forked from awendt/pyrelacs
270 lines
10 KiB
Python
270 lines
10 KiB
Python
from PyQt6.QtGui import QAction, QIcon, QKeySequence
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from PyQt6.QtCore import Qt, QSize, QThreadPool
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from PyQt6.QtWidgets import (
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QGridLayout,
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QPushButton,
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QToolBar,
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QWidget,
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QMainWindow,
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QPlainTextEdit,
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QMenuBar,
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QStatusBar
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)
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import uldaq
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import numpy as np
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import nixio as nix
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import pyqtgraph as pg
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from pathlib import Path as path
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from scipy.signal import welch, find_peaks
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from ..worker import Worker
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from ..repros.repros import Repro
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from ..util.logging import config_logging
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from .about import AboutDialog
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log = config_logging()
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_root = path(__file__).parent.parent
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from IPython import embed
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class PyRelacs(QMainWindow):
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def __init__(self):
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super().__init__()
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# self.setToolButtonStyle(Qt.ToolButtonStyle.ToolButtonTextBesideIcon) # Ensure icons are displayed with text
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self.setWindowTitle("PyRelacs")
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self.beat_plot = pg.PlotWidget()
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self.power_plot = pg.PlotWidget()
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self.threadpool = QThreadPool()
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self.repros = Repro()
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self.text = QPlainTextEdit()
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self.text.setReadOnly(True)
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self.setMenuBar(QMenuBar(self))
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self.setStatusBar(QStatusBar(self))
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self.create_actions()
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self.create_buttons()
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self.create_toolbars()
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layout = QGridLayout()
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layout.addWidget(self.plot_calibration_button, 0, 0)
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layout.addWidget(self.daq_disconnect_button, 0, 1)
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layout.addWidget(self.beat_plot, 2, 0, 1, 2)
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layout.addWidget(self.power_plot, 3, 0, 1, 2)
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self.toolbar = QToolBar("Repros")
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self.addToolBar(self.toolbar)
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self.repros_to_toolbar()
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# self.setFixedSize(QSize(400, 300))
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widget = QWidget()
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widget.setLayout(layout)
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self.setCentralWidget(widget)
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filename = path.joinpath(path.cwd(), "data.nix")
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self.nix_file = nix.File.open(
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str(filename), nix.FileMode.Overwrite
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)
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def create_actions(self):
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self._rlx_exitaction = QAction(QIcon(":/icons/exit.png"), "Exit", self)
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self._rlx_exitaction.setStatusTip("Close relacs")
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self._rlx_exitaction.setShortcut(QKeySequence("Alt+q"))
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self._rlx_exitaction.triggered.connect(self.on_exit)
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self._rlx_aboutaction = QAction("about")
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self._rlx_aboutaction.setStatusTip("Show about dialog")
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self._rlx_aboutaction.setEnabled(True)
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self._rlx_aboutaction.triggered.connect(self.on_about)
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self._daq_connectaction = QAction(QIcon(":icons/connect.png"), "Connect DAQ", self)
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self._daq_connectaction.setStatusTip("Connect to daq device")
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# self._daq_connectaction.setShortcut(QKeySequence("Alt+d"))
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self._daq_connectaction.triggered.connect(self.connect_dac)
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self._daq_disconnectaction = QAction(QIcon(":/icons/disconnect.png"), "Disconnect DAQ", self)
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self._daq_disconnectaction.setStatusTip("Disconnect the DAQ device")
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# self._daq_connectaction.setShortcut(QKeySequence("Alt+d"))
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self._daq_disconnectaction.triggered.connect(self.disconnect_dac)
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self._daq_calibaction = QAction(QIcon(":/icons/calibration.png"), "Plot calibration", self)
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self._daq_calibaction.setStatusTip("Calibrate the attenuator device")
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# self._daq_calibaction.setShortcut(QKeySequence("Alt+d"))
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self._daq_calibaction.triggered.connect(self.plot_calibration)
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self.create_menu()
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def create_menu(self):
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menu = self.menuBar()
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file_menu = menu.addMenu("&File")
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file_menu.addAction(self._rlx_exitaction)
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file_menu.addAction(self._rlx_aboutaction)
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device_menu = menu.addMenu("&DAQ")
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device_menu.addAction(self._daq_connectaction)
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device_menu.addAction(self._daq_disconnectaction)
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device_menu.addSeparator()
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device_menu.addAction(self._daq_calibaction)
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help_menu = menu.addMenu("&Help")
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help_menu.addSeparator()
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# help_menu.addAction(self._help_action)
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self.setMenuBar(menu)
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def create_toolbars(self):
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rlx_toolbar = QToolBar("Relacs")
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rlx_toolbar.addAction(self._rlx_exitaction)
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rlx_toolbar.setIconSize(QSize(24, 24))
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self.addToolBar(Qt.ToolBarArea.TopToolBarArea, rlx_toolbar)
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daq_toolbar = QToolBar("DAQ")
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daq_toolbar.addAction(self._daq_connectaction)
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daq_toolbar.addAction(self._daq_disconnectaction)
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daq_toolbar.addAction(self._daq_calibaction)
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self.addToolBar(Qt.ToolBarArea.TopToolBarArea, daq_toolbar)
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repro_toolbar = QToolBar("Repros")
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repro_names, file_names = self.repros.names_of_repros()
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for rep, fn in zip(repro_names, file_names):
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repro_action = QAction(rep, self)
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repro_action.setStatusTip(rep)
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repro_action.triggered.connect(
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lambda checked, n=rep, f=fn: self.run_repro(n, f)
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)
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repro_toolbar.addAction(repro_action)
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self.addToolBar(Qt.ToolBarArea.TopToolBarArea, repro_toolbar)
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def create_buttons(self):
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self.daq_connect_button = QPushButton("Connect Daq")
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self.daq_connect_button.setCheckable(True)
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self.daq_connect_button.clicked.connect(self.connect_dac)
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self.daq_disconnect_button = QPushButton("Disconnect Daq")
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self.daq_disconnect_button.setCheckable(True)
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self.daq_disconnect_button.clicked.connect(self.disconnect_dac)
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self.plot_calibration_button = QPushButton("Plot Calibration")
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self.plot_calibration_button.setCheckable(True)
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self.plot_calibration_button.clicked.connect(self.plot_calibration)
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def plot_calibration(self):
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def decibel(power, ref_power=1.0, min_power=1e-20):
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"""Transform power to decibel relative to ref_power.
