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result_weights_creation.txt
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result_weights_creation.txt
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(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/natregimes.shp HR60 99 lookup-table 1
Weights creation took 0.026614904403686523 seconds
./data/natregimes.shp 99 lookup-table 1: 0.006084918975830078 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/natregimes.shp HR60 99 lookup-table 1
Weights creation took 0.0269010066986084 seconds
./data/natregimes.shp 99 lookup-table 1: 0.006103038787841797 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/natregimes.shp HR60 99 lookup-table 1
Weights creation took 0.027131080627441406 seconds
./data/natregimes.shp 99 lookup-table 1: 0.005986213684082031 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/us-sdoh-2014.shp ep_unem 99 lookup-table 1
Weights creation took 0.9127089977264404 seconds
./data/us-sdoh-2014.shp 99 lookup-table 1: 0.1633598804473877 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/us-sdoh-2014.shp ep_unem 99 lookup-table 1
Weights creation took 0.8969571590423584 seconds
./data/us-sdoh-2014.shp 99 lookup-table 1: 0.16908478736877441 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/us-sdoh-2014.shp ep_unem 99 lookup-table 1
Weights creation took 0.9040257930755615 seconds
./data/us-sdoh-2014.shp 99 lookup-table 1: 0.16341519355773926 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/NYC_Area2010_2data.shp CE01_02 99 lookup-table 1
Weights creation took 1.2957468032836914 seconds
./data/NYC_Area2010_2data.shp 99 lookup-table 1: 0.2780590057373047 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/NYC_Area2010_2data.shp CE01_02 99 lookup-table 1
Weights creation took 1.2584800720214844 seconds
./data/NYC_Area2010_2data.shp 99 lookup-table 1: 0.2794802188873291 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/NYC_Area2010_2data.shp CE01_02 99 lookup-table 1
Weights creation took 1.2635910511016846 seconds
./data/NYC_Area2010_2data.shp 99 lookup-table 1: 0.27848196029663086 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/Chicago_parcels_points.shp EstBuild 9 lookup-table 1
Weights creation took 3.445451021194458 seconds
./data/Chicago_parcels_points.shp 9 lookup-table 1: 0.410534143447876 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/Chicago_parcels_points.shp EstBuild 9 lookup-table 1
Weights creation took 3.462280035018921 seconds
./data/Chicago_parcels_points.shp 9 lookup-table 1: 0.44209909439086914 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pygeoda.py ./data/Chicago_parcels_points.shp EstBuild 9 lookup-table 1
Weights creation took 3.6452078819274902 seconds
./data/Chicago_parcels_points.shp 9 lookup-table 1: 0.4695289134979248 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/natregimes.shp HR60 99 1
Numba not installed
Weights creation took 0.6798999309539795 seconds, with transform and remove islands it took 0.6842319965362549 seconds
./data/natregimes.shp 99 1: 0.2621009349822998 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/natregimes.shp HR60 99 1
Numba not installed
Weights creation took 0.7444601058959961 seconds, with transform and remove islands it took 0.7489898204803467 seconds
./data/natregimes.shp 99 1: 0.2676529884338379 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/natregimes.shp HR60 99 1
Numba not installed
Weights creation took 0.7191867828369141 seconds, with transform and remove islands it took 0.723599910736084 seconds
./data/natregimes.shp 99 1: 0.25806689262390137 seconds
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/us-sdoh-2014.shp ep_unem 9 1
Numba not installed
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 30 disconnected components.
There are 15 islands with ids: 6540, 6583, 7933, 19288, 23844, 33314, 35600, 38699, 39317, 53310, 58715, 58849, 69632, 70049, 70050.
warnings.warn(message)
Remove islands...
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 15 disconnected components.
warnings.warn(message)
Weights creation took 34.027106046676636 seconds, with transform and remove islands it took 35.26483392715454 seconds
^CTraceback (most recent call last):
File "perf_pysal.py", line 52, in <module>
li = esda.moran.Moran_Local(x, w, permutations=perms, n_jobs=cpu_threads, keep_simulations=False)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1040, in __init__
seed=seed,
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/crand.py", line 169, in crand
stat_func,
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/crand.py", line 263, in compute_chunk
mask,
KeyboardInterrupt
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/us-sdoh-2014.shp ep_unem 9 1
Numba not installed
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 30 disconnected components.
