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script-paper-figures-all.py
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#To edit with Vim, use this
#:set tabstop=8 expandtab shiftwidth=4 softtabstop=4
##macOS paths on local machine
import os
import sys
import re
import numpy as np
import datetime
import calendar
#This defines the plot parameters
import getfilenames
#Which layers
which_layers = [1]
# Set the run name to label the images
mifiles = getfilenames.set_which_mifiles()
sfiles = getfilenames.set_which_sfiles()
numfiles = len(sfiles)
numfiles = numfiles
print("Processing",numfiles,"files")
#istart and end, you can change it
istart = 0
#iend = numfiles
#iend = 667
iend = 10
#The directory where the mi_XXXX.nc files are located. The slash at the end of the directory name is required.
#EPA_directory = "/Users/lllowe/MacbookProArchiveMay2022/ORD/CURRENT_TEST/output.0/"
#EPA_directory = "/Users/lllowe/Images/new_plots/"
EPA_directory = "/rsstu/users/l/lllowe/ord/JamesPaper07-2022/mis_2010/dates_output/"
Station_directory = "/rsstu/users/l/lllowe/ord/JamesPaper07-2022/stations2010/"
#The directory to write images to. The slash at the end of the directory name is required.
#IMGS_DIR = "/rsstu/users/l/lllowe/ord/JamesPaper07-2022/Images-2010/Layer=1/" #+ thischunk[i]
IMGS_DIR = "/rsstu/users/l/lllowe/ord/JamesPaper07-2022/Images-2010/Layer=20/" #+ thischunk[i]
#Check that all the directories exist
if not os.path.exists(EPA_directory):
sys.exit("The directory " + EPA_directory + " does not exist. Check definition of EPA_directory in setpaths.py. Exiting.")
#Create a directory for images if one doesn't exist.
#Note, existing files will be overwritten
if not os.path.exists(IMGS_DIR):
os.makedirs(IMGS_DIR)
#don't make another annotation
notime = 0
#for file_prefix_epa in sfiles:
for i in range(istart,iend):
EPA_database = EPA_directory + mifiles[i]
#IMGS_NAME = file_prefix_epa + "_Layer=" + str(LAYER)
STATIONS_NAME = Station_directory + sfiles[i]
for x in which_layers:
LAYER = x
url = mifiles[i]
url = re.sub('\.nc','',url)
IMGS_NAME = url + "_Layer=" + str(LAYER)
#print(LAYER)
print(IMGS_NAME)
#sys.exit()
#Open file
OpenDatabase(EPA_database,0)
t_start = calendar.timegm(datetime.datetime(1858, 11, 17, 0, 0, 0).timetuple())
if(notime == 0):
text2D_timestamp = CreateAnnotationObject("Text2D")
notime = 1
text2D_timestamp.position = (0.78,0.9)
text2D_timestamp.height = 0.020
m = GetMetaData(EPA_database)
istate = 0
tcur = m.times[istate]*86400. + t_start
ts = datetime.datetime.utcfromtimestamp(tcur).strftime('%m-%d-%Y %H:%M')
timestamp = ts
text2D_timestamp.text = timestamp
#Get metadata for database
m = GetMetaData(EPA_database)
#Annotations on 2D plot
AnnotationAtts = AnnotationAttributes()
AnnotationAtts.userInfoFlag = 0
AnnotationAtts.databaseInfoFlag = 0
AnnotationAtts.axes3D.triadFlag = 0
AnnotationAtts.legendInfoFlag = 0
AnnotationAtts.axes2D.visible = 0
AnnotationAtts.axes2D.xAxis.title.visible = 0
AnnotationAtts.axes2D.yAxis.title.visible = 0
AnnotationAtts.axes2D.xAxis.label.visible = 0
AnnotationAtts.axes2D.yAxis.label.visible = 0
AnnotationAtts.axes2D.tickAxes = AnnotationAtts.axes2D.Off
# AnnotationAtts.axes2D.lineWidth = 100
# AnnotationAtts.gradientBackgroundStyle = AnnotationAtts.Radial
# AnnotationAtts.gradientColor1 = (128, 0, 0, 255)
# AnnotationAtts.gradientColor2 = (153, 153, 153, 255)
AnnotationAtts.backgroundColor = (0, 0, 0, 255)
AnnotationAtts.foregroundColor = (255, 255, 255, 255)
