In [2]:

    

# Load Biospytial modules and etc.
%matplotlib inline
import sys
sys.path.append('/apps')
import django
django.setup()
import pandas as pd
import matplotlib.pyplot as plt
## Use the ggplot style
plt.style.use('ggplot')


    

In [3]:

    

data = pd.read_csv("/RawDataCSV/iDiv_data_share/plotsClimateData_11092017.csv")


    

    




/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/interactiveshell.py:2717: DtypeWarning: Columns (24) have mixed types. Specify dtype option on import or set low_memory=False.
  interactivity=interactivity, compiler=compiler, result=result)

In [4]:

    

import geopandas as gpd


    

In [7]:

    

data.keys()


    

    
Out[7]:





Index([u'Unnamed: 0', u'STATECD', u'STATENM', u'STATEAB', u'COUNTYCD', u'PLOT',
       u'PLOT_ID', u'PlotIDn', u'LAT', u'LON', u'INVYR', u'N_subplot',
       u'StandAge', u'treeDensity', u'plotBA', u'plotBiomass', u'SppN',
       u'ECO_ID_U', u'ECO_CODE', u'ECO_NAME', u'ECO_NUM', u'ECODE_NAME',
       u'CLS_CODE', u'ECO_NOTES', u'WWF_REALM', u'WWF_REALM2', u'WWF_MHTNUM',
       u'WWF_MHTNAM', u'RealmMHT', u'ER_UPDATE', u'ER_DATE_U', u'ER_RATION',
       u'SOURCEDATA', u'ECOR', u'AnnualMeanPrec', u'TempSeason', u'AnnualPrec',
       u'PrecSeason', u'AET', u'lon', u'lat'],
      dtype='object')

In [10]:

    

gpd.GeoDataFrame?


    

In [11]:

    

geod = gpd.GeoDataFrame(data)


    

    
Out[11]:






  

    

      

      
Unnamed: 0
      
STATECD
      
STATENM
      
STATEAB
      
COUNTYCD
      
PLOT
      
PLOT_ID
      
PlotIDn
      
LAT
      
LON
      
...
      
ER_RATION
      
SOURCEDATA
      
ECOR
      
AnnualMeanPrec
      
TempSeason
      
AnnualPrec
      
PrecSeason
      
AET
      
lon
      
lat
    
  
  

    

      
0
      
1
      
1
      
Alabama
      
AL
      
1
      
3
      
1_1_3
      
3
      
32.602260
      
-86.476329
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.658865
      
718.992591
      
1413
      
21.577757
      
1044.0
      
-86.476329
      
32.602260
    
    

      
1
      
2
      
1
      
Alabama
      
AL
      
1
      
7
      
1_1_7
      
7
      
32.548292
      
-86.633541
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.499334
      
722.630181
      
1409
      
21.034854
      
1047.0
      
-86.633541
      
32.548292
    
    

      
2
      
3
      
1
      
Alabama
      
AL
      
1
      
12
      
1_1_12
      
11
      
32.693874
      
-86.424075
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.322198
      
725.387013
      
1439
      
21.317879
      
1044.0
      
-86.424075
      
32.693874
    
    

      
3
      
4
      
1
      
Alabama
      
AL
      
1
      
15
      
1_1_15
      
13
      
32.557749
      
-86.477435
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.658865
      
718.992591
      
1413
      
21.577757
      
1040.0
      
-86.477435
      
32.557749
    
    

      
4
      
5
      
1
      
Alabama
      
AL
      
1
      
16
      
1_1_16
      
14
      
32.474320
      
-86.785024
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.920864
      
715.418624
      
1368
      
21.251447
      
1040.0
      
-86.785024
      
32.474320
    
    

      
5
      
6
      
1
      
Alabama
      
AL
      
1
      
20
      
1_1_20
      
18
      
32.385575
      
-86.793624
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.920864
      
715.418624
      
1368
      
21.251447
      
1034.0
      
-86.793624
      
32.385575
    
    

      
6
      
7
      
1
      
Alabama
      
AL
      
1
      
21
      
1_1_21
      
19
      
32.633755
      
-86.747287
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.493771
      
725.831803
      
1398
      
20.756506
      
1053.0
      
-86.747287
      
32.633755
    
    

