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cfview
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cfview
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#!/usr/bin/env python3
# Temporary fix for pillow warning
# DeprecationWarning: Support for PyQt5 is deprecated and will be removed in Pillow 10 (2023-07-01). Use PyQt6 or PySide6 instead.
import warnings
warnings.filterwarnings("ignore", category=DeprecationWarning)
import cf
import cfplot as cfp
import numpy as np
import numpy.ma as ma
import os
import sys
import argparse
import matplotlib.pyplot as plt
import matplotlib
from PyQt5.QtWidgets import QApplication, QLabel, QCheckBox, QFileDialog, QDialog, QRadioButton, QAction
from PyQt5.QtWidgets import QComboBox, QListWidget, QListWidgetItem, QHBoxLayout, QVBoxLayout, QWidget, QPushButton
from PyQt5.QtWidgets import QLineEdit, QTextEdit, QSlider, QMenu, QFontDialog, QMenuBar
from PyQt5.QtWidgets import QMainWindow, QFrame, QSizePolicy, QScrollBar, QScrollArea, QFormLayout, QGroupBox, QTableWidget
from PyQt5.QtWidgets import QTableWidgetItem, QTableView, QSlider, QAbstractScrollArea, QSpacerItem, QHeaderView
from PyQt5.QtCore import Qt, QObject, pyqtSignal, QAbstractTableModel, QVariant, QCoreApplication
from PyQt5.QtGui import QFont, QPalette, QColor, QTextDocument, QPixmap, QImage, QStandardItemModel, QFontDatabase, QFontMetrics
from copy import deepcopy
from functools import partial
from PIL import Image, ImageDraw
from PIL.ImageQt import ImageQt
import csv
import json
# Initiate the pvars class
# This is used for storing plotting variables in plotvars
class pvars(object):
'''The pvars object is used for storing plotting variables in plotvars'''
def __init__(self, **kwargs):
# Initialize a new Pvars instance
for attr, value in kwargs.items():
setattr(self, attr, value)
def __str__(self):
'''x.__str__() <==> str(x)'''
a = None
v = None
out = ['%s = %s' % (a, repr(v))]
for a, v in self.__dict__.items():
return '\n'.join(out)
cols = ['#abb6d4', '#7085c4', '#ffffff', '#f1f4fd', '#000000', '#000000']
plotvars=pvars(pos=0, nplots=1, code='', plot_counter=0, title='', field_selected='',\
file_selected=None, data=None, levs_automatic_set=True, levs_set=False,\
levs_manual_set=False, levs_min='', levs_max='', levs_step='',levs_manual='',\
levs_extend_lower=True, levs_extend_upper=True, colorbar=True,\
colorbar_orientation=None,\
proj='cyl', lonmin='-180', lonmax='180', latmin='-90', latmax='90',\
boundinglat='0', lon_0='0',
resolution='110m', continent_thickness='1.5', continent_color='black',vect_title='',\
vect_ufield='', vect_auto_set=True, vect_key_length=10, vect_scale=100,\
vect_stride='', vect_pts='', vect_stride_set=False,vect_pts_set=False,\
vect_width = 0.02, vect_width_set=False, vect_headwidth = 3, vect_headwidth_set=False,\
cscales=None, cscale_automatic_set=True, cscale_reverse=False, cscale_white='',\
cscale_ncols='', cscale_above='', cscale_below='',cscale=None,\
invalid_input=False, index_number=0, fields=None,\
field__widget_indicies=None, field_widget_names=None, field_widget_title=None,\
field_widget_listing='index', plot_type = 'Contour', contour_type='x-y', \
collapse_x='Off', collapse_y='Off', collapse_z='Off', collapse_t='Off',\
collapse_labels=['X', 'Y', 'Z', 'T'],\
nx_length=None, ny_length=None, nz_length=None, nt_length=None,\
stored = {},\
stored_lock = False,\
background_colour=cols[0], button_colour=cols[1], buttontext_colour=cols[2],\
highlight_colour=cols[3], text_colour=cols[4], windowtext_colour=cols[5],\
text_colour_insensitive = '#708090', font="DejaVu Sans", font_mono='DejaVu Sans Mono',\
fontsize=15, fill=True, blockfill=False, lines=False, line_labels=False, titles=True,\
blockfill_fast=False,\
write_defaults=False, collapse_types=None, line_type='x', line_colour = 'C0',\