AnnotationAtts.gradientBackgroundStyle = AnnotationAtts.Radial # TopToBottom, BottomToTop, LeftToRight, RightToLeft, Radial
AnnotationAtts.gradientColor1 = (0, 51, 0, 255)
AnnotationAtts.gradientColor2 = (102, 102, 102, 255)
AnnotationAtts.backgroundMode = AnnotationAtts.Gradient # Solid, Gradient, Image, ImageSphere
AnnotationAtts.backgroundMode = AnnotationAtts.Gradient
SetAnnotationAttributes(AnnotationAtts)
#Finished setting annotation
#Add pseudocolor plot and set attributes
PLOT_VAR = "TP"
AddPlot("Pseudocolor", PLOT_VAR, 1, 1)
SetActivePlots(0)
#Atts
PseudocolorAtts = PseudocolorAttributes()
PseudocolorAtts.minFlag = 1
PseudocolorAtts.maxFlag = 1
PseudocolorAtts.colorTableName = "caleblack"
PseudocolorAtts.scaling = PseudocolorAtts.Skew # Linear, Log, Skew
PseudocolorAtts.skewFactor = 1e-05
PseudocolorAtts.min = 0.001
PseudocolorAtts.max = 0.1
PseudocolorAtts.legendFlag = 0
SetPlotOptions(PseudocolorAtts)
#SetAtts
DrawPlots()
#Just one layer
TurnMaterialsOff()
layer_string = "Layer " + str(LAYER)
TurnMaterialsOn(layer_string)
DrawPlots()
#Project to 2D
AddOperator("Project", 1)
DrawPlots()
#Resize plot and window
View2DAtts = View2DAttributes()
View2DAtts.windowCoords = (521942, 566839, 4.75634e+06, 4.79812e+06)
View2DAtts.viewportCoords = (0, 1, 0, 1)
View2DAtts.fullFrameActivationMode = View2DAtts.Auto # On, Off, Auto
View2DAtts.fullFrameAutoThreshold = 100
View2DAtts.xScale = View2DAtts.LINEAR # LINEAR, LOG
View2DAtts.yScale = View2DAtts.LINEAR # LINEAR, LOG
View2DAtts.windowValid = 1
SetView2D(View2DAtts)
# End spontaneous state
#Add shoreline
AddPlot("Subset", "Bathymetry_Mesh", 1, 1)
SetActivePlots(1)
SubsetAtts = SubsetAttributes()
SubsetAtts.colorType = SubsetAtts.ColorBySingleColor # ColorBySingleColor, ColorByMultipleColors, ColorByColorTable
SubsetAtts.legendFlag = 0
SubsetAtts.lineWidth = 2
SubsetAtts.singleColor = (0, 0, 0, 255)
SubsetAtts.subsetNames = ("Whole mesh (Bathymetry_Mesh)")
SubsetAtts.opacity = 1
SubsetAtts.wireframe = 1
SubsetAtts.pointType = SubsetAtts.Point # Box, Axis, Icosahedron, Octahedron, Tetrahedron, SphereGeometry, Point, Sphere
SubsetAtts.pointSizePixels = 2
SetPlotOptions(SubsetAtts)
DrawPlots()
#Add bathymetry
AddPlot("Contour", "h", 1, 1)
SetActivePlots(2)
ContourAtts = ContourAttributes()
ContourAtts.colorType = ContourAtts.ColorBySingleColor # ColorBySingleColor, ColorByMultipleColors, ColorByColorTable
ContourAtts.legendFlag = 0
ContourAtts.lineWidth = 1
ContourAtts.singleColor = (0, 0, 0, 255)
ContourAtts.contourValue = (10, 20, 30, 50)
ContourAtts.contourMethod = ContourAtts.Value # Level, Value, Percent
ContourAtts.scaling = ContourAtts.Linear # Linear, Log
ContourAtts.wireframe = 1
SetPlotOptions(ContourAtts)
DrawPlots()
##Add measured data points
#set file open defaults
plainTextOpenOptions = GetDefaultFileOpenOptions("PlainText")
plainTextOpenOptions['First row has variable names'] = 1
plainTextOpenOptions['Lines to skip at beginning of file'] = 0
plainTextOpenOptions['Column for X coordinate (or -1 for none)'] = 0
plainTextOpenOptions['Column for Y coordinate (or -1 for none)'] = 1
plainTextOpenOptions['Column for Z coordinate (or -1 for none)'] = 2
SetDefaultFileOpenOptions("PlainText", plainTextOpenOptions)
##Add river points
#open file, add plot
OpenDatabase("localhost:/Users/lllowe/ORD/MarkR/points.txt", 0)
AddPlot("Scatter", "Point", 1, 1)
ScatterAtts = ScatterAttributes()
ScatterAtts.var1 = "x"
