In [1]:
# Embed plots in web page. No floating window.
%matplotlib inline
# svg increases resolution when you zoom in (Ctrl-+); png does not.
# Use svg format (scalable vector graphics) for plots in web page, not png
%config InlineBackend.figure_formats=['png']
In [2]:
#Copied from https://www.xormedia.com/natural-sort-order-with-zero-padding/
from sys import maxint
import re
# optional '-' to support negative numbers
_num_re = re.compile(r'-?\d+')
# number of chars in the largest possible int
_maxint_digits = len(str(maxint))
# format for zero padding positive integers
_zero_pad_int_fmt = '{{0:0{0}d}}'.format(_maxint_digits)
# / is 0 - 1, so that negative numbers will come before positive
_zero_pad_neg_int_fmt = '/{{0:0{0}d}}'.format(_maxint_digits)
def _zero_pad(match):
n = int(match.group(0))
# if n is negative, we'll use the negative format and flip the number using
# maxint so that -2 comes before -1, ...
return _zero_pad_int_fmt.format(n) \
if n > -1 else _zero_pad_neg_int_fmt.format(n + maxint)
def zero_pad_numbers(s):
return _num_re.sub(_zero_pad, s)
In [3]:
import matplotlib.pyplot as plt
from matplotlib.patches import Polygon, PathPatch, Patch
from matplotlib.collections import PatchCollection
from mpl_toolkits.basemap import Basemap
from datetime import datetime, timedelta
from glob import glob
from itertools import cycle
import sys, json, os
import numpy as np
from hagelslag.data import ModelOutput
from netCDF4 import Dataset
from mysavfig import mysavfig
plt.rcParams.update({'mathtext.default': 'regular'})
def read_geojson(filename):
"""
Reads a geojson file created from an STObject and returns python data object.
:param filename: Name of the geojson file
:return: data
"""
json_file = open(filename)
data = json.load(json_file)
json_file.close()
return data
def load_json_tracks(path, run_date, member, model_format):
storm_tracks = []
search_str = path + run_date.strftime("%Y%m%d/") + member + "/" + model_format + "*.json"
model_files = sorted(glob(search_str), key=zero_pad_numbers)
if not model_files:
print "search str=",search_str
print "path=",path
print "run_date=",run_date
print "member=",member
print "model_format=",model_format
old_mtime = 0
for model_file in model_files:
# Check if modification time is earlier than previous file.
# This indicates an older run still cluttering the directory.
mtime = os.path.getmtime(model_file)
if mtime < old_mtime:
print model_file, mtime, "was modified before", old_model_file, old_mtime
print "an older run may be cluttering "+search_str
sys.exit(0)
storm_tracks.append(read_geojson(model_file))
old_mtime = mtime
old_model_file = model_file
return storm_tracks
def add_basemap(ax):
m = Basemap(resolution="i", # "c"< "l"< "i" <"h"
llcrnrlon=-100.,
urcrnrlon=-77.5,
llcrnrlat=24.5,
urcrnrlat=37.,
projection='lcc', lat_1=32., lat_0=32., lon_0=-90, ax=ax)
m.drawstates()
m.drawcoastlines(linewidth=0.5)
parallels = np.arange(0.,81.,1.)
m.drawparallels(parallels,labels=[True,False,False,False],linewidth=0.5)
meridians = np.arange(0.,351.,2.)