line_style='solid', line_xmin=None, line_xmax=None, line_ymin=None, line_ymax=None,\
line_title='', line_width='1.0', line_marker = '', line_markersize='',\
line_markeredgecolor='', line_markeredgewidth='', line_limits='automatic',\
trajectory_title='', trajectory_marker_shape='o', trajectory_marker_size='5',\
trajectory_marker_face_colour='red', trajectory_marker_edge_colour='green', \
trajectory_line_style='solid', trajectory_line_colour='blue', \
trajectory_line_width='1.0', trajectory_vector=False, trajectory_legend=False,\
trajectory_date_min='', trajectory_date_max='', dim_names=['x', 'y', 'z', 't'],\
code_output=True, data_source_list=None, terminal_output=False, next_field_index=0,\
max_axes=10, nlevs=False, maps_stored=None, levels_stored=None, scales_stored=None)
cscales=['viridis', 'magma', 'inferno', 'plasma', 'parula', 'gray', 'hotcold_18lev', 'hotcolr_19lev',\
'mch_default', 'perc2_9lev', 'percent_11lev', 'precip2_15lev', 'precip2_17lev', 'precip3_16lev',\
'precip4_11lev', 'precip4_diff_19lev', 'precip_11lev', 'precip_diff_12lev', 'precip_diff_1lev', 'rh_19lev',\
'spread_15lev', 'amwg', 'amwg_blueyellowred', 'BlueDarkRed18', 'BlueDarkOrange18', 'BlueGreen14', 'BrownBlue12',\
'Cat12', 'cmp_flux', 'cosam12', 'cosam', 'GHRSST_anomaly', 'GreenMagenta16',\
'nrl_sirkes', 'nrl_sirkes_nowhite','prcp_1', 'prcp_2',\
'prcp_3', 'radar', 'radar_1', 'seaice_1', 'seaice_2', 'so4_21',\
'StepSeq25', 'sunshine_9lev', 'sunshine_diff_12lev', 'temp_19lev', 'temp_diff_18lev', 'temp_diff_1lev',\
'topo_15lev', 'wgne15', 'wind_17lev', 'amwg256', 'BkBlAqGrYeOrReViWh200', 'BlAqGrYeOrRe', 'BlAqGrYeOrReVi200',\
'BlGrYeOrReVi200', 'BlRe', 'BlueRed', 'BlueRedGray', 'BlueWhiteOrangeRed', 'BlueYellowRed', 'BlWhRe', 'cmp_b2r',\
'cmp_haxby', 'detail', 'extrema', 'GrayWhiteGray', 'GreenYellow', 'helix', 'helix1', 'hotres', 'matlab_hot',\
'matlab_hsv', 'matlab_jet', 'matlab_lines', 'ncl_default', 'ncview_default', 'OceanLakeLandSnow', 'rainbow',\
'rainbow_white_gray', 'rainbow_white', 'rainbow_gray', 'tbr_240_300', 'tbr_stdev_0_30', 'tbr_var_0_500',\
'tbrAvg1', 'tbrStd1', 'tbrVar1', 'thelix', 'ViBlGrWhYeOrRe', 'wh_bl_gr_ye_re', 'WhBlGrYeRe', 'WhBlReWh',\
'WhiteBlue', 'WhiteBlueGreenYellowRed', 'WhiteGreen', 'WhiteYellowOrangeRed', 'WhViBlGrYeOrRe', 'WhViBlGrYeOrReWh',\
'wxpEnIR', '3gauss', '3saw', 'posneg_2', 'posneg_1',\
'os250kmetres', 'wiki_1_0_2', 'wiki_1_0_3', 'wiki_2_0',\
'wiki_2_0_reduced', 'arctic', 'scale1', 'scale2', 'scale3', 'scale4', 'scale5', 'scale6', 'scale7', 'scale8',\
'scale9', 'scale10', 'scale11', 'scale12', 'scale13', 'scale14', 'scale15', 'scale16', 'scale17' , 'scale18',\
'scale19', 'scale20', 'scale21', 'scale22', 'scale23', 'scale24', 'scale25', 'scale26', 'scale27', 'scale28',\
'scale29', 'scale30', 'scale31', 'scale32', 'scale33', 'scale34', 'scale35', 'scale36', 'scale37', 'scale38',\
'scale39', 'scale40', 'scale41', 'scale42', 'scale43', 'scale44']
plotvars.cscales=cscales
plotvars.collapse_types = ['Off', 'mean', 'minimum', 'maximum', 'variance', 'standard_deviation']
# Mac issue with pyqt5 as described at
# https://stackoverflow.com/questions/64833558/apps-not-popping-up-on-macos-big-sur-11-0-1
# has resurfaced with pyqt5 = 4.19.18
# pip install PyQt5==5.15.4 fixes it and also the following environment variable
os.environ["QT_MAC_WANTS_LAYER"] = "1"
class EmittingStream(QObject):
'''Class for output and errors'''
textWritten = pyqtSignal(str)
def write(self, text):
self.textWritten.emit(str(text))
def flush(self):
pass
def my_excepthook(type, value, tback):
'''Log the exceptions'''
# then call the default handler
sys.__excepthook__(type, value, tback)
sys.excepthook = my_excepthook
class Cfview(QMainWindow):
'''Main window class for cfview'''
def __init__(self, filename, defaults, parent=None):