      
7
      
8
      
1
      
Alabama
      
AL
      
1
      
25
      
1_1_25
      
23
      
32.385228
      
-86.483333
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
18.230385
      
713.867338
      
1376
      
21.776178
      
1030.0
      
-86.483333
      
32.385228
    
    

      
8
      
9
      
1
      
Alabama
      
AL
      
1
      
27
      
1_1_27
      
25
      
32.513878
      
-86.584285
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.499334
      
722.630181
      
1409
      
21.034854
      
1041.0
      
-86.584285
      
32.513878
    
    

      
9
      
10
      
1
      
Alabama
      
AL
      
1
      
46
      
1_1_46
      
40
      
32.506287
      
-86.751136
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.493771
      
725.831803
      
1398
      
20.756506
      
1044.0
      
-86.751136
      
32.506287
    
    

      
10
      
11
      
1
      
Alabama
      
AL
      
1
      
47
      
1_1_47
      
41
      
32.341720
      
-86.785581
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.920864
      
715.418624
      
1368
      
21.251447
      
1033.0
      
-86.785581
      
32.341720
    
    

      
11
      
12
      
1
      
Alabama
      
AL
      
1
      
50
      
1_1_50
      
44
      
32.469436
      
-86.486575
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
18.230385
      
713.867338
      
1376
      
21.776178
      
1032.0
      
-86.486575
      
32.469436
    
    

      
12
      
13
      
1
      
Alabama
      
AL
      
1
      
53
      
1_1_53
      
46
      
32.599499
      
-86.429499
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.658865
      
718.992591
      
1413
      
21.577757
      
1045.0
      
-86.429499
      
32.599499
    
    

      
13
      
14
      
1
      
Alabama
      
AL
      
1
      
64
      
1_1_64
      
57
      
32.346711
      
-86.505816
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
18.046698
      
713.714886
      
1370
      
21.620137
      
1030.0
      
-86.505816
      
32.346711
    
    

      
14
      
15
      
1
      
Alabama
      
AL
      
1
      
65
      
1_1_65
      
58
      
32.620641
      
-86.870002
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
17.472802
      
726.829570
      
1394
      
20.525088
      
1053.0
      
-86.870002
      
32.620641
    
    

      
15
      
16
      
1
      
Alabama
      
AL
      
3
      
3
      
1_3_3
      
64
      
30.624574
      
-87.811685
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.300364
      
639.761846
      
1691
      
19.817678
      
1223.0
      
-87.811685
      
30.624574
    
    

      
16
      
17
      
1
      
Alabama
      
AL
      
3
      
9
      
1_3_9
      
69
      
30.910634
      
-87.911595
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.160156
      
648.849315
      
1659
      
18.898880
      
1220.0
      
-87.911595
      
30.910634
    
    

      
17
      
18
      
1
      
Alabama
      
AL
      
3
      
11
      
1_3_11
      
70
      
31.107329
      
-87.835514
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
18.994667
      
655.935493
      
1631
      
18.486169
      
1209.0
      
-87.835514
      
31.107329
    
    

      
18
      
19
      
1
      
Alabama
      
AL
      
3
      
21
      
1_3_21
      
77
      
30.827385
      
-87.743657
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.006365
      
646.916936
      
1692
      
19.750294
      
1233.0
      
-87.743657
      
30.827385
    
    

      
19
      
20
      
1
      
Alabama
      
AL
      
3
      
29
      
1_3_29
      
82
      
30.568903
      
-87.556019
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.285844
      
639.298778
      
1676
      
20.595675
      
1204.0
      
-87.556019
      
30.568903
    
    

      
20
      
21
      
1
      
Alabama
      
AL
      
3
      
32
      
1_3_32
      
84
      
31.106793
      
-87.691191
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
18.724844
      
662.706571
      
1644
      
18.736410
      
1213.0
      
-87.691191
      
31.106793
    
    

      
21
      
22
      
1
      
Alabama
      
AL
      
3
      
46
      
1_3_46
      
90
      
31.153125
      
-87.941087
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
18.994667
      
655.935493
      
1631
      
18.486169
      
1201.0
      
-87.941087
      
31.153125
    
    