There are 15 islands with ids: 6540, 6583, 7933, 19288, 23844, 33314, 35600, 38699, 39317, 53310, 58715, 58849, 69632, 70049, 70050.
warnings.warn(message)
Remove islands...
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 15 disconnected components.
warnings.warn(message)
Weights creation took 34.312164068222046 seconds, with transform and remove islands it took 35.56938314437866 seconds
^CTraceback (most recent call last):
File "perf_pysal.py", line 52, in <module>
li = esda.moran.Moran_Local(x, w, permutations=perms, n_jobs=cpu_threads, keep_simulations=False)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1023, in __init__
self.Is = self.__calc(self.w, self.z)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1065, in __calc
zl = slag(w, z)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/spatial_lag.py", line 88, in lag_spatial
return w.sparse * y
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 362, in sparse
self._sparse = self._build_sparse()
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 403, in _build_sparse
row = np.array(row)
KeyboardInterrupt
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/us-sdoh-2014.shp ep_unem 9 1
Numba not installed
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 30 disconnected components.
There are 15 islands with ids: 6540, 6583, 7933, 19288, 23844, 33314, 35600, 38699, 39317, 53310, 58715, 58849, 69632, 70049, 70050.
warnings.warn(message)
Remove islands...
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 15 disconnected components.
warnings.warn(message)
Weights creation took 34.68988633155823 seconds, with transform and remove islands it took 35.934751987457275 seconds
^CTraceback (most recent call last):
File "perf_pysal.py", line 52, in <module>
li = esda.moran.Moran_Local(x, w, permutations=perms, n_jobs=cpu_threads, keep_simulations=False)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1040, in __init__
seed=seed,
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/crand.py", line 169, in crand
stat_func,
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/crand.py", line 268, in compute_chunk
larger[i] = np.sum(rstats >= observed[i])
File "<__array_function__ internals>", line 6, in sum
KeyboardInterrupt
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/Chicago_parcels_points.shp EstBuild 9 1
Numba not installed
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 73 disconnected components.
warnings.warn(message)
Weights creation took 30.992489337921143 seconds, with transform and remove islands it took 32.10184335708618 seconds
^CTraceback (most recent call last):
File "perf_pysal.py", line 52, in <module>
li = esda.moran.Moran_Local(x, w, permutations=perms, n_jobs=cpu_threads, keep_simulations=False)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1023, in __init__
self.Is = self.__calc(self.w, self.z)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1065, in __calc
zl = slag(w, z)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/spatial_lag.py", line 88, in lag_spatial
return w.sparse * y
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 362, in sparse
self._sparse = self._build_sparse()
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 398, in _build_sparse
for i, neigh_list in list(self.neighbor_offsets.items()):
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 877, in neighbor_offsets
self.__neighbors_0[j] = [id2i[neigh] for neigh in neigh_list]
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 877, in <listcomp>
self.__neighbors_0[j] = [id2i[neigh] for neigh in neigh_list]
KeyboardInterrupt
(venv) xuns-black-pro:libgeoda_paper xun$ python perf_pysal.py ./data/Chicago_parcels_points.shp EstBuild 9 1
Numba not installed
/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py:172: UserWarning: The weights matrix is not fully connected:
There are 73 disconnected components.