super(Cfview, self).__init__()
plotvars.file_selected = filename
# Set the file string in plotvars
if plotvars.file_selected is not None:
if len(plotvars.file_selected) == 1:
plotvars.file_read_str = "'"+ plotvars.file_selected[0] + "'"
else:
fstring = "['"
for i in np.arange(len(plotvars.file_selected)):
fstring += plotvars.file_selected[i] + "', '"
fstring = fstring[:-4] + "']"
plotvars.file_read_str = fstring
# Set self.parent to self
self.parent = self
# Read in the defaults file if it exists
full_path = os.path.expanduser(defaults)
check = os.path.isfile(full_path)
if check:
with open(full_path, "r") as mydata:
my_defaults = json.load(mydata)
for var in my_defaults:
if var != 'maps' and var != 'levels':
setattr(plotvars, var, my_defaults[var])
else:
for varmap in my_defaults['maps']['default']:
setattr(plotvars, varmap, my_defaults['maps']['default'][varmap])
if 'maps' in my_defaults:
plotvars.maps_stored = my_defaults['maps']
if 'levels' in my_defaults:
plotvars.levels_stored = my_defaults['levels']
if 'scales' in my_defaults:
plotvars.scales_stored = my_defaults['scales']
else:
if defaults != '~/.cfview_defaults':
print("\nDefaults file " + defaults + " doesn't exist\n")
# Set plotvars.maps_stored if it is not defined
mymaps = plotvars.maps_stored
if mymaps is None:
mymaps = {}
mymaps['default'] = {}
mymaps['default']['lonmin'] = plotvars.lonmin
mymaps['default']['lonmax'] = plotvars.lonmax
mymaps['default']['latmin'] = plotvars.latmin
mymaps['default']['latmax'] = plotvars.latmax
mymaps['default']['proj'] = plotvars.proj
mymaps['default']['boundinglat'] = plotvars.boundinglat
mymaps['default']['lon_0'] = plotvars.lon_0
mymaps['default']['resolution'] = plotvars.resolution
mymaps['default']['continent_thickness'] = plotvars.continent_thickness
mymaps['default']['continent_color'] = plotvars.continent_color
plotvars.maps_stored = mymaps
# Set plotvars.levels_stored if it is not defined
mylevels = plotvars.levels_stored
if mylevels is None:
mylevels = {}
mylevels['default'] = {}
mylevels['default']['min'] = plotvars.levs_min
mylevels['default']['max'] = plotvars.levs_max
mylevels['default']['step'] = plotvars.levs_step
mylevels['default']['manual'] = plotvars.levs_manual
mylevels['default']['extend_lower'] = plotvars.levs_extend_lower
mylevels['default']['extend_upper'] = plotvars.levs_extend_upper
plotvars.levels_stored = mylevels
# Set plotvars.scales_stored if it is not defined
myscales = plotvars.scales_stored
if myscales is None:
myscales = {}
myscales['default'] = {}
myscales['default']['ncols'] = plotvars.cscale_ncols
myscales['default']['white'] = plotvars.cscale_white
myscales['default']['above'] = plotvars.cscale_above
myscales['default']['below'] = plotvars.cscale_below
myscales['default']['reverse'] = plotvars.cscale_reverse
myscales['default']['cscale'] = plotvars.cscale
plotvars.scales_stored = myscales
self.initUI()
def initUI(self):
''' Main window layout '''
# Add a top menu bar
bar = self.menuBar()
# Turn off Mac bar relocation
bar.setNativeMenuBar(False)
file = bar.addMenu("File")
file.addAction("Open")
file.addAction("Save")
file.addAction("Exit")
file.triggered.connect(self.file_menu)
edit = bar.addMenu("Edit")
edit.addAction("Copy field")
edit.addAction("Delete selected fields")
edit.addAction("Delete all fields")
edit.triggered.connect(self.menu)
setup = bar.addMenu("Setup")
setup.addAction("cfview defaults")
setup.addAction("contours")
setup.addAction("lines")
setup.addAction("vectors")
setup.addAction("trajectories")
setup.addAction("map")
setup.addAction("colour scale")
setup.addAction("contour levels")
setup.triggered.connect(self.menu)
view = bar.addMenu("View")
view.addAction("data")
view.addAction("properties")
view.addAction("transform")
view.triggered.connect(self.menu)
