489 lines
21 KiB
Python
489 lines
21 KiB
Python
# Copyright (c) 2019 Esben Rossel
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# All rights reserved.
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#
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# Author: Esben Rossel <esbenrossel@gmail.com>
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#
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# Redistribution and use in source and binary forms, with or without
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# modification, are permitted provided that the following conditions
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# are met:
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# 1. Redistributions of source code must retain the above copyright
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# notice, this list of conditions and the following disclaimer.
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# 2. Redistributions in binary form must reproduce the above copyright
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# notice, this list of conditions and the following disclaimer in the
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# documentation and/or other materials provided with the distribution.
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#
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# THIS SOFTWARE IS PROVIDED BY THE AUTHOR AND CONTRIBUTORS ``AS IS'' AND
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# ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
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# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
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# ARE DISCLAIMED. IN NO EVENT SHALL AUTHOR OR CONTRIBUTORS BE LIABLE
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# FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
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# DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS
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# OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
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# HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
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# LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
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# OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF
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# SUCH DAMAGE.
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#python imports
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import tkinter as tk
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from tkinter import ttk
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import numpy as np
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import serial
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#application imports
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import config
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from CCDhelp import *
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import CCDserial
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import CCDfiles
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#jfs
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from JFSphoto import *
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class buildpanel(tk.Frame):
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def __init__(self, master, CCDplot, SerQueue,JFSphoto):
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#geometry-rows for packing the grid
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device_row = 10
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shicg_row = 20
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continuous_row = 30
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avg_row = 40
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collect_row = 50
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plotmode_row = 60 #60
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save_row = 70 #70
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update_row = 80 #80
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progress_var = tk.IntVar()
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tk.Frame.__init__(self, master=None)
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#Create all widgets and space between them
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self.devicefields(device_row)
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#insert vertical space
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self.grid_rowconfigure(device_row+3, minsize=20) #30
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self.CCDparamfields(shicg_row)
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#insert vertical space
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self.grid_rowconfigure(shicg_row+4, minsize=20) #30
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self.collectmodefields(continuous_row)
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self.avgfields(avg_row)
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#insert vertical space
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self.grid_rowconfigure(avg_row+2, minsize=10) #30
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self.collectfields(collect_row, SerQueue, progress_var)
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#vertical space
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self.grid_rowconfigure(collect_row+2, minsize=10) #30
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self.plotmodefields(plotmode_row, CCDplot)
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self.saveopenfields(save_row, CCDplot)
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self.updateplotfields(update_row, CCDplot)
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#
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self.jf = JFSphoto
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self.jfsAddOns(CCDplot)
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def devicefields(self, device_row):
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#device setup - variables, widgets and traces associated with the device entrybox
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#variables
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self.device_address = tk.StringVar()
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self.device_status = tk.StringVar()
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self.device_statuscolor = tk.StringVar()
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#widgets
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self.ldevice = tk.Label(self, text="COM-device:")
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self.ldevice.grid(column=0, row=device_row)
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self.edevice = tk.Entry(self, textvariable=self.device_address, justify='left')
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self.edevice.grid(column=1, row=device_row)
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self.ldevicestatus = tk.Label(self, textvariable=self.device_status, fg="green")
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#setup trace to check if the device exists
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self.device_address.trace("w", lambda name, index, mode, Device=self.device_address, status=self.device_status, colr=self.ldevicestatus: self.DEVcallback(name, index, mode, Device, status, colr))
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self.device_address.set(config.port)
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self.ldevicestatus.grid(columnspan=2, row=device_row+1)
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#help button
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self.bhdev = tk.Button(self, text="?", command=lambda helpfor=0: helpme(helpfor))
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self.bhdev.grid(row=device_row, column=3)
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def CCDparamfields(self, shicg_row):
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#CCD parameters - variables, widgets and traces associated with setting ICG and SH for the CCD
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self.SHvalue = tk.StringVar()
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self.SHvalue.set("200")
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self.ICGvalue = tk.StringVar()
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self.ICGvalue.set("100000")
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self.tint = tk.StringVar()
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self.tint.set("Integration time is 0.1 ms")
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self.ICGSHstatus = tk.StringVar()
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self.ICGSHstatus.set("Correct CCD pulse timing.")