      
22
      
23
      
1
      
Alabama
      
AL
      
3
      
50
      
1_3_50
      
93
      
30.512405
      
-87.527604
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.285844
      
639.298778
      
1676
      
20.595675
      
1192.0
      
-87.527604
      
30.512405
    
    

      
23
      
24
      
1
      
Alabama
      
AL
      
3
      
54
      
1_3_54
      
95
      
31.011483
      
-87.838071
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
18.994667
      
655.935493
      
1631
      
18.486169
      
1218.0
      
-87.838071
      
31.011483
    
    

      
24
      
25
      
1
      
Alabama
      
AL
      
3
      
68
      
1_3_68
      
104
      
30.784826
      
-87.797096
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.006365
      
646.916936
      
1692
      
19.750294
      
1231.0
      
-87.797096
      
30.784826
    
    

      
25
      
26
      
1
      
Alabama
      
AL
      
3
      
76
      
1_3_76
      
108
      
30.962482
      
-87.852304
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.160156
      
648.849315
      
1659
      
18.898880
      
1221.0
      
-87.852304
      
30.962482
    
    

      
26
      
27
      
1
      
Alabama
      
AL
      
3
      
78
      
1_3_78
      
110
      
31.227792
      
-87.777660
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
18.724542
      
668.365948
      
1598
      
18.669643
      
1194.0
      
-87.777660
      
31.227792
    
    

      
27
      
28
      
1
      
Alabama
      
AL
      
3
      
81
      
1_3_81
      
113
      
30.870260
      
-87.733493
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
18.834052
      
653.362024
      
1678
      
19.590974
      
1231.0
      
-87.733493
      
30.870260
    
    

      
28
      
29
      
1
      
Alabama
      
AL
      
3
      
84
      
1_3_84
      
115
      
31.196096
      
-87.631524
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
18.460552
      
669.891546
      
1601
      
18.312511
      
1202.0
      
-87.631524
      
31.196096
    
    

      
29
      
30
      
1
      
Alabama
      
AL
      
3
      
85
      
1_3_85
      
116
      
30.693417
      
-87.792019
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Conifer Forests
      
19.006365
      
646.916936
      
1692
      
19.750294
      
1230.0
      
-87.792019
      
30.693417
    
    

      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
      
...
    
    

      
36815
      
36841
      
55
      
Wisconsin
      
WI
      
139
      
20013
      
55_139_20013
      
156543
      
44.005539
      
-88.679883
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
7.260365
      
1108.505050
      
786
      
38.217657
      
654.0
      
-88.679883
      
44.005539
    
    

      
36816
      
36842
      
55
      
Wisconsin
      
WI
      
139
      
20058
      
55_139_20058
      
156545
      
43.998038
      
-88.755331
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
7.164750
      
1107.269609
      
790
      
38.533905
      
661.0
      
-88.755331
      
43.998038
    
    

      
36817
      
36843
      
55
      
Wisconsin
      
WI
      
139
      
20167
      
55_139_20167
      
156546
      
44.236548
      
-88.520169
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.935885
      
1108.396337
      
783
      
38.202941
      
659.0
      
-88.520169
      
44.236548
    
    

      
36818
      
36844
      
55
      
Wisconsin
      
WI
      
141
      
20044
      
55_141_20044
      
156557
      
44.284849
      
-89.926944
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.801469
      
1140.398093
      
815
      
44.347439
      
694.0
      
-89.926944
      
44.284849
    
    

      
36819
      
36845
      
55
      
Wisconsin
      
WI
      
141
      
20053
      
55_141_20053
      
156561
      
44.360807
      
-90.275293
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
5.986812
      
1136.289426
      
839
      
44.876172
      
697.0
      
-90.275293
      
44.360807
    
    

      
36820
      
36846
      
55
      
Wisconsin
      
WI
      
141
      
20081
      
55_141_20081
      
156566
      
44.541150
      
-89.904645
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
5.834990
      
1141.028737
      
824
      
45.040813
      
701.0
      
-89.904645
      
44.541150
    
    

      
36821
      
36847
      
55
      
Wisconsin
      
WI
      
141
      
20084
      
55_141_20084
      
156568
      
44.529212
      
-90.131815
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
5.768531
      
1147.732404
      
834
      
45.689294
      
701.0
      
-90.131815
      
44.529212
    
    