ScatterAtts.var1Role = ScatterAtts.Coordinate0 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var1Scaling = ScatterAtts.Linear # Linear, Log, Skew
ScatterAtts.var2Role = ScatterAtts.Coordinate1 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var2 = "y"
ScatterAtts.var2Scaling = ScatterAtts.Linear # Linear, Log, Skew
ScatterAtts.var3Role = ScatterAtts.NONE # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var3 = "default"
ScatterAtts.var4Role = ScatterAtts.Color # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var4 = "Point"
ScatterAtts.pointSize = 700
ScatterAtts.pointSizePixels = 1
ScatterAtts.pointType = ScatterAtts.Icosahedron # Box, Axis, Icosahedron, Octahedron, Tetrahedron, SphereGeometry, Point, Sphere
ScatterAtts.scaleCube = 0
ScatterAtts.colorType = ScatterAtts.ColorBySingleColor # ColorByForegroundColor, ColorBySingleColor, ColorByColorTable
ScatterAtts.singleColor = (0, 0, 0, 255)
ScatterAtts.legendFlag = 0
SetPlotOptions(ScatterAtts)
DrawPlots()
##Add Pothoven station points
#open file, add plot
OpenDatabase("localhost:/Users/lllowe/visit-for-fvcom/pot.txt", 0)
AddPlot("Scatter", "Pot", 1, 1)
ScatterAtts = ScatterAttributes()
ScatterAtts.var1 = "X"
ScatterAtts.var1Role = ScatterAtts.Coordinate0 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var1Scaling = ScatterAtts.Linear # Linear, Log, Skew
ScatterAtts.var2Role = ScatterAtts.Coordinate1 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var2 = "Y"
ScatterAtts.var2Scaling = ScatterAtts.Linear # Linear, Log, Skew
#ScatterAtts.var3Role = ScatterAtts.NONE # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var3 = "default"
ScatterAtts.var4Role = ScatterAtts.Color # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var4 = "Pot"
ScatterAtts.pointSize = 1300
ScatterAtts.pointSizePixels = 1
ScatterAtts.pointType = ScatterAtts.Tetrahedron # Box, Axis, Icosahedron, Octahedron, Tetrahedron, SphereGeometry, Point, Sphere
ScatterAtts.scaleCube = 0
ScatterAtts.colorType = ScatterAtts.ColorBySingleColor # ColorByForegroundColor, ColorBySingleColor, ColorByColorTable
ScatterAtts.singleColor = (255, 255, 255, 255)
ScatterAtts.legendFlag = 0
SetPlotOptions(ScatterAtts)
DrawPlots()
##Add CSMI station points
#open file, add plot
OpenDatabase("/rsstu/users/l/lllowe/ord/JamesPaper07-2022/points.txt", 0)
AddPlot("Scatter", "Point", 1, 1)
ScatterAtts = ScatterAttributes()
ScatterAtts.var1 = "X"
ScatterAtts.var1Role = ScatterAtts.Coordinate0 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var1Scaling = ScatterAtts.Linear # Linear, Log, Skew
ScatterAtts.var2Role = ScatterAtts.Coordinate1 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var2 = "Y"
ScatterAtts.var2Scaling = ScatterAtts.Linear # Linear, Log, Skew
#ScatterAtts.var3Role = ScatterAtts.NONE # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var3 = "default"
ScatterAtts.var4Role = ScatterAtts.Color # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var4 = "CSMI"
ScatterAtts.pointSize = 900
ScatterAtts.pointSizePixels = 1
ScatterAtts.pointType = ScatterAtts.Box # Box, Axis, Icosahedron, Octahedron, Tetrahedron, SphereGeometry, Point, Sphere
ScatterAtts.scaleCube = 0
ScatterAtts.colorType = ScatterAtts.ColorBySingleColor # ColorByForegroundColor, ColorBySingleColor, ColorByColorTable
ScatterAtts.singleColor = (255, 255, 255, 255)
ScatterAtts.legendFlag = 0
SetPlotOptions(ScatterAtts)
DrawPlots()
#open file, add plot
OpenDatabase(STATIONS_NAME, 0)
AddPlot("Scatter", "TP", 1, 1)
ScatterAtts = ScatterAttributes()