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self.ICGSHstatuscolor = tk.StringVar()
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#pulse timing tip
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self.ltipSHICG = tk.Label(self, text="ICG = n·SH")
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self.ltipSHICG.grid(columnspan=2, row=shicg_row-1)
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#setup SH-entry
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self.lSH = tk.Label(self, text="SH-period:")
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self.lSH.grid(column=0, row=shicg_row)
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self.eSH = tk.Entry(self, textvariable=self.SHvalue, justify='right')
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self.eSH.grid(column=1, row=shicg_row)
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#setup ICG-entry
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self.lICG = tk.Label(self, text="ICG-period:")
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self.lICG.grid(column=0, row=shicg_row+1)
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self.eICG = tk.Entry(self, textvariable=self.ICGvalue, justify='right')
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self.eICG.grid(column=1, row=shicg_row+1)
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#setup ICGSH-status label
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self.lICGSH = tk.Label(self, textvariable=self.ICGSHstatus, fg="green")
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self.lICGSH.grid(columnspan=2, row=shicg_row+2)
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#integration time label
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self.ltint = tk.Label(self, textvariable=self.tint)
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self.ltint.grid(columnspan=2, row=shicg_row+3)
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#help button
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self.bhtiming = tk.Button(self, text="?", command=lambda helpfor=1: helpme(helpfor))
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self.bhtiming.grid(row=shicg_row, rowspan=2, column=3)
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#setup traces to update tx-data
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self.SHvalue.trace("w", lambda name, index, mode, status=self.ICGSHstatus, tint=self.tint, colr=self.lICGSH, SH=self.SHvalue, ICG=self.ICGvalue: self.ICGSHcallback(name, index, mode, status, tint, colr, SH, ICG))
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self.ICGvalue.trace("w", lambda name, index, mode, status=self.ICGSHstatus, tint=self.tint, colr=self.lICGSH, SH=self.SHvalue, ICG=self.ICGvalue: self.ICGSHcallback(name, index, mode, status, tint, colr, SH, ICG))
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def collectmodefields(self, continuous_row):
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#setup continuous vs one-shot
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self.collectmode_frame = tk.Frame(self)
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self.collectmode_frame.grid(row=continuous_row, columnspan=2)
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self.CONTvar = tk.IntVar()
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self.rcontinuous = tk.Radiobutton(self.collectmode_frame, text="Continuous", variable=self.CONTvar, value=1, command=lambda CONTvar=self.CONTvar: self.modeset(CONTvar))
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self.rcontinuous.grid(row=0, column=2, sticky="W")
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self.roneshot = tk.Radiobutton(self.collectmode_frame, text="Single", variable=self.CONTvar, value=0, command=lambda CONTvar=self.CONTvar: self.modeset(CONTvar))
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self.roneshot.grid(row=0, column=1, sticky="W")
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#help button
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self.bhcollectmode = tk.Button(self, text="?", command=lambda helpfor=6: helpme(helpfor))
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self.bhcollectmode.grid(row=continuous_row, column=3)
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def avgfields(self, avg_row):
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#setup AVG entry
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self.lAVG = tk.Label(self, text="Average:")
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self.lAVG.grid(column=0, row=avg_row)
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self.AVGscale = tk.Scale(self, orient='horizontal', from_=1, to=15)
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self.AVGscale.configure(command=self.AVGcallback)
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self.AVGscale.grid(column=1, row=avg_row, sticky="we")
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#help button
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self.bhavg = tk.Button(self, text="?", command=lambda helpfor=2: helpme(helpfor))
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self.bhavg.grid(row=avg_row, column=3)
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def collectfields(self, collect_row, SerQueue, progress_var):
