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v2_release.py
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v2_release.py
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#Main script for running QuantiFly training.
import time
import numpy as np
from PyQt4 import QtGui, QtCore,QtWebKit
import errno
import os
import os.path
import re
import cPickle as pickle
import sys
from scipy.special import _ufuncs_cxx
import sklearn.utils.lgamma
from gnu import return_license
import matplotlib.lines as lines
from matplotlib.backends.backend_qt4agg import FigureCanvasQTAgg as FigureCanvas
from matplotlib.figure import Figure
import v2_functions as v2
"""QuantiFly Software v2.0
Copyright (C) 2015 Dominic Waithe
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 2 of the License, or
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, write to the Free Software Foundation, Inc.,
51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
"""
class fileDialog(QtGui.QMainWindow):
"""The dialog for loading images"""
def __init__(self,parent):
super(fileDialog, self).__init__()
self.parent = parent
self.initUI()
self.parent.config ={}
try:
self.parent.config = pickle.load(open(os.path.expanduser('~')+'/.densitycount/config.p', "rb" ));
self.parent.filepath = self.parent.config['filepath']
except:
self.parent.filepath = os.path.expanduser('~')+'/'
try:
os.makedirs(os.path.expanduser('~')+'/.densitycount/')
except:
'unable to make directory: ',os.path.expanduser('~')+'/.densitycount/'
def initUI(self):
self.textEdit = QtGui.QTextEdit()
self.setCentralWidget(self.textEdit)
self.statusBar()
openFile = QtGui.QAction(QtGui.QIcon('open.png'), 'Open', self)
openFile.setShortcut('Ctrl+O')
openFile.setStatusTip('Open new File')
openFile.triggered.connect(self.showDialog)
menubar = self.menuBar()
fileMenu = menubar.addMenu('&File')
fileMenu.addAction(openFile)
self.setGeometry(300, 300, 350, 500)
self.setWindowTitle('File dialog')
#self.show()
def showDialog(self):
par_obj.file_array =[]
par_obj.feat_arr ={}
par_obj.RF ={}
self.parent.selIntButton.setEnabled(False)
#filepath = QtGui.QFileDialog.getOpenFileName(self, 'Open file', '/home')
for path in QtGui.QFileDialog.getOpenFileNames(self, 'Open file',self.parent.filepath,'Images(*.tif *.tiff *.png);;'):
par_obj.file_array.append(path)
self.parent.config['filepath'] = str(QtCore.QFileInfo(path).absolutePath())+'/'
pickle.dump(self.parent.config, open(str(os.path.expanduser('~')+'/.densitycount/config.p'), "w" ))
self.parent.image_status_text.showMessage('Status: Loading Images. ')
success, updateText = v2.import_data_fn(par_obj, par_obj.file_array)
#loadWin.CH_cbx1.stateChange()
self.parent.image_status_text.showMessage(updateText)
if success == True:
self.parent.updateAfterImport()
class Load_win_fn(QtGui.QWidget):
"""The class for loading and processing images"""
def __init__(self,par_obj,win):
super(Load_win_fn, self).__init__()
#Vertical layout
vbox = QtGui.QVBoxLayout()
self.setLayout(vbox)
hbox0 = QtGui.QHBoxLayout()
vbox.addLayout(hbox0)
#Load images button
self.loadImages_button = QtGui.QPushButton("Load Images", self)
hbox0.addWidget(self.loadImages_button)
hbox0.addStretch()
about_btn = QtGui.QPushButton('About')
about_btn.clicked.connect(self.on_about)
hbox0.addWidget(about_btn)
#Load button.
self.Text_CHopt = QtGui.QLabel()
vbox.addWidget(self.Text_CHopt)
self.ex = fileDialog(self)
self.loadImages_button.clicked.connect(self.ex.showDialog)
#SigmaData input field.
self.feature_scale_input = QtGui.QLineEdit(str(par_obj.feature_scale))
#SigmaData input Text.
self.feature_scaleText = QtGui.QLabel()
hbox1 = QtGui.QHBoxLayout()
vbox.addWidget(self.feature_scaleText)
vbox.addLayout(hbox1)
self.feature_scaleText.resize(40,20)
self.feature_scaleText.setText('Input sigma for feature calculation default (0.8):')
self.feature_scaleText.hide()
hbox1.addWidget(self.feature_scale_input)
hbox1.addStretch()
self.feature_scale_input.resize(10,10)
self.feature_scale_input.textChanged[str].connect(self.feature_scale_change)
self.feature_scale_input.hide()
CH_pX = 0
CH_pY = 50
#Channel dialog generation.
vbox.addWidget(self.Text_CHopt)
self.Text_CHopt.setText('Please select which channels you want to include in the training:')
self.Text_CHopt.resize(500,40)
self.Text_CHopt.hide()
hbox2 = QtGui.QHBoxLayout()
#Object factory for channel selection.