m.drawmeridians(meridians,labels=[False,False,False,True],linewidth=0.5)
return m
members = ["3km_pbl1","1km_on_3km_pbl1"]
model_format = "VSE"
ensemble_name = "VSE"
ncf = Dataset("/glade/p/work/ahijevyc/hagelslag/mapfiles/"+model_format+"_mask.nc")
landmask = ncf.variables["usa_mask"][:]
ncf.close()
model_path = "/glade/scratch/ahijevyc/"+ensemble_name+"/"
odir = "/glade/p/work/ahijevyc/hagelslag/out/"
#field = "MAX_UPDRAFT_HELICITY"
fields = ["UP_HELI_MAX03_16","UP_HELI_MAX03_50"]
fields = ["WSPD10MAX_16","WSPD10MAX_16"]
#field = "HAIL2D"
#field = "REFL_1KM_AGL"
pixel_thresh = 1
levels = [25,50,75,100,125,150,175,200,250,300,400]
dates = [datetime(2005, 1,13,12),
datetime(2005,12,28,12),
datetime(2006, 1,13,12),
datetime(2007, 1, 4,12),
datetime(2007, 1, 7,12),
datetime(2007, 2,12,12),
datetime(2007, 2,13,12),
datetime(2007, 2,24,12),
datetime(2008, 2,12,12),
datetime(2008, 2,16,12),
datetime(2008, 2,17,12),
datetime(2008, 2,25,12),
datetime(2008,12,9,12),
datetime(2009, 2,18,12),
datetime(2009,12,24,12),
datetime(2010, 1,20,12),
datetime(2010,12,31,12),
datetime(2011, 2,28,12),
datetime(2011,12,22,12),
datetime(2012, 1,22,12),
datetime(2012, 1,25,12)]
dates = [ datetime(2009,12,24,12) ]
for run_date in dates:
#if run_date <= datetime(2008,2,25,12):continue
rows = len(members)+1
fig, ax = plt.subplots(rows, figsize=(8.5,5*rows))
color_list = cycle(["violet", "green", "cyan", "blue", "purple", "darkgreen", "teal", "royalblue"])
m = add_basemap(ax[-1])
legend_stuff = []
iax = -1
for member, field in zip(members,fields):
json_path = "/glade/scratch/ahijevyc/OBJECT_TRACK/track_data_"+ensemble_name+"_json_"+field+"/"
iax = iax+1
m = add_basemap(ax[iax])
area,isum,jsum,nsum = 0.,0.,0.,0.
model_grid = ModelOutput(ensemble_name,
member, run_date, field, run_date,
run_date+timedelta(hours=24),
model_path,
single_step=True)
model_map_file="/glade/p/work/ahijevyc/hagelslag/mapfiles/VSE.txt"
model_grid.load_map_info(model_map_file)
model_grid.data = []
#im = m.contourf(model_grid.lon, model_grid.lat, np.maximum.reduce(model_grid.data),
# levels, extend="max", cmap="YlOrRd", latlon=True)
#plt.colorbar(im, ax=ax[iax], ticks=levels)
storm_tracks = load_json_tracks(json_path, run_date, member, model_format)
if not storm_tracks:
# Used to indicate a bug, but this happens legitimately if no objects are found (e.g. 20080225 no 0-3km UH>25 m2/s2)
print "found no storm tracks for json_path=",json_path
print "run_date=",run_date
print "member=",member
print "model_format=",model_format
patches = []
for track in storm_tracks:
#print track["properties"]
# Sanity checks
if track["properties"]["ensemble_member"] != member:
print "uh oh"
if track["properties"]["ensemble_name"] != ensemble_name:
print "uh oh"
if track["properties"]["duration"] < 1:
continue
dx = track["properties"]["dx"]
print track["properties"]["id"]
lon1 = None
for feature, fhr, u, v in zip(track["features"],track["properties"]["times"],track["properties"]["u"],track["properties"]["v"]):
# Sanity check
if feature['geometry']['type'] != 'Polygon':
print 'feature geometry type is not Polygon', feature['geometry']['type']
sys.exit(0)
masks = np.array(feature["properties"]["masks"], dtype="float")