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#setup collect and stop buttons
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self.progress = ttk.Progressbar(self, orient="horizontal", maximum=10, mode="determinate", var=progress_var)
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self.bcollect = tk.Button(self, text="Collect", command=lambda panel=self, SerQueue=SerQueue, progress_var=progress_var: CCDserial.rxtx(panel, SerQueue, progress_var))
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self.bcollect.event_generate('<ButtonPress>', when='tail')
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self.bcollect.grid(row=collect_row, columnspan=3, sticky="EW", padx=5)
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self.bstop = tk.Button(self, text="Stop", state=tk.DISABLED, command=lambda queue=SerQueue: CCDserial.rxtxcancel(queue))
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self.bstop.grid(row=collect_row, column=3)
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self.progress.grid(row=collect_row+1, columnspan=3, sticky="EW", padx=5)
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def plotmodefields(self, plotmode_row, CCDplot):
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#setup plot mode checkbuttons
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self.plotmode_frame = tk.Frame(self)
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self.plotmode_frame.grid(row=plotmode_row, columnspan=2)
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self.balance_var = tk.IntVar()
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self.rawplot_var = tk.IntVar()
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self.cinvert = tk.Checkbutton(self.plotmode_frame, text="Plot raw data", variable=self.rawplot_var, offvalue=1, onvalue=0)#, state=tk.ACTIVE)
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self.cinvert.deselect()
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self.cinvert.grid(row=0, column=1, sticky="W")
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self.cbalance = tk.Checkbutton(self.plotmode_frame, text="Balance output", variable=self.balance_var, offvalue=0, onvalue=1)#, state=tk.ACTIVE)
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self.cbalance.select()
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self.cbalance.grid(row=0, column=2, sticky="W")
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self.grid_rowconfigure(plotmode_row+2, minsize=50)
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#help button
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self.bhinv = tk.Button(self, text="?", command=lambda helpfor=3: helpme(helpfor))
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self.bhinv.grid(row=plotmode_row, column=3)
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#setup traces
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self.rawplot_var.trace("w", lambda name, index, mode, invert=self.rawplot_var, plot=CCDplot: self.RAWcallback(name, index, mode, invert, plot))
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self.balance_var.trace("w", lambda name, index, mode, balance=self.balance_var, plot=CCDplot: self.BALcallback(name, index, mode, balance, plot))
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def saveopenfields(self, save_row, CCDplot):
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#setup save/open buttons
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self.fileframe = tk.Frame(self)
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self.fileframe.grid(row=save_row, columnspan=2)
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self.bopen = tk.Button(self.fileframe, text="Open", width=11, command=lambda self=self, CCDplot=CCDplot: CCDfiles.openfile(self, CCDplot))
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self.bsave = tk.Button(self.fileframe, text="Save", width=11, state=tk.DISABLED,command=lambda self=self: CCDfiles.savefile(self))
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self.bopen.pack(side=tk.LEFT)
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self.bsave.pack(side=tk.LEFT)
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#help button
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self.bhsav = tk.Button(self, text="?", command=lambda helpfor=5: helpme(helpfor))
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self.bhsav.grid(row=save_row, column=3)
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def updateplotfields(self, update_row, CCDplot):
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self.bupdate = tk.Button(self, text="Update plot", command=lambda CCDplot=CCDplot: self.updateplot(CCDplot))
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#setup an event on the invisible update-plot button with a callback this thread can invoke in the mainloop
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self.bupdate.event_generate('<ButtonPress>', when='tail')
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#commented out, it's needed to inject an event into the tk.mainloop for updating the plot from the 'checkfordata' thread
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#self.bupdate.grid(row=update_row, columnspan=3, sticky="EW", padx=5)
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#
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#
