
self.w_browse.setFixedHeight(50)
self.w_browse.setStyleSheet('QPushButton {font-weight: bold}')
self.w_browse.setIcon(self.style().standardIcon(QtGui.QStyle.SP_DialogOpenButton))
self.w_dir = QPlainTextEdit()
self.w_dir.setFixedHeight(50)
self.w_dir.setPlainText('')
self.w_dir.setToolTip("The folder being processed")
self.w_processButton = SupportClasses_GUI.MainPushButton(" Review One-By-One")
self.w_processButton.setIcon(QIcon(QPixmap('img/review.png')))
self.w_processButton.clicked.connect(self.reviewClickedAll)
self.w_processButton.setEnabled(False)
self.w_processButton1 = SupportClasses_GUI.MainPushButton(" Review Quick")
self.w_processButton1.setIcon(QIcon(QPixmap('img/tile1.png')))
self.w_processButton1.clicked.connect(self.reviewClickedSingle)
self.w_processButton1.setEnabled(False)
self.w_processButton.setMinimumWidth(200)
self.w_processButton1.setMinimumWidth(200)
self.w_speLabel1 = QLabel("Species to review")
self.w_spe1 = QComboBox()
self.w_spe1.currentIndexChanged.connect(self.speChanged)
self.spList = []
self.w_spe1.addItem('All species')
self.w_spe1.addItems(self.spList)
self.w_spe1.setEnabled(False)
# Simple certainty selector:
self.certCombo = QComboBox()
self.certCombo.addItems(["Show all (even previously reviewed)", "Show only auto/unknown", "Custom certainty bounds"])
self.certCombo.setCurrentIndex(1)
self.certCombo.activated.connect(self.changedCertSimple)
# add controls to dock
self.d_detection.addWidget(self.w_dir, row=0,col=1, colspan=2)
self.d_detection.addWidget(self.w_browse, row=0,col=0)
self.d_detection.addWidget(self.w_revLabel, row=1, col=0)
self.d_detection.addWidget(self.w_reviewer, row=1, col=1, colspan=2)
self.d_detection.addWidget(self.w_speLabel1,row=2,col=0)
self.d_detection.addWidget(self.w_spe1,row=2, col=1, colspan=2)
self.d_detection.addWidget(QLabel("Minimum certainty to show"), row=3, col=0)
self.d_detection.addWidget(self.certCombo, row=3, col=1, colspan=2)
# self.d_detection.addWidget(self.w_processButton1, row=4, col=1)
# self.d_detection.addWidget(self.w_processButton, row=4, col=2)
procBox = QHBoxLayout()
procBox.addStretch(5)
procBox.addWidget(self.w_processButton1)
procBox.addStretch(1)
procBox.addWidget(self.w_processButton)
procBox.addStretch(5)
self.d_detection.layout.addLayout(procBox, 4, 0, 1, 3)
# Excel export section
self.w_resLabel = QLabel("Size(s) of presence/absence windows\nin the output")
self.w_res = QSpinBox()
self.w_res.setRange(1,600)
self.w_res.setSingleStep(5)
self.w_res.setValue(60)
timePrecisionLabel = QLabel("Output timestamp precision")
self.timePrecisionBox = QComboBox()
self.timePrecisionBox.addItems(["Down to seconds", "Down to milliseconds"])
self.d_excel.addWidget(self.w_resLabel, row=6, col=0)
self.d_excel.addWidget(self.w_res, row=6, col=1, colspan=2)
self.d_excel.addWidget(timePrecisionLabel, row=7, col=0)
self.d_excel.addWidget(self.timePrecisionBox, row=7, col=1, colspan=2)
self.w_excelButton = QPushButton(" Generate Excel ")
self.w_excelButton.setStyleSheet('QPushButton {font-weight: bold; font-size:14px; padding: 2px 2px 2px 8px}')
self.w_excelButton.setFixedHeight(45)
self.w_excelButton.setIcon(QIcon(QPixmap('img/excel.png')))
self.w_excelButton.clicked.connect(self.exportExcel)
self.w_excelButton.setEnabled(False)
self.d_excel.addWidget(self.w_excelButton, row=8, col=2)
self.toggleSettingsBtn = QPushButton(" Advanced settings ")
self.toggleSettingsBtn.setStyleSheet('QPushButton {font-weight: bold; padding: 2px 2px 2px 4px}')
self.toggleSettingsBtn.setFixedHeight(32)
self.toggleSettingsBtn.setIcon(QIcon(QPixmap('img/settingsmore.png')))
self.toggleSettingsBtn.setIconSize(QSize(25, 17))
self.toggleSettingsBtn.clicked.connect(self.toggleSettings)
# linesep = QFrame()
# linesep.setFrameShape(QFrame.HLine)
# linesep.setFrameShadow(QFrame.Sunken)
# ADVANCED SETTINGS:
# precise certainty bounds
self.certBox = QSpinBox()