help = bar.addMenu("Help")
help.addAction("cfview")
help.addAction("about")
help.triggered.connect(self.menu)
# Set up some buttons
plotButton = QPushButton("Plot")
plotButton.clicked.connect(self.plot)
reset_dimensionButton = QPushButton("Reset Dimensions")
reset_dimensionButton.clicked.connect(lambda: self.dim_traj_reset('Reset Dimensions'))
# Plot type combobox
plot_type_ComboBox = QComboBox()
plot_type_ComboBox.addItem('Contour')
plot_type_ComboBox.addItem('Vector')
plot_type_ComboBox.addItem('Contour and vector')
plot_type_ComboBox.addItem('Line')
plot_type_ComboBox.addItem('Trajectory')
plot_type_ComboBox.activated[str].connect(self.plot_type)
# Contour type drop down menu
contour_type_ComboBox = QComboBox()
contour_type_ComboBox.activated[str].connect(self.contour_type)
self.contour_type_ComboBox = contour_type_ComboBox
# Line type drop down menu
line_type_ComboBox = QComboBox()
line_type_ComboBox.activated[str].connect(self.line_type)
self.line_type_ComboBox = line_type_ComboBox
# Dimension selection
dimLabel = QLabel('Select:')
# Field selection widgets
indexCheckBox = QCheckBox("index")
indexCheckBox.setChecked(True)
indexCheckBox.clicked.connect(lambda: self.field_widget_listing('index'))
fieldCheckBox = QCheckBox("field name")
fieldCheckBox.setChecked(False)
fieldCheckBox.clicked.connect(lambda: self.field_widget_listing('field'))
sort_byLabel = QLabel('Order by:')
search_fieldsLabel = QLabel('Search:')
search_fieldsTextbox = QLineEdit()
search_fieldsTextbox.textChanged.connect(self.search_fields)
fieldlist = QListWidget()
fieldlist.setSelectionMode(QListWidget.ExtendedSelection)
fieldlist.itemSelectionChanged.connect(self.fieldnumber)
field_titles = QLabel('Index nX nY nZ nT field name')
# Set fixed width font for field titles
custom_font_fixed_width = QFont(plotvars.font_mono, plotvars.fontsize)
field_titles.setFont(custom_font_fixed_width)
fieldlist.setFont(custom_font_fixed_width)
# Messages label
messagesLabel = QLabel('Output messages')
messagesLabel.setAlignment(Qt.AlignCenter)
# Dimension lists
dimension_titles = QLabel('Dimension view')
# New ajh code - extend up to 10 data dimensions
# self.lists contain axis values
# self.lists_collapse contain just one value for the collapse centre
self.axis_RadioButtons = []
self.lists = []
self.lists_collapse = []
for i in np.arange(plotvars.max_axes):
self.axis_RadioButtons.append(QRadioButton(''))
self.axis_RadioButtons[i].setVisible(False)
self.axis_RadioButtons[i].setChecked(False)
self.axis_RadioButtons[i].clicked.connect(partial(self.dim_view, i))
self.lists.append(QListWidget())
self.lists[i].setSelectionMode(QListWidget.ExtendedSelection)
self.lists[i].setFont(custom_font_fixed_width)
self.lists[i].itemSelectionChanged.connect(self.reset_field_title)
self.lists[i].setVisible(False)
self.lists_collapse.append(QListWidget())
self.lists_collapse[i].setSelectionMode(QListWidget.ExtendedSelection)
self.lists_collapse[i].setFont(custom_font_fixed_width)
self.lists_collapse[i].itemSelectionChanged.connect(self.reset_field_title)
self.lists_collapse[i].setVisible(False)
self.lists[0].setVisible(True)
# Vector and contour and vector hbox
contour_vector_indexHbox = QHBoxLayout()
contour_indexLabel = QLabel('Contour Index')
contour_indexComboBox = QComboBox()
vector_x_indexLabel = QLabel('Vector x Index')
vector_x_indexComboBox = QComboBox()
vector_y_indexLabel = QLabel('Vector y Index')
vector_y_indexComboBox = QComboBox()
contour_vector_indexHbox.addWidget(contour_indexLabel)
contour_vector_indexHbox.addWidget(contour_indexComboBox)
contour_vector_indexHbox.addWidget(vector_x_indexLabel)
contour_vector_indexHbox.addWidget(vector_x_indexComboBox)
contour_vector_indexHbox.addWidget(vector_y_indexLabel)
contour_vector_indexHbox.addWidget(vector_y_indexComboBox)