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def jfsAddOns(self,CCDplot):
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device_row = 10
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shicg_row = 20
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con_row = 30
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avg_row = 40
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col_row = 50
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plt_row = 60
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save_row = 70
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upd_row = 80
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kin_delta = tk.IntVar()
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kin_delta.set(2)
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kin_repeats = tk.IntVar()
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kin_repeats.set(10)
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kin_time = tk.IntVar()
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kin_time.set(0)
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def darkline():
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if (self.jf.do_save_darkline(config.rxData16)==1):
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self.jfsdark_check.config(state=tk.NORMAL)
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def baseline():
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if (self.jf.get_darkline_checked() == 1):
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base = self.jf.darkData16-config.rxData16
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if (self.jf.do_save_baseline(base)==1):
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self.jfsbase_check.config(state=tk.NORMAL)
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self.jfsbase_transmission.config(state=tk.NORMAL)
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self.jfsbase_absorption.config(state=tk.NORMAL)
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def loaddata():
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self.jf.load_pandas()
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config.photometer=1
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self.updateplot(CCDplot)
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self.jfsdark_check.config(state=tk.NORMAL)
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self.jfsbase_check.config(state=tk.NORMAL)
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self.jfsbase_transmission.config(state=tk.NORMAL)
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self.jfsbase_absorption.config(state=tk.NORMAL)
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def messure():
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kin_time.set(kin_time.get()+1)
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self.bcollect.invoke()
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self.jf.add_kinetic(str(kin_delta.get()*kin_time.get()))
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kinetics()
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def kinetics():
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if kin_repeats.get() > 0 :
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kin_repeats.set(kin_repeats.get()-1)
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self.after(kin_delta.get()*1000,messure)
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else:
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print('Kinetics finisched')
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kin_time.set(0)
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self.jf.df['baseline']=self.jf.baseData16
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self.jf.df['darkline']=self.jf.darkData16
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self.jf.df['nmscale']=self.jf.nmData16
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self.jf.save_kinetics("kini.dat")
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print(self.jf.df.head())
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self.jfstitel = tk.Label(self, text=' Photometer ',fg="#6A9662")
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#self.jfstitel.config(font=("Courier",0))
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self.jfstitel.grid(row=device_row,column=4,columnspan=2,sticky='w')
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self.jfs4cal = tk.Button(self,text='Calibration',fg="blue", command=self.jf.do_calibrate)
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self.jfs4cal.grid(row=device_row+1,column=4,sticky='e',padx=4)
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self.jfs4nm_check = tk.Checkbutton(self,text="[nm] scale on/off",variable=self.jf.nm_checked,command=lambda CCDplot=CCDplot: self.updateplot(CCDplot))
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self.jfs4nm_check.grid(row=shicg_row-1,column=4,sticky='w',padx=4)
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self.jfsdark = tk.Button(self,text='save Darkline',fg="blue", command= darkline)
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self.jfsdark.grid(row=shicg_row,column=4,sticky='e',padx=4)
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self.jfsdark_check = tk.Checkbutton(self,text="Darkline on/off",variable=self.jf.darkline_checked,state=tk.DISABLED,command=lambda CCDplot=CCDplot: self.updateplot(CCDplot))