self.certBox.setRange(0,100)
self.certBox.setSingleStep(10)
self.certBox.setValue(90)
self.certBox.valueChanged.connect(self.changedCert)
# sliders to select min/max frequencies for ALL SPECIES only
self.fLow = QSlider(Qt.Horizontal)
self.fLow.setTickPosition(QSlider.TicksBelow)
self.fLow.setTickInterval(500)
self.fLow.setRange(0, 5000)
self.fLow.setSingleStep(100)
self.fLowcheck = QCheckBox()
self.fLowtext = QLabel('Show only freq. above (Hz)')
self.fLowvalue = QLabel('0')
self.fLow.valueChanged.connect(self.fLowChanged)
self.fHigh = QSlider(Qt.Horizontal)
self.fHigh.setTickPosition(QSlider.TicksBelow)
self.fHigh.setTickInterval(1000)
self.fHigh.setRange(4000, 32000)
self.fHigh.setSingleStep(250)
self.fHigh.setValue(32000)
self.fHighcheck = QCheckBox()
self.fHightext = QLabel('Show only freq. below (Hz)')
self.fHighvalue = QLabel('32000')
self.fHigh.valueChanged.connect(self.fHighChanged)
# disable freq sliders until they are toggled on:
self.fLowcheck.stateChanged.connect(self.toggleFreqLow)
self.fHighcheck.stateChanged.connect(self.toggleFreqHigh)
for widg in [self.fLow, self.fLowtext, self.fLowvalue, self.fHigh, self.fHightext, self.fHighvalue]:
widg.setEnabled(False)
# FFT parameters
self.winwidthBox = QSpinBox()
self.incrBox = QSpinBox()
self.winwidthBox.setRange(2, 1000000)
self.incrBox.setRange(1, 1000000)
self.winwidthBox.setValue(self.config['window_width'])
self.incrBox.setValue(self.config['incr'])
# Single Sp review parameters
self.chunksizeAuto = QRadioButton("Auto-pick view size")
self.chunksizeAuto.setChecked(True)
self.chunksizeManual = QRadioButton("View segments in chunks of (s):")
self.chunksizeManual.toggled.connect(self.chunkChanged)
self.chunksizeBox = QSpinBox()
self.chunksizeBox.setRange(1, 60)
self.chunksizeBox.setValue(10)
self.chunksizeBox.setEnabled(False)
# Advanced Settings Layout
self.d_settings.addWidget(self.toggleSettingsBtn, row=0, col=2, colspan=2, rowspan=1)
self.d_settings.addWidget(QLabel("Skip if certainty above:"), row=1, col=0, colspan=2, rowspan=1)
self.d_settings.addWidget(self.certBox, row=1, col=2, colspan=2, rowspan=1)
self.d_settings.addWidget(self.fLowcheck, row=2, col=0)
self.d_settings.addWidget(self.fLowtext, row=2, col=1)
self.d_settings.addWidget(self.fLow, row=2, col=2, colspan=2, rowspan=1)
self.d_settings.addWidget(self.fLowvalue, row=2, col=4)
self.d_settings.addWidget(self.fHighcheck, row=3, col=0)
self.d_settings.addWidget(self.fHightext, row=3, col=1)
self.d_settings.addWidget(self.fHigh, row=3, col=2, colspan=2, rowspan=1)
self.d_settings.addWidget(self.fHighvalue, row=3, col=4)
self.d_settings.addWidget(QLabel("FFT window size"), row=4, col=1)
self.d_settings.addWidget(self.winwidthBox, row=4, col=2)
self.d_settings.addWidget(QLabel("FFT hop size"), row=4, col=3)
self.d_settings.addWidget(self.incrBox, row=4, col=4)
self.d_settings.addWidget(self.chunksizeAuto, row=5, col=0, colspan=2, rowspan=1)
self.d_settings.addWidget(self.chunksizeManual, row=6, col=0, colspan=2, rowspan=1)
self.d_settings.addWidget(self.chunksizeBox, row=6, col=2)
self.w_browse.clicked.connect(self.browse)
# print("spList after browse: ", self.spList)
self.w_files = pg.LayoutWidget()
self.d_files.addWidget(self.w_files)
self.w_files.addWidget(QLabel('Double click to select a folder'), row=0, col=0)
# List to hold the list of files
colourNone = QColor(self.config['ColourNone'][0], self.config['ColourNone'][1], self.config['ColourNone'][2], self.config['ColourNone'][3])
colourPossibleDark = QColor(self.config['ColourPossible'][0], self.config['ColourPossible'][1], self.config['ColourPossible'][2], 255)
colourNamed = QColor(self.config['ColourNamed'][0], self.config['ColourNamed'][1], self.config['ColourNamed'][2], self.config['ColourNamed'][3])
self.listFiles = SupportClasses_GUI.LightedFileList(colourNone, colourPossibleDark, colourNamed)