objs = [contour_indexLabel, contour_indexComboBox,
vector_x_indexLabel, vector_x_indexComboBox,
vector_y_indexLabel, vector_y_indexComboBox]
for obj in objs:
obj.setVisible(False)
# Output window
output_terminal_textEdit = QTextEdit()
# Define the top level containers to put the widgets in
outerLayout = QHBoxLayout()
leftLayout = QVBoxLayout()
rightLayout = QVBoxLayout()
# Define the left layout widget boxes
leftHbox0 = QHBoxLayout()
leftHbox1 = QHBoxLayout()
leftHbox2 = QHBoxLayout()
leftHbox3 = QHBoxLayout()
leftHbox4 = QHBoxLayout()
leftHbox5 = QHBoxLayout()
# Define the right layout widget boxes
rightHbox1 = QHBoxLayout()
rightHbox2 = QHBoxLayout()
rightHbox3 = QHBoxLayout()
rightHbox4 = QHBoxLayout()
# containers for field and dimension lists
field_container = QVBoxLayout()
field_container1 = QVBoxLayout()
field_container1.setContentsMargins(2,0,0,0)
field_container2 = QVBoxLayout()
dimension_container = QVBoxLayout()
# Assemble the layout boxes
leftLayout.addLayout(leftHbox1)
leftLayout.addLayout(leftHbox2)
leftLayout.addLayout(leftHbox3)
leftLayout.addLayout(leftHbox4)
leftLayout.addLayout(leftHbox5)
rightLayout.addLayout(rightHbox1)
rightLayout.addLayout(contour_vector_indexHbox)
rightLayout.addLayout(rightHbox2)
rightLayout.addLayout(rightHbox3)
rightLayout.addLayout(rightHbox4)
outerLayout.addLayout(leftLayout)
outerLayout.addLayout(rightLayout)
# Add widgets to the appropriate boxes
rightHbox1.addWidget(plot_type_ComboBox)
rightHbox1.addWidget(contour_type_ComboBox)
rightHbox1.addWidget(line_type_ComboBox)
line_type_ComboBox.setVisible(False)
rightHbox1.addWidget(plotButton)
leftHbox2.addLayout(field_container)
field_container.addLayout(field_container1)
field_container.addLayout(field_container2)
field_container1.addWidget(field_titles)
field_container2.addWidget(fieldlist)
rightHbox2.addLayout(dimension_container)
dimension_container.addWidget(dimension_titles)
for i in np.arange(plotvars.max_axes):
dimension_container.addWidget(self.lists[i])
dimension_container.addWidget(self.lists_collapse[i])
self.rightHbox3 = rightHbox3
leftHbox3.addWidget(sort_byLabel)
leftHbox3.addWidget(indexCheckBox)
leftHbox3.addWidget(fieldCheckBox)
leftHbox3.addWidget(search_fieldsLabel)
leftHbox3.addWidget(search_fieldsTextbox)
leftHbox4.addWidget(messagesLabel)
leftHbox5.addWidget(output_terminal_textEdit)
widget = QWidget()
widget.setLayout(outerLayout)
self.setCentralWidget(widget)
self.field_titles = field_titles
self.dimension_titles = dimension_titles
self.fieldlist = fieldlist
self.plot_type_ComboBox = plot_type_ComboBox
self.dimLabel = dimLabel
self.reset_dimensionButton = reset_dimensionButton
self.contour_vector_indexHbox = contour_vector_indexHbox
self.contour_indexLabel = contour_indexLabel
self.contour_indexComboBox = contour_indexComboBox
self.vector_x_indexLabel = vector_x_indexLabel
self.vector_x_indexComboBox = vector_x_indexComboBox
self.vector_y_indexLabel = vector_y_indexLabel
self.vector_y_indexComboBox = vector_y_indexComboBox
self.indexCheckBox = indexCheckBox
self.fieldCheckBox = fieldCheckBox
self.search_fieldsTextbox = search_fieldsTextbox
self.cfview_defaults = None # No external window yet.
self.contour_window = None # No external window yet.
self.contour_levels = None # No external window yet.
self.line_window = None # No external window yet.
self.vector_window = None # No external window yet.
self.trajectory_window = None # No external window yet.
self.colour_scale = None # No external window yet.
self.map_window = None # No external window yet.
self.data_window = None # No external window yet.
self.names_window = None # No external window yet.
self.transform_window = None # No external window yet.
self.about_window = None # No external window yet.
self.cfview_window = None # No external window yet.