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self.jfsdark_check.grid(row=shicg_row+1,column=4,sticky='w')
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self.jfsbase = tk.Button(self,text='save Baseline',fg="blue", command= baseline)
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self.jfsbase.grid(row=shicg_row+2,column=4,sticky='e',padx=4)
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self.jfsbase_check = tk.Checkbutton(self,text="Baseline on/off",variable=self.jf.baseline_checked,state=tk.DISABLED,command=lambda CCDplot=CCDplot: self.updateplot(CCDplot))
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self.jfsbase_check.grid(row=shicg_row+3,column=4,sticky='w')
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self.jfsbase_absorption = tk.Radiobutton(self,text="Absorption",variable=self.jf.abs_trans,value=0,state=tk.DISABLED,command=lambda CCDplot=CCDplot: self.updateplot(CCDplot))
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self.jfsbase_absorption.grid(row=con_row,column=4,sticky='es')
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self.jfsbase_transmission = tk.Radiobutton(self,text="Transmision",variable=self.jf.abs_trans,value=1,state=tk.DISABLED,command=lambda CCDplot=CCDplot: self.updateplot(CCDplot))
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self.jfsbase_transmission.grid(row=avg_row,column=4,sticky='e')
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self.jfspdsave = tk.Button(self,text='save Data',fg="blue", command=self.jf.save_pandas)
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self.jfspdsave.grid(row=col_row,column=4,sticky='e',padx=4)
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self.jfspdload = tk.Button(self,text='load Data',fg="blue", command=loaddata)
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self.jfspdload.grid(row=col_row+1,column=4,sticky='e',padx=4)
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#### LabelFrame
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self.jfslf1 = tk.LabelFrame(self,text= 'kinetic')
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self.jfslf1.grid(row=plt_row,column=4,sticky='e',padx=4)
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self.jfskinb = tk.Button(self.jfslf1,text='start Kinetic',fg="blue", command=kinetics)
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self.jfskinb.grid(row=2,column=1,sticky='e')
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self.jfskinl1 = tk.Label(self.jfslf1,text='Interval [s]',fg="blue")
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self.jfskinl1.grid(row=0,column=0,sticky='w')
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self.jfskine1 = tk.Entry(self.jfslf1,textvariable=kin_delta,width=4)
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self.jfskine1.grid(row=0,column=1,sticky='e')
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self.jfskinl2 = tk.Label(self.jfslf1,text='Repetitions',fg="blue")
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self.jfskinl2.grid(row=1,column=0,sticky='w')
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self.jfspkine2 = tk.Entry(self.jfslf1,textvariable=kin_repeats,width=4)
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self.jfspkine2.grid(row=1,column=1,sticky='e')
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self.jfspdmath = tk.Button(self,text='Math..',fg="blue", command=self.jf.do_math)
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self.jfspdmath.grid(row=save_row,column=4,sticky='e',padx=4)
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### Reset changes from loading phometerfile
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def reset_settings(self):
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print('reset settings 1')
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self.jf.reset_settings()
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### Callbacks for traces, buttons, etc ###
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def callback(self):
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self.bopen.config(state=tk.DISABLED)
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return()
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def ICGSHcallback(self, name, index, mode, status, tint, colr, SH, ICG):
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try:
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config.SHperiod = np.uint32(int(SH.get()))
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config.ICGperiod = np.uint32(int(ICG.get()))
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except:
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print("SH or ICG not an integer")
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self.print_tint = tk.StringVar()
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if (config.SHperiod < 1):
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config.SHperiod = 1
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if (config.ICGperiod < 1):
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config.ICGperiod = 1
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if ((config.ICGperiod % config.SHperiod) or (config.SHperiod < 20) or (config.ICGperiod < 14776)):
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status.set("CCD pulse timing violation!")