for i in range(0,10):
name = 'self.CH_cbx'+str(i+1)+'_txt = QtGui.QLabel()'
exec(name)
name = 'self.CH_cbx'+str(i+1)+'_txt.setText(\'CH '+str(i+1)+':\')'
exec(name)
name = 'hbox2.addWidget(self.CH_cbx'+str(i+1)+'_txt)'
exec(name)
name = 'self.CH_cbx'+str(i+1)+'_txt.hide()'
exec(name)
name = 'self.CH_cbx'+str(i+1)+'= checkBoxCH()'
exec(name)
name = 'hbox2.addWidget(self.CH_cbx'+str(i+1)+')'
exec(name)
name = 'self.CH_cbx'+str(i+1)+'.hide()'
exec(name)
name = 'self.CH_cbx'+str(i+1)+'.setChecked(True)'
exec(name)
name = 'self.CH_cbx'+str(i+1)+'.type =\'feature_ch\''
exec(name)
hbox2.addStretch()
vbox.addLayout(hbox2)
self.figure1 = Figure(figsize=(2,2))
self.canvas1 = FigureCanvas(self.figure1)
#self.figure1.patch.set_facecolor('white')
self.plt1 = self.figure1.add_subplot(1,1,1)
self.resize(100,100)
self.canvas1.hide()
self.figure1.subplots_adjust(left=0.001, right=0.999, top=0.999, bottom=0.001)
self.plt1.set_xticklabels([])
self.plt1.set_yticklabels([])
hbox3 = QtGui.QHBoxLayout()
vbox.addLayout(hbox3)
hbox3.addWidget(self.canvas1)
hbox3.addStretch()
#Channel dialog generation.
self.Text_FrmOpt2 = QtGui.QLabel()
vbox.addWidget(self.Text_FrmOpt2)
self.Text_FrmOpt2.hide()
#Image frames dialog.
Text_FrmOpt1_panel = QtGui.QHBoxLayout()
self.Text_FrmOpt1 = QtGui.QLabel()
self.Text_FrmOpt1.setText('Please choose the frames you wish to use for training. Use either \',\' to separate individual frames or a \'-\' to indicate a range:')
self.Text_FrmOpt1.hide()
Text_FrmOpt1_panel.addWidget(self.Text_FrmOpt1)
vbox.addLayout(Text_FrmOpt1_panel)
#Image frames input.
linEdit_Frm_panel = QtGui.QHBoxLayout()
self.linEdit_Frm = QtGui.QLineEdit()
self.linEdit_Frm.hide()
linEdit_Frm_panel.addWidget(self.linEdit_Frm)
linEdit_Frm_panel.addStretch()
vbox.addLayout(linEdit_Frm_panel)
#Feature calculation to perform:
self.Text_Radio = QtGui.QLabel()
vbox.addWidget(self.Text_Radio)
self.Text_Radio.setText('Feature select which kind of feature detection you would like to use:')
self.Text_Radio.resize(500,40)
self.Text_Radio.hide()
self.radio_group=QtGui.QButtonGroup(self) # Number
self.r0 = QtGui.QRadioButton("Basic",self)
self.r1 = QtGui.QRadioButton("Fine",self)
self.r1.setChecked(True)
self.radio_group.addButton(self.r0)
self.radio_group.addButton(self.r1)
vbox.addWidget(self.r0)
vbox.addWidget(self.r1)
self.r0.hide()
self.r1.hide()
vbox.addStretch()
#Green status text.
#Load images button
hbox1 = QtGui.QHBoxLayout()
vbox.addLayout(hbox1)
self.confirmImages_button = QtGui.QPushButton("Confirm Images")
hbox1.addWidget(self.confirmImages_button)
self.confirmImages_button.clicked.connect(self.processImgs)
self.confirmImages_button.setEnabled(False)
#Move to training button.
self.selIntButton = QtGui.QPushButton("Goto Training")
hbox1.addWidget(self.selIntButton)
self.selIntButton.clicked.connect(win.loadTrainFn)
self.selIntButton.setEnabled(False)
self.image_status_text = QtGui.QStatusBar()
self.image_status_text.setStyleSheet("QLabel { color : green }")
self.image_status_text.showMessage('Status: Highlight training images in folder. ')
vbox.addWidget(self.image_status_text)
hbox1.addStretch()
#File browsing functions
layout = QtGui.QVBoxLayout()
def on_about(self):
self.about_win = QtGui.QWidget()
self.about_win.setWindowTitle('About QuantiFly Software v2.0')
license = return_license()
#with open (sys.path[0]+'/GNU GENERAL PUBLIC LICENSE.txt', "r") as myfile:
# data=myfile.read().replace('\n', ' ')
# license.append(data)
# And give it a layout
layout = QtGui.QVBoxLayout()
self.view = QtWebKit.QWebView()
self.view.setHtml('''
<html>
<body>
<form>
<h1 >About</h1>
<p>Software written by Dominic Waithe (c) 2015</p>
'''+str(license)+'''
</form>
</body>
</html>
''')
layout.addWidget(self.view)
self.about_win.setLayout(layout)
self.about_win.show()
self.about_win.raise_()
def feature_scale_change(self,text):
"""Updates on change of feature scale"""
par_obj.feature_scale = float(text)
def updateAfterImport(self):
"""Specific to ui updates"""
if par_obj.file_ext == 'tif' or par_obj.file_ext == 'tiff':
if par_obj.tiff_file.maxFrames >1:
self.linEdit_Frm.setText('1-'+str(par_obj.uploadLimit))
self.Text_FrmOpt2.setText('There are '+str(par_obj.tiff_file.maxFrames+1)+' frames in total.')