self.output_terminal_textEdit = output_terminal_textEdit
# ajh - new - Add axis radio buttons to rightHbox3
# Only four initially as they are set to X, Y, Z, T
rightHbox3.addWidget(self.dimLabel)
for i in np.arange(plotvars.max_axes):
rightHbox3.addWidget(self.axis_RadioButtons[i])
# ajh - new - Initial setting for axes
myaxes = ['X', 'Y', 'Z', 'T']
for i in np.arange(len(myaxes)):
self.axis_RadioButtons[i].setVisible(True)
self.axis_RadioButtons[i].setText(myaxes[i])
self.axis_RadioButtons[0].setChecked(True)
rightHbox3.addWidget(reset_dimensionButton)
# Interface colour settings
palette = QPalette()
palette.setColor(QPalette.Window, QColor(plotvars.background_colour))
palette.setColor(QPalette.Base, QColor(plotvars.background_colour))
palette.setColor(QPalette.Button, QColor(plotvars.button_colour))
palette.setColor(QPalette.ButtonText, QColor(plotvars.buttontext_colour))
palette.setColor(QPalette.Highlight, QColor(plotvars.highlight_colour))
palette.setColor(QPalette.HighlightedText, QColor(plotvars.text_colour))
palette.setColor(QPalette.Text, QColor(plotvars.text_colour))
palette.setColor(QPalette.WindowText, QColor(plotvars.windowtext_colour))
self.setPalette(palette)
# Set main font
db = QFontDatabase()
fonts = QFontDatabase().families()
test_fonts = ['Times', 'Helvetica', 'Arial', deepcopy(plotvars.font)]
for font in test_fonts:
if font in fonts:
plotvars.font = font
custom_font = QFont(plotvars.font, plotvars.fontsize)
self.window().setFont(custom_font)
file.setFont(custom_font)
edit.setFont(custom_font)
setup.setFont(custom_font)
view.setFont(custom_font)
help.setFont(custom_font)
# Set mono font for field titles and field list
test_fonts = ['Times', 'Helvetica', 'Courier', 'Menlo', 'Monaco', deepcopy(plotvars.font_mono)]
for font in test_fonts:
if font in fonts:
plotvars.font_mono = font
custom_font_mono = QFont(plotvars.font_mono, plotvars.fontsize)
self.field_titles.setFont(custom_font_mono)
self.fieldlist.setFont(custom_font_mono)
# Set stdout and stderr to go to EmittingStream
if not plotvars.terminal_output:
sys.stdout = EmittingStream(textWritten=self.output_terminal_written)
sys.stderr = EmittingStream(textWritten=self.output_terminal_written)
else:
sys.stdout = sys.__stdout__
sys.stderr = sys.__stderr__
# Set window size and show the window
#self.setGeometry(0, 0, 1280, 1060)
self.setWindowTitle('cfview')
# Read in the data and set widgets if file(s) are specified
if plotvars.file_selected is not None:
self.read_file(self)
self.show()
self.raise_()
def open_file(self, s):
'''Open a file dialog'''
dialog = QFileDialog()
dialog.setOption(QFileDialog.DontUseNativeDialog, True)
#dialog.setOption(QCoreApplication.AA_DontUseNativeDialogs, True)
dialog.setAcceptMode(QFileDialog.AcceptOpen)
#dialog.setNameFilters(["(*.nc *.pp)", "(*.nc)", "(*.pp)", "(*.*)"])
dialog.setNameFilters(["*.nc *.pp", "*.nc", "*.pp", "*.*"])
dialog.setFileMode(QFileDialog.ExistingFiles)
palette = QPalette()
palette.setColor(QPalette.Window, QColor(plotvars.background_colour))
palette.setColor(QPalette.Base, QColor(plotvars.background_colour))
palette.setColor(QPalette.Button, QColor(plotvars.button_colour))
palette.setColor(QPalette.ButtonText, QColor(plotvars.buttontext_colour))
palette.setColor(QPalette.Highlight, QColor(plotvars.highlight_colour))
palette.setColor(QPalette.HighlightedText, QColor(plotvars.text_colour))
palette.setColor(QPalette.Text, QColor(plotvars.text_colour))
palette.setColor(QPalette.WindowText, QColor(plotvars.windowtext_colour))
dialog.setPalette(palette)
custom_font = QFont(plotvars.font, plotvars.fontsize)
dialog.setFont(custom_font)
path = ''
if dialog.exec_() == QDialog.Accepted:
path = dialog.selectedFiles()
plotvars.file_selected = path
# Read in the data and set widgets
self.read_file(self)
def read_file(self, s):
'''Read file(s), set widget values and populate plotvars.stored'''
path = plotvars.file_selected
try:
if path != '':
f = cf.read(path)
else:
print("\nNo file selected\n")
return
except:
errstr = 'One of the files selected is not a valid, netCDF, PP or fields file or does not exist - '
for file in path:
errstr += file + ' '
print(errstr)
return
# Return if no fields are present
if len(f) == 0:
errstr = 'No fields are present in this file\n'
print(errstr)
return
plotvars.data_source_list = []
for i in np.arange(len(f)):
plotvars.data_source_list.append(plotvars.file_selected)