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\\[ decibel = 10 \\cdot \\log_{10}(power/ref\\_power) \\]
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Power values smaller than `min_power` are set to `-np.inf`.
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Parameters
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----------
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power: float or array
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Power values, for example from a power spectrum or spectrogram.
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ref_power: float or None or 'peak'
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Reference power for computing decibel.
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If set to `None` or 'peak', the maximum power is used.
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min_power: float
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Power values smaller than `min_power` are set to `-np.inf`.
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Returns
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-------
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decibel_psd: array
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Power values in decibel relative to `ref_power`.
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"""
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if np.isscalar(power):
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tmp_power = np.array([power])
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decibel_psd = np.array([power])
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else:
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tmp_power = power
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decibel_psd = power.copy()
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if ref_power is None or ref_power == "peak":
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ref_power = np.max(decibel_psd)
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decibel_psd[tmp_power <= min_power] = float("-inf")
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decibel_psd[tmp_power > min_power] = 10.0 * np.log10(
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decibel_psd[tmp_power > min_power] / ref_power
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)
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if np.isscalar(power):
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return decibel_psd[0]
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else:
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return decibel_psd
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block = self.nix_file.blocks[0]
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colors = ["red", "green", "blue", "black", "yellow"]
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for i, (stim, fish) in enumerate(
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zip(list(block.data_arrays)[::2], list(block.data_arrays)[1::2])
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):
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beat = stim[:] + fish[:]
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beat_squared = beat**2
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f, powerspec = welch(beat, fs=40_000.0)
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powerspec = decibel(powerspec)
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f_sq, powerspec_sq = welch(beat_squared, fs=40_000.0)
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powerspec_sq = decibel(powerspec_sq)
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peaks = find_peaks(powerspec_sq, prominence=20)[0]
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pen = pg.mkPen(colors[i])
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self.beat_plot.plot(
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np.arange(0, len(beat)) / 40_000.0,
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beat_squared,
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pen=pen,
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# name=stim.name,
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)
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self.power_plot.plot(f_sq, powerspec_sq, pen=pen)
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self.power_plot.plot(f[peaks], powerspec_sq[peaks], pen=None, symbol="x")
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def connect_dac(self):
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devices = uldaq.get_daq_device_inventory(uldaq.InterfaceType.USB)
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try:
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self.daq_device = uldaq.DaqDevice(devices[0])
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log.debug(f"Found daq devices {len(devices)}, connecting to the first one")
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self.daq_device.connect()
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log.debug("Connected")
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except IndexError:
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log.debug("DAQ is not connected, closing")
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self.on_exit()
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self.daq_connect_button.setDisabled(True)
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def disconnect_dac(self):
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try:
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log.debug(f"{self.daq_device}")
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self.daq_device.disconnect()
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self.daq_device.release()
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log.debug(f"{self.daq_device}")
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self.daq_disconnect_button.setDisabled(True)
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self.daq_connect_button.setEnabled(True)
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except AttributeError:
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log.debug("DAQ was not connected")
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def repros_to_toolbar(self):
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repro_names, file_names = self.repros.names_of_repros()
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for rep, fn in zip(repro_names, file_names):
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individual_repro_button = QAction(rep, self)
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individual_repro_button.setStatusTip("Button")
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individual_repro_button.triggered.connect(
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lambda checked, n=rep, f=fn: self.run_repro(n, f)
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)
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self.toolbar.addAction(individual_repro_button)
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def run_repro(self, n, fn):
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self.text.appendPlainText(f"started Repro {n}, {fn}")
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worker = Worker(self.repros.run_repro, self.nix_file, n, fn)
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worker.signals.result.connect(self.print_output)
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worker.signals.finished.connect(self.thread_complete)
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worker.signals.progress.connect(self.progress_fn)
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self.threadpool.start(worker)
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def on_exit(self):
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print("exit button!")
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self.close()
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def on_about(self, e):
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about = AboutDialog(self)
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about.show()
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def print_output(self, s):
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print(s)
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def thread_complete(self):
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print("THREAD COMPLETE!")
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def progress_fn(self, n):
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print("%d%% done" % n) |