self.listFiles.itemDoubleClicked.connect(self.listLoadFile)
self.w_files.addWidget(self.listFiles, row=2, col=0)
self.d_detection.layout.setContentsMargins(20, 20, 20, 20)
self.d_detection.layout.setSpacing(20)
self.d_excel.layout.setContentsMargins(20, 20, 20, 20)
self.d_excel.layout.setSpacing(20)
self.d_settings.layout.setContentsMargins(20, 20, 20, 20)
self.d_settings.layout.setSpacing(20)
self.d_files.layout.setContentsMargins(10, 10, 10, 10)
self.d_files.layout.setSpacing(10)
for item in self.d_settings.widgets:
if item!=self.toggleSettingsBtn:
item.hide()
self.d_settings.layout.setColumnMinimumWidth(1, 80)
self.d_settings.layout.setColumnMinimumWidth(4, 80)
self.d_settings.layout.setColumnStretch(2, 5)
self.show()
def changedCertSimple(self, cert):
# update certainty spinbox (adv setting) when dropdown changed
if cert==0:
# Will show all annotations
self.certBox.setValue(100)
elif cert==1:
# Will show yellow, red annotations
self.certBox.setValue(90)
else:
# Will show a custom range
# Make sure the advanced settings dock is visible, to make it obvious
# where to change this parameter
self.toggleSettings(None, forceOn=True)
self.certBox.setFocus()
def changedCert(self, cert):
# update certainty dropdown when advanced setting changed
if cert==100:
# "Show all"
self.certCombo.setCurrentIndex(0)
elif cert==90:
# "Show yellow + red"
self.certCombo.setCurrentIndex(1)
else:
# "custom"
self.certCombo.setCurrentIndex(2)
def toggleSettings(self, clicked, forceOn=None):
""" forceOn can be None to toggle, or True/False to force Visible/Hidden. """
if forceOn is None:
forceOn = not self.d_settings.widgets[1].isVisible()
if forceOn:
for item in self.d_settings.widgets:
if item!=self.toggleSettingsBtn:
item.show()
# self.d_settings.setVisible(True)
self.d_excel.hide()
self.toggleSettingsBtn.setText(" Hide settings ")
self.toggleSettingsBtn.setIcon(QIcon(QPixmap('img/settingsless.png')))
else:
# self.d_settings.setVisible(False)
for item in self.d_settings.widgets:
if item!=self.toggleSettingsBtn:
item.hide()
self.d_excel.show()
self.toggleSettingsBtn.setText(" Advanced settings ")
self.toggleSettingsBtn.setIcon(QIcon(QPixmap('img/settingsmore.png')))
self.repaint()
QApplication.processEvents()
def toggleFreqHigh(self,state):
# state=0 for unchecked, state=2 for checked
for widg in [self.fHigh, self.fHightext, self.fHighvalue]:
widg.setEnabled(state==2)
if state==0:
self.fHigh.setValue(self.fHigh.maximum())
def toggleFreqLow(self, state):
for widg in [self.fLow, self.fLowtext, self.fLowvalue]:
widg.setEnabled(state==2)
if state==0:
self.fLow.setValue(self.fLow.minimum())
def fHighChanged(self, value):
self.fHighvalue.setText(str(int(value)))
self.validateInputs()
def speChanged(self, value):
if self.w_spe1.currentText() == "All species":
self.w_processButton1.setEnabled(False)
self.w_processButton1.setToolTip("Only one species at a time can be reviewed in quick mode")
else:
self.w_processButton1.setEnabled(True)
self.w_processButton1.setToolTip("")
def fLowChanged(self, value):
self.fLowvalue.setText(str(int(value)))
self.validateInputs()
def chunkChanged(self):
self.chunksizeBox.setEnabled(self.chunksizeManual.isChecked())
def validateInputs(self):
""" Checks if review should be allowed based on current settings.
Use similarly to QWizardPage's isComplete, i.e. after any changes in GUI.
"""
ready = True
if self.listFiles.count()==0 or self.dirName=='':
ready = False
self.statusBar().showMessage("Select a directory to review")
elif self.fHigh.value()<self.fLow.value():
ready = False
self.statusBar().showMessage("Bad frequency bands set")
else:
self.statusBar().showMessage("Ready to review")
self.w_processButton.setEnabled(ready)
if self.w_spe1.currentText() == "All species":
self.w_processButton1.setEnabled(False)
else:
self.w_processButton1.setEnabled(True)
def createMenu(self):
""" Create the basic menu.