self.Text_FrmOpt1.show()
self.Text_FrmOpt2.show()
self.linEdit_Frm.show()
self.confirmImages_button.setEnabled(True)
self.plt1.cla()
self.plt1.imshow(255-par_obj.ex_img)
self.plt1.set_xticklabels([])
self.plt1.set_yticklabels([])
self.canvas1.show()
self.canvas1.draw()
par_obj.ch_active =[];
if par_obj.numCH> 2:
self.Text_CHopt.show()
for i in range(0,par_obj.numCH):
name = 'self.CH_cbx'+str(i+1)+'.show()'
exec(name)
name = 'self.CH_cbx'+str(i+1)+'_txt.show()'
exec(name)
par_obj.ch_active.append(i)
else:
par_obj.ch_active.append(0)
self.feature_scale_input.show()
self.feature_scaleText.show()
self.r0.show()
self.r1.show()
self.Text_Radio.show()
def hyphen_range(self,s):
""" yield each integer from a complex range string like "1-9,12, 15-20,23"
>>> list(hyphen_range('1-9,12, 15-20,23'))
[1, 2, 3, 4, 5, 6, 7, 8, 9, 12, 15, 16, 17, 18, 19, 20, 23]
>>> list(hyphen_range('1-9,12, 15-20,2-3-4'))
Traceback (most recent call last):
...
ValueError: format error in 2-3-4
"""
for x in s.split(','):
elem = x.split('-')
if len(elem) == 1: # a number
yield int(elem[0])
elif len(elem) == 2: # a range inclusive
start, end = map(int, elem)
for i in xrange(start, end+1):
yield i
else: # more than one hyphen
raise ValueError('format error in %s' % x)
def processImgs(self):
"""Loads images and calculates the features."""
#Resets everything should this be another patch of images loaded.
imgs =[]
gt_im_sing_chgs =[]
fmStr = self.linEdit_Frm.text()
par_obj.feat_arr ={}
par_obj.pred_arr ={}
par_obj.sum_pred ={}
par_obj.frames_2_load ={}
par_obj.left_2_calc =[]
par_obj.saved_ROI =[]
par_obj.saved_dots=[]
par_obj.curr_img = 0
par_obj.eval_load_im_win_eval = False
if self.r0.isChecked():
par_obj.feature_type = 'basic'
if self.r1.isChecked():
par_obj.feature_type = 'fine'
#Now we commit our options to our imported files.
if par_obj.file_ext == 'png':
for i in range(0,par_obj.file_array.__len__()):
par_obj.left_2_calc.append(i)
par_obj.frames_2_load[i] = [0]
self.image_status_text.showMessage('Status: Loading Images. Loading Image Num: '+str(par_obj.file_array.__len__()))
v2.im_pred_inline_fn(par_obj, self)
elif par_obj.file_ext =='tiff' or par_obj.file_ext =='tif':
if par_obj.tiff_file.maxFrames>1:
for i in range(0,par_obj.file_array.__len__()):
par_obj.left_2_calc.append(i)
try:
np.array(list(self.hyphen_range(fmStr)))-1
par_obj.frames_2_load[i] = np.array(list(self.hyphen_range(fmStr)))-1
except:
self.image_status_text.showMessage('Status: The supplied range of image frames is in the wrong format. Please correct and click confirm images.')
return
self.image_status_text.showMessage('Status: Loading Images.')
v2.im_pred_inline_fn(par_obj, self)
else:
for i in range(0,par_obj.file_array.__len__()):
par_obj.left_2_calc.append(i)
par_obj.frames_2_load[i] = [0]
v2.im_pred_inline_fn(par_obj, self)
count = 0
for b in par_obj.left_2_calc:
frames =par_obj.frames_2_load[b]
for i in frames:
count = count+1
par_obj.test_im_start= 0
par_obj.test_im_end= count
for i in par_obj.left_2_calc:
im_array = np.zeros((par_obj.height,par_obj.width))
par_obj.dense_array[i]=im_array
self.image_status_text.showMessage('Status: Images loaded. Click \'Goto Training\'')
self.selIntButton.setEnabled(True)
par_obj.imgs = imgs
def report_progress(self,message):
self.image_status_text.showMessage('Status: '+message)
app.processEvents()
class Win_fn(QtGui.QWidget):
"""Class which houses main training functionality"""
def __init__(self,par_obj):
super(Win_fn, self).__init__()
#Sets up the figures for displaying images.