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colr.configure(fg="red")
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self.print_tint.set("invalid")
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else:
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status.set("Correct CCD pulse timing.")
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colr.configure(fg="green")
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if (config.SHperiod < 20000000):
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self.print_tint.set(str(config.SHperiod/2000) + " ms")
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elif (config.SHperiod <= 1200000000):
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self.print_tint.set(str(config.SHperiod/2000000) + " s")
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elif (config.SHperiod > 1200000000):
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|
self.print_tint.set(str(round(config.SHperiod/120000000,2)) + " min")
|
|
|
|
|
|
#tint.set("Integration time is " + + " ms")
|
|
tint.set("Integration time is " + self.print_tint.get())
|
|
|
|
def modeset(self, CONTvar):
|
|
config.AVGn[0]=CONTvar.get()
|
|
|
|
|
|
def AVGcallback(self,AVGscale):
|
|
config.AVGn[1] = np.uint8(self.AVGscale.get())
|
|
|
|
|
|
def RAWcallback(self, name, index, mode, invert, CCDplot):
|
|
config.datainvert = invert.get()
|
|
if (config.datainvert == 0):
|
|
self.cbalance.config(state=tk.DISABLED)
|
|
else:
|
|
self.cbalance.config(state=tk.NORMAL)
|
|
self.updateplot(CCDplot)
|
|
|
|
def BALcallback(self, name, index, mode, balanced, CCDplot):
|
|
config.balanced = balanced.get()
|
|
self.updateplot(CCDplot)
|
|
|
|
def DEVcallback(self, name, index, mode, Device, status, colr):
|
|
config.port = Device.get()
|
|
try:
|
|
ser = serial.Serial(config.port, config.baudrate, timeout=1)
|
|
status.set("Device exist")
|
|
ser.close()
|
|
colr.configure(fg="green")
|
|
except serial.SerialException:
|
|
status.set("Device doesn't exist")
|
|
colr.configure(fg="red")
|
|
|
|
def updateplot_B(self,CCDplot):
|
|
self.jf.reset_settings()
|
|
self.updateplot(CCDplot)
|
|
|
|
def updateplot(self, CCDplot):
|
|
CCDplot.a.clear()
|
|
# Photometer Job Baseline is the Intensity of the Lamp
|
|
# baseline start and baseline end depends on the spektral range of the Lamp
|
|
# the actuel input is lower due to the absorption of the liquid
|
|
if (self.jf.get_baseline_checked()==1):
|
|
config.pltBaseData16 = self.jf.baseData16
|
|
config.pltData16 = self.jf.darkData16 - config.rxData16
|
|
for i in range(0,3694):
|
|
if (config.pltBaseData16[i] == 0):
|
|
config.pltData16[i] = 1
|
|
else:
|
|
if (self.jf.abs_trans.get()==1):
|
|
config.pltData16[i] = np.log10(config.pltBaseData16[i] / config.pltData16[i])
|
|
else:
|
|
config.pltData16[i] = (config.pltData16[i] / config.pltBaseData16[i])
|
|
#if (self.jf.abs_trans.get()==1):
|
|
# config.pltData16 = np.log10(config.pltData16)*-1
|
|
try:
|
|
up = np.max(config.pltData16)
|
|
if (self.jf.get_nm_checked()==1):
|
|
CCDplot.a.plot(self.jf.get_nm_scale(),config.pltData16)
|
|
CCDplot.a.axis([self.jf.nm_left,self.jf.nm_right,0,up])
|
|
CCDplot.a.set_xlim([self.jf.nm_left+self.jf.baseline_start*self.jf.nm_step, self.jf.nm_left+self.jf.baseline_end*self.jf.nm_step])
|
|
CCDplot.a.set_xlabel(" [nm] ")
|
|
else:
|
|
CCDplot.a.plot(config.pltData16)
|
|
CCDplot.a.axis([0,3694,-10,up])
|
|
CCDplot.a.set_xlim([self.jf.baseline_start, self.jf.baseline_end])
|
|
CCDplot.a.set_xlabel("Pixelnumber")
|
|
CCDplot.a.set_ylabel("Intensity")
|
|
except ValueError:
|
|
messagebox.showerror("By the great otter!","Is there's a problem with the light.\n or disable baseline checkbox")
|
|
else:
|
|
#This subtracts the ADC-pixel from ADC-dark
|
|
if (config.datainvert==1):
|
|
if (self.jf.get_darkline_checked()==1):
|
|
config.pltData16 = self.jf.darkData16 - config.rxData16
|
|
else:
|
|
config.pltData16 = (config.rxData16[10]+config.rxData16[11])/2 - config.rxData16
|
|
#This subtracts the average difference between even and odd pixels from the even pixels
|
|
if (config.balanced==1):
|
|
config.offset = (config.pltData16[18]+config.pltData16[20]+config.pltData16[22]+config.pltData16[24]-config.pltData16[19]-config.pltData16[21]-config.pltData16[23]-config.pltData16[24])/4
|
|
#print(config.offset)
|
|
for i in range (1847):
|
|
config.pltData16[2*i] = config.pltData16[2*i] - config.offset
|
|
|
|
#CCDplot.a.clear()
|
|
#plot intensities
|
|
if (config.datainvert == 1):
|
|
## make max visible
|
|
up = np.max(config.pltData16)
|
|
if (self.jf.get_nm_checked()==1):
|
|
CCDplot.a.plot(self.jf.get_nm_scale(),config.pltData16)
|
|
CCDplot.a.axis([self.jf.nm_left,self.jf.nm_right,0,up])
|
|
CCDplot.a.set_xlabel(" [nm] ")
|
|
else:
|
|
CCDplot.a.plot(config.pltData16)
|
|
CCDplot.a.axis([0,3694,-10,4095])
|
|
CCDplot.a.set_xlabel("Pixelnumber")
|
|
CCDplot.a.set_ylabel("Intensity")
|
|
|
|
else:
|
|
if (self.jf.get_nm_checked()==1):
|
|
CCDplot.a.plot(self.jf.get_nm_scale(),config.rxData16)
|
|
CCDplot.a.axis([self.jf.nm_left,self.jf.nm_right,-10,4095])
|
|
CCDplot.a.set_xlabel(" [nm] ")
|
|
else:
|
|
CCDplot.a.plot(config.rxData16)
|
|
CCDplot.a.axis([0,3694,-10,4095])
|
|
CCDplot.a.set_xlabel("Pixelnumber")
|
|
CCDplot.a.set_ylabel("ADCcount")
|
|
#plot raw data
|
|
|
|
CCDplot.canvas.draw()
|
|
|
|
|