"""
helpMenu = self.menuBar().addMenu("&Help")
helpMenu.addAction("Help", self.showHelp,"Ctrl+H")
aboutMenu = self.menuBar().addMenu("&About")
aboutMenu.addAction("About", self.showAbout,"Ctrl+A")
quitMenu = self.menuBar().addMenu("&Quit")
quitMenu.addAction("Restart program", self.restart)
quitMenu.addAction("Quit", QApplication.quit, "Ctrl+Q")
def restart(self):
print("Restarting")
QApplication.exit(1)
def showAbout(self):
""" Create the About Message Box. Text is set in SupportClasses_GUI.MessagePopup"""
msg = SupportClasses_GUI.MessagePopup("a", "About", ".")
msg.exec_()
return
def showHelp(self):
""" Show the user manual (a pdf file)"""
webbrowser.open_new(r'file://' + os.path.realpath('./Docs/AviaNZManual.pdf'))
# webbrowser.open_new(r'http://avianz.net/docs/AviaNZManual.pdf')
def center(self):
# geometry of the main window
qr = self.frameGeometry()
# center point of screen
cp = QDesktopWidget().availableGeometry().center()
# move rectangle's center point to screen's center point
qr.moveCenter(cp)
# top left of rectangle becomes top left of window centering it
self.move(qr.topLeft())
def browse(self):
if self.dirName:
self.dirName = QtGui.QFileDialog.getExistingDirectory(self,'Choose Folder to Process',str(self.dirName))
else:
self.dirName = QtGui.QFileDialog.getExistingDirectory(self,'Choose Folder to Process')
self.w_dir.setPlainText(self.dirName)
self.w_dir.setReadOnly(True)
# this will also collect some info about the dir
if self.fillFileList()==1:
self.w_spe1.setEnabled(False)
self.w_processButton.setEnabled(False)
self.w_processButton1.setEnabled(False)
self.w_excelButton.setEnabled(False)
self.statusBar().showMessage("Select a directory to review")
return
else:
self.w_spe1.setEnabled(True)
self.w_excelButton.setEnabled(True)
# this will check if other settings are OK as well
self.validateInputs()
def fillFileList(self,fileName=None):
""" Generates the list of files for the file listbox.
Updates species lists and other properties of the current dir.
fileName - currently opened file (marks it in the list).
"""
if not os.path.isdir(self.dirName):
print("ERROR: directory %s doesn't exist" % self.dirName)
self.listFiles.clear()
return(1)
self.listFiles.fill(self.dirName, fileName, recursive=True, readFmt=True)
# update the "Browse" field text
self.w_dir.setPlainText(self.dirName)
# find species names from the annotations
self.spList = list(self.listFiles.spList)
# Can't review only "Don't Knows". Ideally this should call AllSpecies dialog tho
try:
self.spList.remove("Don't Know")
except Exception:
pass
# self.spList.insert(0, 'Any sound')
self.w_spe1.clear()
self.w_spe1.addItem('All species')
self.w_spe1.addItems(self.spList)
# Also detect samplerates on dir change
minfs = min(self.listFiles.fsList)
self.fHigh.setRange(minfs//32, minfs//2)
self.fLow.setRange(0, minfs//2)
# if the user hasn't selected custom bandpass, reset it to min-max:
# (if the user did select one or more of them, setRange will auto-trim
# it to the allowed range, but not change it otherwise)
if not self.fHighcheck.isChecked():
self.fHigh.setValue(self.fHigh.maximum())
if not self.fLowcheck.isChecked():
self.fLow.setValue(self.fLow.minimum())
def listLoadFile(self,current):
""" Listener for when the user clicks on an item in filelist """
# Need name of file
if type(current) is QListWidgetItem:
current = current.text()
current = re.sub('\/.*', '', current)
self.previousFile = current
# Update the file list to show the right one
i=0
lof = self.listFiles.listOfFiles
while i<len(lof)-1 and lof[i].fileName() != current:
i+=1
if lof[i].isDir() or (i == len(lof)-1 and lof[i].fileName() != current):
dir = QDir(self.dirName)
dir.cd(lof[i].fileName())
# Now repopulate the listbox
self.dirName=str(dir.absolutePath())
self.previousFile = None
self.fillFileList(current)
# Show the selected file
index = self.listFiles.findItems(os.path.basename(current), Qt.MatchExactly)
if len(index) > 0:
self.listFiles.setCurrentItem(index[0])
return(0)
def reviewClickedAll(self):
self.species = self.w_spe1.currentText()
self.review(True)
def reviewClickedSingle(self):
self.species = self.w_spe1.currentText()
if self.species == "All species":
msg = SupportClasses_GUI.MessagePopup("w", "Single species needed", "Can only review a single species with this option")
msg.exec_()
else:
self.review(False)
def review(self,reviewAll):
self.reviewer = self.w_reviewer.text()
print("Reviewer: ", self.reviewer)
if self.reviewer == '':