self.figure1 = Figure(figsize=(8, 8), dpi=100)
self.canvas1 = FigureCanvas(self.figure1)
self.figure1.patch.set_facecolor('grey')
self.plt1 = self.figure1.add_subplot(1, 1, 1)
im_RGB = np.zeros((512, 512))
#Makes sure it spans the whole figure.
self.figure1.subplots_adjust(left=0.001, right=0.999, top=0.999, bottom=0.001)
self.plt1.imshow(255-im_RGB)
#Removes the tick labels
self.plt1.set_xticklabels([])
self.plt1.set_yticklabels([])
#Initialises the second figure.
self.figure2 = Figure(figsize=(8, 8), dpi=100)
self.canvas2 = FigureCanvas(self.figure2)
self.figure2.patch.set_facecolor('grey')
self.plt2 = self.figure2.add_subplot(1, 1, 1)
#Makes sure it spans the whole figure.
self.figure2.subplots_adjust(left=0.001, right=0.999, top=0.999, bottom=0.001)
self.plt2.imshow(255-im_RGB)
self.plt2.set_xticklabels([])
self.plt2.set_yticklabels([])
#The ui for training
self.count_txt = QtGui.QLabel()
self.image_num_txt = QtGui.QLabel()
box = QtGui.QVBoxLayout()
self.setLayout(box)
#Widget containing the top panel.
top_panel = QtGui.QHBoxLayout()
#Top left and right widget panels
top_left_panel = QtGui.QGroupBox('Basic Controls')
top_right_panel = QtGui.QGroupBox('Advanced Controls')
#Grid layouts for the top and left panels.
self.top_left_grid = QtGui.QGridLayout()
self.top_right_grid = QtGui.QGridLayout()
self.top_left_grid.setSpacing(2)
self.top_right_grid.setSpacing(2)
#Widgets for the top panel.
top_panel.addWidget(top_left_panel)
top_panel.addWidget(top_right_panel)
top_panel.addStretch()
#Set the layout of the panels to be the grids.
top_left_panel.setLayout(self.top_left_grid)
top_right_panel.setLayout(self.top_right_grid)
#Sets up the button which changes to the prev image
self.prev_im_btn = QtGui.QPushButton('Prev Image')
self.prev_im_btn.setEnabled(True)
#Sets up the button which changes to the next Image.
self.next_im_btn = QtGui.QPushButton('Next Image')
self.next_im_btn.setEnabled(True)
#Sets the current text.
self.image_num_txt.setText('The Current Image is: ' + str(par_obj.curr_img +1))
self.count_txt = QtGui.QLabel()
#Sets up the button which saves the ROI.
self.save_ROI_btn = QtGui.QPushButton('Save ROI')
self.save_ROI_btn.setEnabled(True)
#Sets up the button which saves the ROI.
self.save_dots_btn = QtGui.QPushButton('Save Dots')
self.save_dots_btn.setEnabled(False)
#Button for training model
self.train_model_btn = QtGui.QPushButton('Train Model')
self.train_model_btn.setEnabled(False)
#Selects and reactivates an existing ROI.
self.sel_ROI_btn = QtGui.QPushButton('Select ROI')
self.sel_ROI_btn.setEnabled(True)
self.select_ROI= False
#Allows deletion of dots.
self.remove_dots_btn = QtGui.QPushButton('Remove Dots')
self.remove_dots_btn.setEnabled(False)
self.remove_dots = False
#Populates the grid with the different widgets.
self.top_left_grid.addWidget(self.prev_im_btn, 0, 0)
self.top_left_grid.addWidget(self.next_im_btn, 0, 1)
self.top_left_grid.addWidget(self.image_num_txt, 2, 0, 2, 3)
self.top_left_grid.addWidget(self.save_ROI_btn, 4, 0)
self.top_left_grid.addWidget(self.save_dots_btn, 4, 1)
self.top_left_grid.addWidget(self.train_model_btn, 4, 2)
self.top_left_grid.addWidget(self.sel_ROI_btn, 5, 0)
self.top_left_grid.addWidget(self.remove_dots_btn, 5, 1)
#SigmaData input Label.
self.sigma_data_text = QtGui.QLabel(self)
self.sigma_data_text.setText('Input Sigma for Kernel Size:')
self.top_right_grid.addWidget(self.sigma_data_text, 0, 0)
#SigmaData input field.
self.sigma_data_input = QtGui.QLineEdit(str(par_obj.sigma_data))
self.sigma_data_input.onChanged = self.sigmaOnChange
self.sigma_data_input.setFixedWidth(40)
self.sigma_data_input.textChanged[str].connect(self.sigmaOnChange)
self.top_right_grid.addWidget(self.sigma_data_input, 0, 1)
#Feature scale input Label.