warnings.warn(message)
Weights creation took 31.282639265060425 seconds, with transform and remove islands it took 32.43471312522888 seconds
^CTraceback (most recent call last):
File "perf_pysal.py", line 52, in <module>
li = esda.moran.Moran_Local(x, w, permutations=perms, n_jobs=cpu_threads, keep_simulations=False)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1023, in __init__
self.Is = self.__calc(self.w, self.z)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/esda/moran.py", line 1065, in __calc
zl = slag(w, z)
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/spatial_lag.py", line 88, in lag_spatial
return w.sparse * y
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 362, in sparse
self._sparse = self._build_sparse()
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 398, in _build_sparse
for i, neigh_list in list(self.neighbor_offsets.items()):
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 877, in neighbor_offsets
self.__neighbors_0[j] = [id2i[neigh] for neigh in neigh_list]
File "/Users/xun/Github/libgeoda_paper/venv/lib/python3.6/site-packages/libpysal/weights/weights.py", line 877, in <listcomp>
self.__neighbors_0[j] = [id2i[neigh] for neigh in neigh_list]
KeyboardInterrupt
^C
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/natregimes.shp HR60 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `natregimes' from data source `/Users/xun/Github/libgeoda_paper/data/natregimes.shp' using driver `ESRI Shapefile'
Simple feature collection with 3085 features and 73 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7314 ymin: 24.95597 xmax: -66.96985 ymax: 49.37173
geographic CRS: WGS 84
user system elapsed
0.477 0.012 0.494
[1] "./data/natregimes.shp" "HR60" "99"
[4] "lookup-table" "1"
user system elapsed
0.015 0.001 0.015
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/natregimes.shp HR60 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `natregimes' from data source `/Users/xun/Github/libgeoda_paper/data/natregimes.shp' using driver `ESRI Shapefile'
Simple feature collection with 3085 features and 73 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7314 ymin: 24.95597 xmax: -66.96985 ymax: 49.37173
geographic CRS: WGS 84
user system elapsed
0.473 0.013 0.486
[1] "./data/natregimes.shp" "HR60" "99"
[4] "lookup-table" "1"
user system elapsed
0.015 0.000 0.016
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/natregimes.shp HR60 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `natregimes' from data source `/Users/xun/Github/libgeoda_paper/data/natregimes.shp' using driver `ESRI Shapefile'
Simple feature collection with 3085 features and 73 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7314 ymin: 24.95597 xmax: -66.96985 ymax: 49.37173
geographic CRS: WGS 84
user system elapsed
0.503 0.011 0.514
[1] "./data/natregimes.shp" "HR60" "99"
[4] "lookup-table" "1"
user system elapsed
0.015 0.000 0.016
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/us-sdoh-2014.shp ep_unem lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Warning message:
NAs introduced by coercion
Reading layer `us-sdoh-2014' from data source `/Users/xun/Github/libgeoda_paper/data/us-sdoh-2014.shp' using driver `ESRI Shapefile'
Simple feature collection with 71901 features and 25 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7625 ymin: 24.5231 xmax: -66.94989 ymax: 49.38436
geographic CRS: WGS 84
Error in if (cpu_threads == 1) { : missing value where TRUE/FALSE needed
Execution halted
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/us-sdoh-2014.shp ep_unem 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `us-sdoh-2014' from data source `/Users/xun/Github/libgeoda_paper/data/us-sdoh-2014.shp' using driver `ESRI Shapefile'
Simple feature collection with 71901 features and 25 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7625 ymin: 24.5231 xmax: -66.94989 ymax: 49.38436
geographic CRS: WGS 84
user system elapsed
40.068 0.210 40.279
[1] "./data/us-sdoh-2014.shp" "ep_unem"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
0.232 0.001 0.233
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/us-sdoh-2014.shp ep_unem 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `us-sdoh-2014' from data source `/Users/xun/Github/libgeoda_paper/data/us-sdoh-2014.shp' using driver `ESRI Shapefile'
Simple feature collection with 71901 features and 25 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7625 ymin: 24.5231 xmax: -66.94989 ymax: 49.38436
geographic CRS: WGS 84
user system elapsed
39.634 0.210 39.845
[1] "./data/us-sdoh-2014.shp" "ep_unem"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
0.230 0.001 0.232
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/us-sdoh-2014.shp ep_unem 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `us-sdoh-2014' from data source `/Users/xun/Github/libgeoda_paper/data/us-sdoh-2014.shp' using driver `ESRI Shapefile'
Simple feature collection with 71901 features and 25 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7625 ymin: 24.5231 xmax: -66.94989 ymax: 49.38436
geographic CRS: WGS 84
user system elapsed
39.836 0.224 40.061