if f[0].get_property('featureType', False) is not False:
if f[0].featureType == 'trajectory':
self.dimension_titles.setText('Trajectory number')
self.plot_type_ComboBox.setCurrentIndex(4)
plotvars.plot_type='Trajectory'
self.dimLabel.setVisible(False)
self.reset_dimensionButton.setText('Reset Tracks')
else:
self.dimension_titles.setText('Dimension view')
self.plot_type_ComboBox.setCurrentIndex(0)
plotvars.plot_type = 'Contour'
self.dimLabel.setVisible(True)
self.reset_dimensionButton.setText('Reset Dimensions')
self.fieldlist.clear()
self.search_fieldsTextbox.clear()
plotvars.index_number = 0
plotvars.fields = f
plotvars.field_widget_indicies = None
plotvars.next_field_index = len(f)
# Set the stored values
# -1 indicates that the dimension or value is unchanged
plotvars.stored = {}
max_axes_number = 0
maximum_axis_lengths = []
if plotvars.file_selected is not None:
for i in np.arange(len(f)):
data_type = 'dim'
if f[i].get_property('featureType', False) is not False:
if f[i].featureType == 'trajectory':
data_type = 'trajectory'
axes = []
collapses =[]
collapse_values = []
if data_type == 'dim':
# Axes X, Y, Z, T and dimensioncoordinate1, dimensioncoordinate0, ax0, ax1
data_axes = Cf_funcs.find_dim_names(f[i])
axis_sizes = []
for j in np.arange(len(data_axes)):
axis_sizes.append(len(f[i].coord(data_axes[j]).array))
# ax coordinates - ax2, ax1, ax0
daxes = list(f[i].get_data_axes())
if len(data_axes) == 0 and len(daxes) > 0:
data_type = 'axis'
for j in np.arange(len(daxes)):
data_axes.append('ax' + str(j))
axis_sizes.append(f[i].domain_axis(daxes[j]).get_size())
naxes = len(data_axes)
for k in np.arange(naxes):
axes.append(-1)
collapses.append('Off')
else:
data_axes = ['tracks']
axes.append(-1)
coords = list(f[i].coords())
for mycoord in coords:
if f[i].coord(mycoord).nc_get_variable() == 'longitude':
ntracks = np.shape(f[i].auxiliary_coordinate('longitude').array)[0]
axis_sizes = [ntracks]
# Initial population of maximum_data_sizes
if len(data_axes) > max_axes_number:
max_axes_number = len(data_axes)
# Change to axes, X, Y, Z, T and dim1, dim0, ax0, ax1
for j in np.arange(len(data_axes)):
if data_axes[j][:19] == 'dimensioncoordinate':
data_axes[j] = 'dim' + data_axes[j][19:]
field_name = Cf_funcs.field_name(f[i])
field_dict = {'data_axes': data_axes, 'axis_sizes': axis_sizes,\
'axes': axes, 'collapses': collapses, 'collapse_value': False,\
'data_type': data_type, 'source': plotvars.file_selected,\
'field_name': field_name}
plotvars.stored['f' + str(i)] = field_dict
# Calculate maximum lengths of the data values in characters
# Use a minimum of 5 characters - dim0 plus a space = 5
for i in np.arange(max_axes_number):
maximum_axis_lengths.append(5)
for i in np.arange(len(f)):
myaxis_sizes = plotvars.stored['f' + str(i)]['axis_sizes']
for j in np.arange(len(myaxis_sizes)):
if len(str(myaxis_sizes[j])) > maximum_axis_lengths[j]:
maximum_axis_lengths[j] = len(str(myaxis_sizes[j]))
plotvars.maximum_axis_lengths = maximum_axis_lengths
field_widget_names, field_widget_title = Cf_funcs.fields_list(self, fields=f, order=plotvars.field_widget_listing)
self.fieldlist.addItems(list(str(w) for w in field_widget_names))
self.fieldlist.setCurrentRow(0)
self.field_titles.setText(field_widget_title)
# Set the file string in plotvars
if len(plotvars.file_selected) == 1:
plotvars.file_read_str = "'" + plotvars.file_selected[0] + "'"
else:
fstring = "['"
for i in np.arange(len(plotvars.file_selected)):
fstring += plotvars.file_selected[i] + "', '"
fstring = fstring[:-4] + "']"
plotvars.file_read_str = fstring
# Call fieldnumber to set the field number
self.fieldnumber()
# Print which file has been opened in the messages window
print('File read: ' + str(path))
def save_file(self, s):
'''Save a file using selected fields, diemsion selections and collapses'''
dialog = QFileDialog()
dialog.setAcceptMode(QFileDialog.AcceptSave)
dialog.setNameFilters(["netCDF Files (*.nc)", "All Files (*.*)"])
dialog.setOption(QFileDialog.DontUseNativeDialog, True)
#dialog.setOption(QCoreApplication.DontUseNativeDialogs, True)
#dialog.setOption(QFileDialog.AA_DontUseNativeDialogs, True)
palette = QPalette()
palette.setColor(QPalette.Window, QColor(plotvars.background_colour))
palette.setColor(QPalette.Base, QColor(plotvars.background_colour))
palette.setColor(QPalette.Button, QColor(plotvars.button_colour))
palette.setColor(QPalette.ButtonText, QColor(plotvars.buttontext_colour))