#self.sigma_data_text = QtGui.QLabel()
#self.sigma_data_text.setText('Scale of Feature Descriptor:')
#self.top_right_grid.addWidget(self.sigma_data_text, 1, 0)
#Feature scale input field
#self.feature_scale_input = QtGui.QLineEdit(str(par_obj.feature_scale))
#self.feature_scale_input.onChanged = self.feature_scale_change
#self.feature_scale_input.resize(40, 20)
#self.feature_scale_input.textChanged[str].connect(self.feature_scale_change)
#self.feature_scale_input.setFixedWidth(40)
#self.top_right_grid.addWidget(self.feature_scale_input, 1, 1)
#Feature scale input btn.
#self.feat_scale_change_btn = QtGui.QPushButton('Recalculate Features')
#self.feat_scale_change_btn.setEnabled(True)
#self.top_right_grid.addWidget(self.feat_scale_change_btn, 1, 2)
#Saves the model
self.save_model_btn = QtGui.QPushButton('Save Training Model')
self.save_model_btn.setEnabled(False)
self.top_right_grid.addWidget(self.save_model_btn, 1, 0)
#Saves the extremel random decision tree model
self.save_model_name_txt = QtGui.QLineEdit('Insert Model Name')
self.top_right_grid.addWidget(self.save_model_name_txt, 1, 1)
self.output_count_txt = QtGui.QLabel()
self.top_right_grid.addWidget(self.output_count_txt, 3,0,1,4)
#Saves the extremely random decision tree model.
self.save_model_desc_txt = QtGui.QLineEdit('Insert Model Description')
self.save_model_desc_txt.setFixedWidth(200)
self.top_right_grid.addWidget(self.save_model_desc_txt, 2, 0, 1, 4)
self.clear_dots_btn = QtGui.QPushButton('Clear All ROI')
self.top_right_grid.addWidget(self.clear_dots_btn, 1, 2)
#Shows the kernel label distributions
self.kernel_show_btn = QtGui.QPushButton('Show Kernel')
self.clear_dots_btn.setEnabled(False)
self.top_right_grid.addWidget(self.kernel_show_btn, 2, 2)
self.top_right_grid.setRowStretch(4,2)
#Sets up the image panel splitter.
image_panel = QtGui.QSplitter(QtCore.Qt.Horizontal)
image_panel.addWidget(self.canvas1)
image_panel.addWidget(self.canvas2)
#Sets up mouse settings on the image
self.canvas1.mpl_connect('axes_enter_event', self.on_enter)
self.canvas1.mpl_connect('axes_leave_event', self.on_leave)
self.bpe =self.canvas1.mpl_connect('button_press_event', self.on_click)
self.bre =self.canvas1.mpl_connect('button_release_event', self.on_unclick)
self.ome =self.canvas1.mpl_connect('motion_notify_event', self.on_motion)
#Splitter which separates the controls at the top and the images below.
splitter = QtGui.QSplitter(QtCore.Qt.Vertical)
hbox1 = QtGui.QWidget()
hbox1.setLayout(top_panel)
splitter.addWidget(hbox1)
splitter.addWidget(image_panel)
box.addWidget(splitter)
#Status bar which is located beneath images.
self.image_status_text = QtGui.QStatusBar()
box.addWidget(self.image_status_text)
self.image_status_text.showMessage('Status: Please Select a Region and Click \'Save ROI\'. ')
#Connects the buttons.
self.save_ROI_btn.clicked.connect(self.save_roi_fn)
self.save_dots_btn.clicked.connect(self.save_dots_fn)
self.prev_im_btn.clicked.connect(self.prev_im_btn_fn)
self.next_im_btn.clicked.connect(self.next_im_btn_fn)
self.sel_ROI_btn.clicked.connect(self.sel_ROI_btn_fn)
self.remove_dots_btn.clicked.connect(self.remove_dots_btn_fn)
self.train_model_btn.clicked.connect(self.train_model_btn_fn)
#self.feat_scale_change_btn.clicked.connect(self.feat_scale_change_btn_fn)
self.kernel_show_btn.clicked.connect(self.kernel_btn_fn)
self.clear_dots_btn.clicked.connect(self.clear_dots_fn)
self.save_model_btn.clicked.connect(self.saveForestFn)
#Initialises the variables for the beginning of the counting.