      
36822
      
36848
      
55
      
Wisconsin
      
WI
      
141
      
20130
      
55_141_20130
      
156581
      
44.328047
      
-89.773745
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.671948
      
1138.598423
      
815
      
44.571311
      
694.0
      
-89.773745
      
44.328047
    
    

      
36823
      
36849
      
55
      
Wisconsin
      
WI
      
141
      
20143
      
55_141_20143
      
156582
      
44.286563
      
-89.973917
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.801469
      
1140.398093
      
815
      
44.347439
      
691.0
      
-89.973917
      
44.286563
    
    

      
36824
      
36850
      
55
      
Wisconsin
      
WI
      
141
      
20173
      
55_141_20173
      
156586
      
44.393739
      
-90.110988
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.156490
      
1141.859358
      
828
      
44.915918
      
696.0
      
-90.110988
      
44.393739
    
    

      
36825
      
36851
      
55
      
Wisconsin
      
WI
      
141
      
20201
      
55_141_20201
      
156592
      
44.315250
      
-90.054372
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.557719
      
1122.433089
      
821
      
44.678805
      
692.0
      
-90.054372
      
44.315250
    
    

      
36826
      
36852
      
55
      
Wisconsin
      
WI
      
141
      
20219
      
55_141_20219
      
156596
      
44.291181
      
-90.092533
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.557719
      
1122.433089
      
821
      
44.678805
      
693.0
      
-90.092533
      
44.291181
    
    

      
36827
      
36853
      
55
      
Wisconsin
      
WI
      
141
      
20222
      
55_141_20222
      
156597
      
44.404072
      
-89.748225
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.528260
      
1141.610364
      
813
      
44.397223
      
695.0
      
-89.748225
      
44.404072
    
    

      
36828
      
36854
      
55
      
Wisconsin
      
WI
      
141
      
20252
      
55_141_20252
      
156602
      
44.523927
      
-90.183388
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
5.615729
      
1142.890886
      
842
      
46.013819
      
702.0
      
-90.183388
      
44.523927
    
    

      
36829
      
36855
      
55
      
Wisconsin
      
WI
      
141
      
20263
      
55_141_20263
      
156603
      
44.279302
      
-90.155504
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.557719
      
1122.433089
      
821
      
44.678805
      
693.0
      
-90.155504
      
44.279302
    
    

      
36830
      
36856
      
55
      
Wisconsin
      
WI
      
141
      
20271
      
55_141_20271
      
156605
      
44.388963
      
-90.223114
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
5.986812
      
1136.289426
      
839
      
44.876172
      
697.0
      
-90.223114
      
44.388963
    
    

      
36831
      
36857
      
55
      
Wisconsin
      
WI
      
141
      
20277
      
55_141_20277
      
156608
      
44.370275
      
-90.102854
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.156490
      
1141.859358
      
828
      
44.915918
      
696.0
      
-90.102854
      
44.370275
    
    

      
36832
      
36858
      
55
      
Wisconsin
      
WI
      
141
      
20303
      
55_141_20303
      
156613
      
44.253966
      
-90.032898
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.557719
      
1122.433089
      
821
      
44.678805
      
691.0
      
-90.032898
      
44.253966
    
    

      
36833
      
36859
      
55
      
Wisconsin
      
WI
      
141
      
20313
      
55_141_20313
      
156615
      
44.504710
      
-90.175232
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
5.615729
      
1142.890886
      
842
      
46.013819
      
701.0
      
-90.175232
      
44.504710
    
    

      
36834
      
36860
      
55
      
Wisconsin
      
WI
      
141
      
20319
      
55_141_20319
      
156616
      
44.651950
      
-89.868171
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
5.834990
      
1141.028737
      
824
      
45.040813
      
701.0
      
-89.868171
      
44.651950
    
    

      
36835
      
36861
      
55
      
Wisconsin
      
WI
      
141
      
20328
      
55_141_20328
      
156622
      
44.442028
      
-89.811739
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.528260
      
1141.610364
      
813
      
44.397223
      
694.0
      
-89.811739
      
44.442028
    
    

      
36836
      
36862
      
55
      
Wisconsin
      
WI
      
141
      
20329
      
55_141_20329
      
156623
      
44.376466
      
-89.854789
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.319188
      
1141.978175
      
822
      
44.159047
      
693.0
      
-89.854789
      
44.376466
    
    