palette.setColor(QPalette.Highlight, QColor(plotvars.highlight_colour))
palette.setColor(QPalette.HighlightedText, QColor(plotvars.text_colour))
palette.setColor(QPalette.Text, QColor(plotvars.text_colour))
palette.setColor(QPalette.WindowText, QColor(plotvars.windowtext_colour))
dialog.setPalette(palette)
custom_font = QFont(plotvars.font, plotvars.fontsize)
dialog.setFont(custom_font)
path = ''
if dialog.exec_() == QDialog.Accepted:
path = dialog.selectedFiles()[0]
# Return if no file specified or if cancel has been pressed
if len(path) == 0:
return
# Assemble cf-python code to write the file
com = 'import cf\n'
com += "f = cf.read(" + plotvars.file_read_str + ")\n\n"
com += '# Create a list of fields to be saved'
com += '\nsave_fields = []\n'
# Assemble the selected field indicies from the field titles
selected = self.fieldlist.selectedItems()
indicies = []
for i in np.arange(len(selected)):
field_title = selected[i].text()
indicies.append(int(field_title.split()[0]))
save_fields = []
# Set the data file
f = plotvars.fields
# Loop over the selected fields
for index in np.arange(len(indicies)):
if plotvars.stored['f' + str(indicies[index])]['source'] == 'Changed':
com +='field index = ' + str(indicies[index]) + " - see previous code for how to change this field's properties\n"
if plotvars.stored['f' + str(indicies[index])]['source'] == 'Computed':
com +='field index = ' + str(indicies[index]) + ' - see previous code for how to compute this field\n'
if plotvars.stored['f' + str(indicies[index])]['source'] == 'Copied':
com +='field index = ' + str(indicies[index]) + ' - see previous code for how this field was copied\n'
# Form the subspace dictionary
stored = plotvars.stored['f' + str(indicies[index])]
data_axes = stored['data_axes']
data_axes_orig = deepcopy(data_axes)
for i in np.arange(len(data_axes)):
if data_axes[i][:3] == 'dim':
data_axes[i] = 'dimensioncoordinate' + data_axes[i][3:]
mycollapses = stored['collapses']
myaxes = stored['axes']
subspace_args = {}
# Find the original nx, ny, nz, nt for this field
field = f[indicies[index]]
com += 'field = f[' + str(indicies[index]) + ']\n'
for i in np.arange(len(data_axes)):
# dim_indicies = -1 means no user change to this dimension
myaxis = data_axes[i]
myaxis_orig = data_axes_orig[i]
axis_indicies = myaxes[i]
if field.coord(myaxis).T:
axis_vals = field.coord(myaxis).dtarray
else:
axis_vals = field.coord(myaxis).array
if axis_indicies != -1:
if len(axis_indicies) == 1:
subspace_args[myaxis_orig] = axis_vals[axis_vals[i][0]]
com += 'field = field.subspace(' + mydim + '=' + str(axis_vals[i][0]) + ')\n'
else:
# Check for contiguous data selection
contig = True
if max(axis_indicies) - min(axis_indicies) != len(axis_indicies) - 1:
contig = False
valmin = axis_vals[min(axis_indicies)]
valmax = axis_vals[max(axis_indicies)]
# cf-python needs ascending values for cf.wi
if valmax < valmin:
valmin, valmax = valmax, valmin
if contig:
subspace_args[data_axes[i]] = cf.wi(valmin, valmax)
com += 'field = field.subspace(' + data_axes[i] + ' = cf.wi('
com += str(valmin) + ', ' + str(valmax) + '))\n'
else:
subspace_args[data_axes[i]] = sorted(axis_indicies)
com += 'field = field.subspace(' + data_axes[i] + '= ['
for ind in np.arange(len((axis_indicies))):
com += str(sorted(axis_indicies)[ind])
if ind < len(axis_indicies) - 1:
com += ', '
com += '])\n'
# Form the collapse string
collapse_str = ''
for i in np.arange(4):
if mycollapses[i] != 'Off':
collapse_str += data_axes[i] + ': ' + mycollapses[i] + ' '
if len(collapse_str) > 0:
if collapse_str[-1] == ' ':
collapse_str = collapse_str[:-1]
# Subspace and collapse the data if required
if len(subspace_args) > 0:
field = field.subspace(**subspace_args)
if len(collapse_str) > 0:
field = field.collapse(collapse_str)
com += "field = field.collapse('" + collapse_str + "')\n"
save_fields.append(field)
com += 'save_fields.append(field)\n'
# Write the netCDF file
cf.write(save_fields, path)
# Show the cf-python code
com += '\n# Save the data\n'
com += "cf.write(save_fields, '" + path + "')"
if plotvars.code_output:
print('### Code to write the file is ###\n', com)
def plot(self, s):
'''Make a contour, vector, line or trajectory plot'''
# Reset everything to clear any previous plot settings
cfp.reset()
index = plotvars.index_number
if plotvars.plot_type == 'Contour and vector':
index = self.contour_indexComboBox.currentIndex()