par_obj.first_time = True
par_obj.dots = []
par_obj.rects = np.zeros((1,4))
par_obj.var =[]
par_obj.saved_dots =[]
par_obj.saved_ROI =[]
par_obj.subdivide_ROI=[]
self.m_Cursor = self.makeCursor()
def report_progress(self,message):
self.image_status_text.showMessage('Status: '+message)
app.processEvents()
def keyPressEvent(self, ev):
"""When the . and , keys are pressed"""
if ev.key() == QtCore.Qt.Key_Period:
self.next_im_btn_fn()
if ev.key() == QtCore.Qt.Key_Comma:
self.prev_im_btn_fn()
def wheelEvent(self, event):
"""When the mousewheel is rotated"""
if event.delta() > 0:
self.next_im_btn_fn()
if event.delta() < 0:
self.prev_im_btn_fn()
def loadTrainFn(self):
#Win_fn()
channel_wid = QtGui.QWidget()
channel_lay = QtGui.QHBoxLayout()
for b in range(0,par_obj.numCH):
name = 'self.CH_cbx'+str(b)+'= checkBoxCH()'
exec(name)
name = 'self.CH_cbx'+str(b)+'.setText(\'CH '+str(b+1)+'\')'
exec(name)
name = 'self.CH_cbx'+str(b)+'.setChecked(True)'
exec(name)
name = 'self.CH_cbx'+str(b)+'.type=\'visual_ch\''
exec(name)
name = 'self.CH_cbx'+str(b)+'.id='+str(b)
exec(name)
name = 'channel_lay.addWidget(self.CH_cbx'+str(b)+')';
exec(name)
channel_lay.addStretch()
channel_wid.setLayout(channel_lay)
win.top_left_grid.addWidget(channel_wid,1,0,1,3)
win_tab.setCurrentWidget(win)
app.processEvents()
self.checkChange()
def on_click(self,event):
"""When the image is clicked"""
par_obj.mouse_down = True
#When the draw ROI functionality is enabled:
if(par_obj.draw_ROI == True):
self.x1 = event.xdata
self.y1 = event.ydata
par_obj.ori_x = event.xdata
par_obj.ori_y = event.ydata
def on_motion(self,event):
"""When the mouse is being dragged"""
#When the draw ROI functionality is enabled:
if(par_obj.draw_ROI == True and par_obj.mouse_down == True):
#Finds current cursor position
par_obj.ori_x_2 = event.xdata
par_obj.ori_y_2 = event.ydata
try:
self.plt1.lines.remove(self.l1[0])
self.plt1.lines.remove(self.l2[0])
self.plt1.lines.remove(self.l3[0])
self.plt1.lines.remove(self.l4[0])
except:
pass
self.plt1.autoscale(False)
self.l1 = self.plt1.plot([self.x1, event.xdata], [self.y1, self.y1], '-' ,color='r')
self.l2 = self.plt1.plot([event.xdata, event.xdata], [self.y1, event.ydata], '-' ,color='r')
self.l3 = self.plt1.plot([event.xdata, self.x1], [ event.ydata, event.ydata], '-' ,color='r')
self.l4 = self.plt1.plot([self.x1, self.x1], [ event.ydata, self.y1], '-' ,color='r')
#self.plt1.Line2D([event.xdata, event.xdata], [self.y1, event.ydata], transform=self.plt1.transData, figure=self.plt1,color='r')
#self.plt1.Line2D([event.xdata, self.x1], [ event.ydata, event.ydata], transform=self.plt1.transData, figure=self.plt1,color='r')
#self.plt1.Line2D([self.x1, self.x1], [ event.ydata, self.y1], transform=self.plt1.transData, figure=self.plt1,color='r')
self.canvas1.draw()
def on_unclick(self, event):
"""When the mouse is released"""
par_obj.mouse_down = False
#If we are in the roi drawing phase
if(par_obj.draw_ROI == True):
t2 = time.time()
x = event.xdata
y = event.ydata
par_obj.rect_w = x - par_obj.ori_x
par_obj.rect_h = y - par_obj.ori_y
#Corrects the corrdinates if out of rectangle.
if(x < 0): x=0
if(y < 0): y=0
if(x > par_obj.width): x=par_obj.width-1
if(y > par_obj.height): y=par_obj.height-1
t1 = time.time()
print t1-t2
#If we are in the dot drawing phase
if(par_obj.draw_dots == True):
x = int(np.round(event.xdata,0))
y = int(np.round(event.ydata,0))
#Are we with an existing box.
if(x > par_obj.rects[1]-par_obj.roi_tolerance and x < (par_obj.rects[1]+ par_obj.rects[3])+par_obj.roi_tolerance and y > par_obj.rects[2]-par_obj.roi_tolerance and y < (par_obj.rects[2]+ par_obj.rects[4])+par_obj.roi_tolerance):
appendDot = True
#Appends dots to array if in an empty pixel.
if(par_obj.dots.__len__()>0):
for i in range(0,par_obj.dots.__len__()):
if (x == par_obj.dots[i][1] and y == par_obj.dots[i][2]):
appendDot = False
if(appendDot == True):
par_obj.dots.append((par_obj.curr_img,x,y))
i = par_obj.dots[-1]
self.plt1.autoscale(False)
self.plt1.plot([i[1]-5,i[1]+5],[i[2],i[2]],'-',color='r')
self.plt1.plot([i[1],i[1]],[i[2]-5,i[2]+5],'-',color='r')
self.canvas1.draw()
if(par_obj.remove_dots == True):
#par_obj.pixMap = QtGui.QPixmap(q2r.rgb2qimage(par_obj.imgs[par_obj.curr_img]))
x = event.xdata
y = event.ydata
self.draw_saved_dots_and_roi()
#Are we with an existing box.
if(x > par_obj.rects[1]-par_obj.roi_tolerance and x < (par_obj.rects[1]+ par_obj.rects[3])+par_obj.roi_tolerance and y > par_obj.rects[2]-par_obj.roi_tolerance and y < (par_obj.rects[2]+ par_obj.rects[4])+par_obj.roi_tolerance):
#Appends dots to array if in an empty pixel.