# Should probably not assume all non-zero elements are 1. But I do.
if np.sum(masks)<pixel_thresh:
print 'skipping small object, %d pixels'% np.sum(masks)
continue
thisi = np.sum(feature["properties"]["i"]*masks)
thisj = np.sum(feature["properties"]["j"]*masks)
thisn = np.sum(masks)
ij = (int(np.round(thisi/thisn)),int(np.round(thisj/thisn)))
com_lon = model_grid.lon[ij]
com_lat = model_grid.lat[ij]
if landmask[ij] != 1:
print "object not in US", com_lon, com_lat
continue
isum = isum + thisi
jsum = jsum + thisj
nsum = nsum + thisn
area = area + dx*dx*thisn/1000/1000
lonlat =np.array(feature['geometry']['coordinates'])
#print "feature geometry coordinates shape:", lonlat.shape
if lonlat.shape[1]==0:
continue
# Don't know why there's time dimension--always size 1.
lon, lat = lonlat[0,:,0], lonlat[0,:,1] # added back 1st (degenerate) time dimension
mx, my = m(lon,lat)
patches.append(Polygon(np.transpose([mx,my]), closed=True, fill=True))
lon2, lat2 = com_lon, com_lat
# label storm objects with hour
ax[iax].text(np.average(mx),np.average(my),str(fhr),fontsize=5.2)
# Draw line from previous object to this one.
if lon1 is not None:
m.drawgreatcircle(lon1,lat1,lon2,lat2,color="black")
lon1, lat1 = lon2, lat2
color = next(color_list)
ax[iax].set_title(member + " " + run_date.strftime("%Y%m%d%H")+ " " + str(area) + " km" + r'$^2$' +"\n"+field+ r'$ \geq$' +"%d pixels"%pixel_thresh)
alpha = 0.38
pc = PatchCollection(patches, color=color, alpha=alpha)
ax[iax].add_collection(pc) # Plot individual member
ax[iax].legend(handles=[Patch(color=color,alpha=alpha,label=member)],loc="upper left")
# For some reason, if I substitute the literal PatchCollection instance below with
# the variable "pc", no patches appear in any of the subplots.
# Tack on individual member to final, composite plot.
# First member is opaque; successive members are more transparent
alpha = 1-np.sqrt(float(iax)/len(members))
ax[-1].add_collection(PatchCollection(patches, color=color, alpha=alpha))
legend_stuff.append(Patch(color=color,alpha=alpha,label=member))
if nsum > 0:
# Use the average i and j indices to locate objects' centroid
ij = (np.round(isum/nsum),np.round(jsum/nsum))
m.plot(model_grid.lon[ij], model_grid.lat[ij], marker='x', color=color, markersize=60, latlon=True)
m.plot(model_grid.lon[ij], model_grid.lat[ij], marker='x', color=color, markersize=60, latlon=True,ax=ax[-1])
ax[-1].set_title(','.join(members)+ " " + run_date.strftime("%Y%m%d%H")+"\n"+'_'.join(fields)+ r'$ \geq$'+ "%d pixels"%pixel_thresh)
ax[-1].legend(handles=legend_stuff,loc="upper left")
ofile = odir + '_'.join(members) + "_" + run_date.strftime("%Y%m%d%H_") + '_'.join(fields) + ".png" # multi-row plot: 1 per member, plus 1 all-member composite.
ret = mysavfig(ofile)
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created /glade/p/work/ahijevyc/hagelslag/out/3km_pbl1_1km_on_3km_pbl1_2012012512_WSPD10MAX_16_WSPD10MAX_16.png dpi=125
/glade/apps/opt/matplotlib/1.4.3/gnu-westmere/4.8.2/lib/python2.7/site-packages/matplotlib-1.4.3-py2.7-linux-x86_64.egg/matplotlib/pyplot.py:424: RuntimeWarning: More than 20 figures have been opened. Figures created through the pyplot interface (`matplotlib.pyplot.figure`) are retained until explicitly closed and may consume too much memory. (To control this warning, see the rcParam `figure.max_open_warning`).
max_open_warning, RuntimeWarning)
In [4]:
l =ax[-1].legend(legend_stuff)
In [5]:
ax[-1].legend(patches)
Out[5]:
<matplotlib.legend.Legend at 0x2b3d88ee3450>
In [5]:
Content source: djgagne/hagelslag
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