ScatterAtts.var1 = "X"
ScatterAtts.var1Role = ScatterAtts.Coordinate0 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var1Scaling = ScatterAtts.Linear # Linear, Log, Skew
ScatterAtts.var2Role = ScatterAtts.Coordinate1 # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var2 = "Y"
ScatterAtts.var2Scaling = ScatterAtts.Linear # Linear, Log, Skew
ScatterAtts.var3Role = ScatterAtts.NONE # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var3 = "default"
ScatterAtts.var4Role = ScatterAtts.Color # Coordinate0, Coordinate1, Coordinate2, Color, NONE
ScatterAtts.var4 = "TP"
ScatterAtts.var4MinFlag = 1
ScatterAtts.var4MaxFlag = 1
ScatterAtts.var4Min = 0.001
ScatterAtts.var4Max = 0.1
ScatterAtts.var4Scaling = ScatterAtts.Skew # Linear, Log, Skew
ScatterAtts.var4SkewFactor = 1e-05
ScatterAtts.pointSize = 1100
ScatterAtts.pointSizePixels = 1
ScatterAtts.pointType = ScatterAtts.Sphere # Box, Axis, Icosahedron, Octahedron, Tetrahedron, SphereGeometry, Point, Sphere
ScatterAtts.scaleCube = 0
ScatterAtts.colorType = ScatterAtts.ColorByColorTable # ColorByForegroundColor, ColorBySingleColor, ColorByColorTable
ScatterAtts.colorTableName = "caleblack"
ScatterAtts.invertColorTable = 0
ScatterAtts.legendFlag = 0
SetPlotOptions(ScatterAtts)
DrawPlots()
#Mile marker
#If in UTM 1mile=1609
ActivateDatabase(EPA_database)
AddPlot("Contour", "y", 1, 1)
SetActivePlots(7)
DrawPlots()
ContourAtts = ContourAttributes()
ContourAtts.colorType = ContourAtts.ColorBySingleColor # ColorBySingleColor, ColorByMultipleColors, ColorByColorTable
ContourAtts.legendFlag = 0
ContourAtts.lineWidth = 5
ContourAtts.singleColor = (0, 0, 0, 255)
ContourAtts.contourValue = (4.76036e+06)
ContourAtts.contourMethod = ContourAtts.Value # Level, Value, Percent
ContourAtts.scaling = ContourAtts.Linear # Linear, Log
ContourAtts.wireframe = 0
SetPlotOptions(ContourAtts)
AddOperator("Box", 0)
BoxAtts = BoxAttributes()
BoxAtts.amount = BoxAtts.Some # Some, All
BoxAtts.minx = 554423
BoxAtts.maxx = 556032
BoxAtts.miny = 4.74736e+06
BoxAtts.maxy = 4.76736e+06
BoxAtts.minz = -1
BoxAtts.maxz = 1
SetOperatorOptions(BoxAtts, 1, 0)
DrawPlots()
#AddImage
#image = CreateAnnotationObject("Image")
#image.image = "/Users/lllowe/ORD/MarkR/Legend.png"
#image.position = (0.05, 0.5)
SaveWindowAtts = SaveWindowAttributes()
SaveWindowAtts.outputToCurrentDirectory = 0
SaveWindowAtts.outputDirectory = IMGS_DIR
SaveWindowAtts.fileName = IMGS_NAME
SaveWindowAtts.family = 0
SaveWindowAtts.format = SaveWindowAtts.PNG # BMP, CURVE, JPEG, OBJ, PNG, POSTSCRIPT, POVRAY, PPM, RGB, STL, TIFF, ULTRA, VTK, PLY, EXR
SaveWindowAtts.width = 1024
SaveWindowAtts.height = 1024
SaveWindowAtts.screenCapture = 0
SaveWindowAtts.saveTiled = 0
SaveWindowAtts.quality = 80
SaveWindowAtts.progressive = 0
SaveWindowAtts.binary = 0
SaveWindowAtts.stereo = 0
#SaveWindowAtts.compression = SaveWindowAtts.NONE # NONE, PackBits, Jpeg, Deflate, LZW
SaveWindowAtts.forceMerge = 0
SaveWindowAtts.resConstraint = SaveWindowAtts.NoConstraint # NoConstraint, EqualWidthHeight, ScreenProportions
SaveWindowAtts.pixelData = 1
SaveWindowAtts.opts.types = ()
SaveWindowAtts.opts.help = ""
SetSaveWindowAttributes(SaveWindowAtts)
SaveWindow()
DeleteAllPlots()
ClearCacheForAllEngines()
sys.exit()
#695700 of mi_0006.nc
#countors
#original vs zonal
#To edit with Vim, use this
#:set tabstop=8 expandtab shiftwidth=4 softtabstop=4
#record macro
#q<register><commands>q
#So: q a down firstchar insert tab escape q
#Then to use, @@ or 100@@