      
36837
      
36863
      
55
      
Wisconsin
      
WI
      
141
      
20380
      
55_141_20380
      
156636
      
44.399949
      
-89.913148
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.319188
      
1141.978175
      
822
      
44.159047
      
697.0
      
-89.913148
      
44.399949
    
    

      
36838
      
36864
      
55
      
Wisconsin
      
WI
      
141
      
20381
      
55_141_20381
      
156637
      
44.417291
      
-90.098826
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.156490
      
1141.859358
      
828
      
44.915918
      
696.0
      
-90.098826
      
44.417291
    
    

      
36839
      
36865
      
55
      
Wisconsin
      
WI
      
141
      
20382
      
55_141_20382
      
156638
      
44.386097
      
-90.052550
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.156490
      
1141.859358
      
828
      
44.915918
      
697.0
      
-90.052550
      
44.386097
    
    

      
36840
      
36866
      
55
      
Wisconsin
      
WI
      
141
      
20384
      
55_141_20384
      
156639
      
44.316655
      
-90.122631
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.557719
      
1122.433089
      
821
      
44.678805
      
693.0
      
-90.122631
      
44.316655
    
    

      
36841
      
36867
      
55
      
Wisconsin
      
WI
      
141
      
20403
      
55_141_20403
      
156643
      
44.423240
      
-90.027616
      
...
      
Yes/August2003/LSotomayor / J. Slaats/July2003
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.156490
      
1141.859358
      
828
      
44.915918
      
697.0
      
-90.027616
      
44.423240
    
    

      
36842
      
36868
      
55
      
Wisconsin
      
WI
      
141
      
20404
      
55_141_20404
      
156644
      
44.366777
      
-89.726969
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.528260
      
1141.610364
      
813
      
44.397223
      
693.0
      
-89.726969
      
44.366777
    
    

      
36843
      
36869
      
55
      
Wisconsin
      
WI
      
141
      
20405
      
55_141_20405
      
156645
      
44.313614
      
-90.237374
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.396365
      
1134.578026
      
832
      
44.349472
      
698.0
      
-90.237374
      
44.313614
    
    

      
36844
      
36870
      
55
      
Wisconsin
      
WI
      
141
      
20406
      
55_141_20406
      
156646
      
44.261186
      
-89.746097
      
...
      
NA / D. Dorfman/ECO2001
      
Bailey, R, modified by TNC. 2004. Ecoregions o...
      
Temperate Broadleaf and Mixed Forests
      
6.671948
      
1138.598423
      
815
      
44.571311
      
688.0
      
-89.746097
      
44.261186
    
  

36845 rows × 41 columns

In [ ]:

    




    

In [ ]:

    




    

In [ ]:

    




    

In [ ]:

    




    

In [76]:

    

fig = plt.figure(figsize=(16,10), dpi= 80, facecolor='w', edgecolor='w')
plt.rcParams['axes.facecolor'] = 'white'
plt.scatter(data.lon,data.lat,c=data.AET,cmap=plt.cm.Greens,edgecolors='')
plt.title("Evapotranspiration")
plt.colorbar()


    

    
Out[76]:





<matplotlib.colorbar.Colorbar at 0x7f2d8a8f4690>






    

In [4]:

    

fig = plt.figure(figsize=(16,10), dpi= 80, facecolor='w', edgecolor='w')
plt.scatter(data.lon,data.lat,c=data.StandAge,edgecolors='',cmap=plt.cm.BrBG)
plt.title("Stand Age")
plt.colorbar()


    

    
Out[4]:





<matplotlib.colorbar.Colorbar at 0x7f2f6be15c10>






    

In [77]:

    

fig = plt.figure(figsize=(16,10), dpi= 80, facecolor='w', edgecolor='w')
plt.scatter(data.lon,data.lat,c=data.SppN,edgecolors='')
plt.title("Species Richness")
plt.colorbar()


    

    
Out[77]:





<matplotlib.colorbar.Colorbar at 0x7f2d8a7d2c10>






    

In [6]:

    

fig = plt.figure(figsize=(16,10), dpi= 80, facecolor='w', edgecolor='w')
plt.scatter(data.lon,data.lat,c=data.plotBiomass,edgecolors='',cmap=plt.cm.Greens)
plt.title("Plot Biomass")
plt.colorbar()


    

    
Out[6]:





<matplotlib.colorbar.Colorbar at 0x7f2f6824cf50>






    

In [7]:

    

plt.scatter(data.AET,data.SppN)


    

    
Out[7]:





<matplotlib.collections.PathCollection at 0x7f2f680745d0>






    

In [70]:

    

len(data.lon)
#X = data[['AET','StandAge','lon','lat']]
X = data[['SppN','lon','lat']]
#X = data[['lon','lat']]
Y = data['plotBiomass']
#Y = data[['SppN']]
## First step in spatial autocorrelation
#Y = pd.DataFrame(np.zeros(len(Y)))
## Let´s take a small sample only for the spatial autocorrelation
import numpy as np
sample_size = 2000
randindx = np.random.randint(0,X.shape[0],sample_size)
nX = X.loc[randindx]
nY = Y.loc[randindx]


    

In [72]:

    

# Import GPFlow
import GPflow as gf
k = gf.kernels.Matern12(2, lengthscales=1, active_dims = [1,2] )


    

In [73]:

    

model = gf.gpr.GPR(nX.as_matrix(),nY.as_matrix().reshape(sample_size,1).astype(float),k)


    

In [74]:

    

model.likelihood.variance = 10
model.optimize()


    

    
Out[74]:





      fun: 20596.08632030103
 hess_inv: <3x3 LbfgsInvHessProduct with dtype=float64>
      jac: array([  5.78522765e-08,  -1.91589997e-07,  -7.37748439e-06])
  message: 'CONVERGENCE: NORM_OF_PROJECTED_GRADIENT_<=_PGTOL'
     nfev: 71
      nit: 60
   status: 0
  success: True
        x: array([  1244635.29196167,  15585310.29301777,  38550013.84500826])

In [94]:

    

Nn = 300
predicted_x = np.linspace(min(data.lon),max(data.lon),Nn)
predicted_y = np.linspace(min(data.lat),max(data.lat),Nn)
Xx, Yy = np.meshgrid(predicted_x,predicted_y)
## Fake richness
fake_sp_rich = np.ones(len(Xx.ravel()))
predicted_coordinates = np.vstack([ Xx.ravel(), Yy.ravel()]).transpose()
predicted_coordinates = np.vstack([data.SppN, data.lon, data.lat]).transpose()


    

In [95]:

    

predicted_coordinates.shape


    

    
Out[95]:





(36845, 3)

In [96]:

    

means,variances = model.predict_y(predicted_coordinates)


    

In [98]:

    

plt.scatter(data.SppN,means)


    

    
Out[98]:





<matplotlib.collections.PathCollection at 0x7f2d5ad352d0>






    

In [67]:

    

fig = plt.figure(figsize=(16,10), dpi= 80, facecolor='w', edgecolor='w')
plt.pcolor(Xx,Yy,means.reshape(Nn,Nn),cmap=plt.cm.Greens)
plt.colorbar()
plt.scatter(nX.lon,nX.lat,c=nY,edgecolors='',cmap=plt.cm.Greys)
plt.title("Mean Biomass")
plt.colorbar()


    

    
Out[67]:





<matplotlib.colorbar.Colorbar at 0x7f2e55148b10>






    

In [100]:

    

fig = plt.figure(figsize=(16,10), dpi= 80, facecolor='w', edgecolor='w')
plt.pcolor(Xx,Yy,variances.reshape(Nn,Nn),cmap=plt.cm.Blues)
plt.colorbar()
plt.scatter(nX.lon,nX.lat,c=nY,edgecolors='',cmap=plt.cm.Greys)
plt.title("Variance")
plt.colorbar()


    

    





ValueErrorTraceback (most recent call last)
<ipython-input-100-b0554ae360fc> in <module>()
      1 fig = plt.figure(figsize=(16,10), dpi= 80, facecolor='w', edgecolor='w')
----> 2 plt.pcolor(Xx,Yy,variances.reshape(Nn,Nn),cmap=plt.cm.Blues)
      3 plt.colorbar()
      4 plt.scatter(nX.lon,nX.lat,c=nY,edgecolors='',cmap=plt.cm.Greys)
      5 plt.title("Variance")