if(par_obj.dots.__len__()>0):
for i in range(0,par_obj.dots.__len__()):
if ((abs(x -par_obj.dots[i][1])<3 and abs(y - par_obj.dots[i][2])<3)):
par_obj.dots.pop(i)
par_obj.saved_dots.append(par_obj.dots)
par_obj.saved_ROI.append(par_obj.rects)
self.update_density_fn()
par_obj.dots = par_obj.saved_dots[par_obj.ROI_index[par_obj.roi_select]]
par_obj.rects = par_obj.saved_ROI[par_obj.ROI_index[par_obj.roi_select]]
par_obj.saved_dots.pop(par_obj.ROI_index[par_obj.roi_select])
par_obj.saved_ROI.pop(par_obj.ROI_index[par_obj.roi_select])
break
for i in range(0,self.plt1.lines.__len__()):
self.plt1.lines.pop(0)
self.dots_and_square(par_obj.dots,par_obj.rects,'y')
print 'here1'
self.canvas1.draw()
print 'here2'
if(par_obj.select_ROI== True):
x = event.xdata
y = event.ydata
for b in range(0,par_obj.ROI_index.__len__()):
dots = par_obj.saved_dots[par_obj.ROI_index[b]]
rects = par_obj.saved_ROI[par_obj.ROI_index[b]]
if(x > rects[1] and x < (rects[1]+ rects[3]) and y > rects[2] and y < (rects[2]+ rects[4])):
par_obj.roi_select = b
par_obj.dots = par_obj.saved_dots[par_obj.ROI_index[par_obj.roi_select]]
par_obj.rects = par_obj.saved_ROI[par_obj.ROI_index[par_obj.roi_select]]
par_obj.saved_dots.pop(par_obj.ROI_index[par_obj.roi_select])
par_obj.saved_ROI.pop(par_obj.ROI_index[par_obj.roi_select])
for i in range(0,self.plt1.lines.__len__()):
self.plt1.lines.pop(0)
self.draw_saved_dots_and_roi()
self.dots_and_square(dots,rects,'y')
self.canvas1.draw()
self.sel_ROI_btn.setEnabled(False)
self.save_dots_btn.setEnabled(True)
self.remove_dots_btn.setEnabled(True)
par_obj.select_ROI= False
par_obj.draw_ROI = False
par_obj.draw_dots = True
def dots_and_square(self, dots,rects,colour):
#self.l5 = lines.Line2D([rects[1], rects[1]+rects[3]], [rects[2],rects[2]], transform=self.plt1.transData, figure=self.plt1,color=colour)
#self.l6 = lines.Line2D([rects[1]+rects[3], rects[1]+rects[3]], [rects[2],rects[2]+rects[4]], transform=self.plt1.transData, figure=self.plt1,color=colour)
#self.l7 = lines.Line2D([rects[1]+rects[3], rects[1]], [rects[2]+rects[4],rects[2]+rects[4]], transform=self.plt1.transData, figure=self.plt1,color=colour)
#self.l8 = lines.Line2D([rects[1], rects[1]], [rects[2]+rects[4],rects[2]], transform=self.plt1.transData, figure=self.plt1,color=colour)
#self.plt1.lines.extend([self.l5,self.l6,self.l7,self.l8])
self.plt1.autoscale(False)
self.plt1.plot([rects[1], rects[1]+rects[3]], [rects[2],rects[2]], '-',color=colour)
self.plt1.plot([rects[1]+rects[3], rects[1]+rects[3]], [rects[2],rects[2]+rects[4]], '-',color=colour)
self.plt1.plot([rects[1]+rects[3], rects[1]], [rects[2]+rects[4],rects[2]+rects[4]], '-',color=colour)
self.plt1.plot([rects[1], rects[1]], [rects[2]+rects[4],rects[2]], '-',color=colour)
#Draws dots in list
for i in iter(dots):
self.plt1.plot([i[1]-5,i[1]+5],[i[2],i[2]],'-',color=colour)
self.plt1.plot([i[1],i[1]],[i[2]-5,i[2]+5],'-',color=colour)
return
def makeCursor(self):
m_LPixmap = QtGui.QPixmap(28, 28)
bck = QtGui.QColor(168, 34, 3)
bck.setAlpha(0)
m_LPixmap.fill(bck)
qp = QtGui.QPainter(m_LPixmap)
qp.setPen(QtGui.QColor(0, 255, 0,200))
qp.drawLine(14,0,14,28)
qp.drawLine(0,14,28,14)
qp.setOpacity(1.0)
m_Cursor = QtGui.QCursor(m_LPixmap)
qp.setOpacity(0.0)
qp.end()
return m_Cursor
def on_enter(self,ev):
#Changes cursor to the special crosshair on entering image pane.