ValueError: total size of new array must be unchanged





    






<matplotlib.figure.Figure at 0x7f2d5ac8c7d0>

In [83]:

    

predicted_coordinates = np.vstack([data.SppN, data.lon, data.lat])


    

In [84]:

    

means,variances = model.predict_y(predicted_coordinates)


    

In [80]:

    

plt.plot(predicted_coordinates)


    

    
Out[80]:





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 <matplotlib.lines.Line2D at 0x7f2d8a48cd90>,
 <matplotlib.lines.Line2D at 0x7f2d8a48ced0>,
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Traceback (most recent call last):

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/ipykernel/ipkernel.py", line 175, in do_execute
    shell.run_cell(code, store_history=store_history, silent=silent)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/interactiveshell.py", line 2725, in run_cell
    self.events.trigger('post_execute')

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/events.py", line 74, in trigger
    func(*args, **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/ipykernel/pylab/backend_inline.py", line 113, in flush_figures
    return show(True)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/ipykernel/pylab/backend_inline.py", line 36, in show
    display(figure_manager.canvas.figure)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/display.py", line 164, in display
    format_dict, md_dict = format(obj, include=include, exclude=exclude)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/formatters.py", line 145, in format
    data = formatter(obj)

  File "<decorator-gen-9>", line 2, in __call__

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/formatters.py", line 190, in catch_format_error
    r = method(self, *args, **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/formatters.py", line 307, in __call__
    return printer(obj)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/pylabtools.py", line 227, in <lambda>
    png_formatter.for_type(Figure, lambda fig: print_figure(fig, 'png', **kwargs))

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/IPython/core/pylabtools.py", line 119, in print_figure
    fig.canvas.print_figure(bytes_io, **kw)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/backend_bases.py", line 2180, in print_figure
    **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/backends/backend_agg.py", line 527, in print_png
    FigureCanvasAgg.draw(self)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/backends/backend_agg.py", line 474, in draw
    self.figure.draw(self.renderer)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/artist.py", line 61, in draw_wrapper
    draw(artist, renderer, *args, **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/figure.py", line 1159, in draw
    func(*args)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/artist.py", line 61, in draw_wrapper
    draw(artist, renderer, *args, **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/axes/_base.py", line 2324, in draw
    a.draw(renderer)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/artist.py", line 61, in draw_wrapper
    draw(artist, renderer, *args, **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/lines.py", line 731, in draw
    tpath, affine = transf_path.get_transformed_path_and_affine()

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/transforms.py", line 2712, in get_transformed_path_and_affine
    return self._transformed_path, self.get_affine()

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/transforms.py", line 2722, in get_affine
    return self._transform.get_affine()

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/transforms.py", line 2374, in get_affine
    return Affine2D(np.dot(self._b.get_affine().get_matrix(),

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/transforms.py", line 2375, in get_affine
    self._a.get_affine().get_matrix()))

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/transforms.py", line 1796, in __init__
    Affine2DBase.__init__(self, **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/transforms.py", line 1641, in __init__
    Transform.__init__(self, *args, **kwargs)

  File "/opt/conda/envs/biospytial/lib/python2.7/site-packages/matplotlib/transforms.py", line 98, in __init__
    self._parents = WeakValueDictionary()

  File "/opt/conda/envs/biospytial/lib/python2.7/weakref.py", line 65, in __init__
    self._iterating = set()

KeyboardInterrupt

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ndata = pd.concat([nY,nX],axis=1)
plt.scatter(ndata.lon,ndata.lat,c=ndata.SppN)
plt.title("Species Richness")
plt.colorbar()


    

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import statsmodels.api as sm


    

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glm_binom = sm.GLM(data, data.exog, family=sm.families.Binomial())
res = glm_binom.fit()
print(res.summary())


    

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from sketches.models import Country
us = Country.objects.filter(name__contains="United States")[1]


    

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from raster_api.models import ETOPO1
from raster_api.tools import RasterData


    

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usrast = RasterData(ETOPO1,us.geom)


    

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chiqui = usrast.getRaster()


    

In [ ]:

    

usrast.display_field()


    

In [ ]:

    

usrast = RasterField


    

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