QtGui.QApplication.setOverrideCursor(self.m_Cursor)
def on_leave(self,ev):
QtGui.QApplication.restoreOverrideCursor()
def save_roi_fn(self):
#If there is no width or height either no roi is selected or it is too thin.
success = v2.save_roi_fn(par_obj)
if success == True:
print ('Saved ROI')
win.image_status_text.showMessage('Status: Select instances in region then click \'save Dots\' ')
par_obj.draw_ROI = False
par_obj.draw_dots = True
win.save_ROI_btn.setEnabled(False)
win.save_dots_btn.setEnabled(True)
win.remove_dots_btn.setEnabled(True)
win.sel_ROI_btn.setEnabled(False)
par_obj.remove_dots = False
def deleteDotsFn(self,sel_ROI_btn_fn):
print('Dot deleted')
par_obj.saved_dots.append(par_obj.dots)
par_obj.saved_ROI.append(par_obj.rects)
par_obj.dots = par_obj.saved_dots[par_obj.ROI_index[par_obj.roi_select]]
par_obj.rects = par_obj.saved_ROI[par_obj.ROI_index[par_obj.roi_select]]
par_obj.saved_dots.pop(par_obj.ROI_index[par_obj.roi_select])
par_obj.saved_ROI.pop(par_obj.ROI_index[par_obj.roi_select])
#Creates the qpainter object
#Now we update a density image of the current Image.
self.update_density_fn()
def save_dots_fn(self):
print('Saved Dots')
win.image_status_text.showMessage('Status: Highlight new ROI or train. ')
win.train_model_btn.setEnabled(True)
par_obj.saved_dots.append(par_obj.dots)
par_obj.saved_ROI.append(par_obj.rects)
self.draw_saved_dots_and_roi()
self.save_ROI_btn.setEnabled(True)
self.save_dots_btn.setEnabled(False)
self.remove_dots_btn.setEnabled(False)
self.sel_ROI_btn.setEnabled(True)
self.clear_dots_btn.setEnabled(True)
par_obj.draw_ROI = True
par_obj.draw_dots = False
par_obj.remove_dots = False
par_obj.dots_past = par_obj.dots
par_obj.dots = []
par_obj.rects = np.zeros((1,4))
par_obj.ori_x=0
par_obj.ori_y=0
par_obj.rect_w=0
par_obj.rect_h =0
self.goto_img_fn(par_obj.curr_img)
#Now we update a density image of the current Image.
self.update_density_fn()
def update_density_fn(self):
#Construct empty array for current image.
par_obj.im_for_train = [par_obj.curr_img]
v2.update_density_fn(par_obj)
self.plt2.cla()
self.plt2.imshow(par_obj.dense_array[par_obj.curr_img])
self.plt2.set_xticklabels([])
self.plt2.set_yticklabels([])
self.canvas2.draw()
def draw_saved_dots_and_roi(self):
for i in range(0,par_obj.subdivide_ROI.__len__()):
if(par_obj.subdivide_ROI[i][0] ==par_obj.curr_img):
rects =par_obj.subdivide_ROI[i]
dots = []
self.dots_and_square(dots,rects,'w')
for i in range(0,par_obj.saved_dots.__len__()):
if(par_obj.saved_ROI[i][0] == par_obj.curr_img):
dots = par_obj.saved_dots[i]
rects = par_obj.saved_ROI[i]
self.dots_and_square(dots,rects,'w')
def prev_im_btn_fn(self):
im_num = par_obj.curr_img - 1
if im_num >-1:
par_obj.curr_img = im_num
self.goto_img_fn(im_num)
def next_im_btn_fn(self):
im_num = par_obj.curr_img + 1
if im_num <par_obj.test_im_end:
par_obj.curr_img = im_num
self.goto_img_fn(im_num)
def goto_img_fn(self,im_num):
#Goto and evaluate image function.
v2.eval_goto_img_fn(im_num,par_obj,self)
self.draw_saved_dots_and_roi()
par_obj.dots = []
par_obj.rects = np.zeros((1,4))
par_obj.select_ROI= False
par_obj.draw_ROI = True
par_obj.draw_dots = False
par_obj.remove_dots = False
self.save_ROI_btn.setEnabled(True)
self.save_dots_btn.setEnabled(False)
self.remove_dots_btn.setEnabled(False)
self.sel_ROI_btn.setEnabled(True)
par_obj.ROI_index=[]
def sel_ROI_btn_fn(self):
par_obj.ROI_index =[]
if(par_obj.select_ROI== False):
self.save_ROI_btn.setEnabled(False)
par_obj.select_ROI= True
par_obj.draw_ROI = False
par_obj.draw_dots = False
par_obj.remove_dots = False
for i in range(0,par_obj.saved_ROI.__len__()):
if(par_obj.saved_ROI[i][0] == par_obj.curr_img):
par_obj.ROI_index.append(i)
for b in range(0,par_obj.ROI_index.__len__()):
dots = par_obj.saved_dots[par_obj.ROI_index[b]]
rects = par_obj.saved_ROI[par_obj.ROI_index[b]]
self.dots_and_square(dots,rects,'y')