[1] "./data/us-sdoh-2014.shp" "ep_unem"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
0.234 0.003 0.237
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/NYC_Area2010_2data.shp CE01_02 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `NYC_Area2010_2data' from data source `/Users/xun/Github/libgeoda_paper/data/NYC_Area2010_2data.shp' using driver `ESRI Shapefile'
Simple feature collection with 108487 features and 8 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: 1796733 ymin: 544070.8 xmax: 1991063 ymax: 677021.4
projected CRS: USA_Contiguous_Albers_Equal_Area_Conic
user system elapsed
3.335 0.125 3.459
[1] "./data/NYC_Area2010_2data.shp" "CE01_02"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
0.377 0.001 0.378
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/NYC_Area2010_2data.shp CE01_02 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `NYC_Area2010_2data' from data source `/Users/xun/Github/libgeoda_paper/data/NYC_Area2010_2data.shp' using driver `ESRI Shapefile'
Simple feature collection with 108487 features and 8 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: 1796733 ymin: 544070.8 xmax: 1991063 ymax: 677021.4
projected CRS: USA_Contiguous_Albers_Equal_Area_Conic
user system elapsed
3.385 0.120 3.505
[1] "./data/NYC_Area2010_2data.shp" "CE01_02"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
0.384 0.003 0.386
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/NYC_Area2010_2data.shp CE01_02 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `NYC_Area2010_2data' from data source `/Users/xun/Github/libgeoda_paper/data/NYC_Area2010_2data.shp' using driver `ESRI Shapefile'
Simple feature collection with 108487 features and 8 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: 1796733 ymin: 544070.8 xmax: 1991063 ymax: 677021.4
projected CRS: USA_Contiguous_Albers_Equal_Area_Conic
user system elapsed
3.391 0.132 3.524
[1] "./data/NYC_Area2010_2data.shp" "CE01_02"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
0.387 0.003 0.390
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/Chicago_parcels_points.shp EstBuild 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `Chicago_parcels_points' from data source `/Users/xun/Github/libgeoda_paper/data/Chicago_parcels_points.shp' using driver `ESRI Shapefile'
Simple feature collection with 321701 features and 6 fields
geometry type: POINT
dimension: XY
bbox: xmin: -88.26351 ymin: 41.46987 xmax: -87.52488 ymax: 42.15398
geographic CRS: WGS 84
user system elapsed
6.287 0.141 6.428
[1] "./data/Chicago_parcels_points.shp" "EstBuild"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
1.736 0.008 1.744
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/Chicago_parcels_points.shp EstBuild 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `Chicago_parcels_points' from data source `/Users/xun/Github/libgeoda_paper/data/Chicago_parcels_points.shp' using driver `ESRI Shapefile'
Simple feature collection with 321701 features and 6 fields
geometry type: POINT
dimension: XY
bbox: xmin: -88.26351 ymin: 41.46987 xmax: -87.52488 ymax: 42.15398
geographic CRS: WGS 84
user system elapsed
6.250 0.143 6.393
[1] "./data/Chicago_parcels_points.shp" "EstBuild"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
1.708 0.012 1.720
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_rgeoda.R ./data/Chicago_parcels_points.shp EstBuild 99 lookup-table 1
Loading required package: digest
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Reading layer `Chicago_parcels_points' from data source `/Users/xun/Github/libgeoda_paper/data/Chicago_parcels_points.shp' using driver `ESRI Shapefile'
Simple feature collection with 321701 features and 6 fields
geometry type: POINT
dimension: XY
bbox: xmin: -88.26351 ymin: 41.46987 xmax: -87.52488 ymax: 42.15398
geographic CRS: WGS 84
user system elapsed
6.443 0.135 6.578
[1] "./data/Chicago_parcels_points.shp" "EstBuild"
[3] "99" "lookup-table"
[5] "1"
user system elapsed
1.980 0.008 1.989
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_spdep.R ./data/natregimes.shp HR60 99 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `natregimes' from data source `/Users/xun/Github/libgeoda_paper/data/natregimes.shp' using driver `ESRI Shapefile'
Simple feature collection with 3085 features and 73 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7314 ymin: 24.95597 xmax: -66.96985 ymax: 49.37173
geographic CRS: WGS 84
user system elapsed
2.550 0.126 2.676
[1] "./data/natregimes.shp" "HR60" "99"
[4] "1"
user system elapsed
0.593 0.005 0.599
(venv) xuns-black-pro:libgeoda_paper xun$ touch result_weights_creation.txt
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_spdep.R ./data/natregimes.shp HR60 99 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `natregimes' from data source `/Users/xun/Github/libgeoda_paper/data/natregimes.shp' using driver `ESRI Shapefile'
Simple feature collection with 3085 features and 73 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7314 ymin: 24.95597 xmax: -66.96985 ymax: 49.37173
geographic CRS: WGS 84
user system elapsed
2.544 0.117 2.661
[1] "./data/natregimes.shp" "HR60" "99"
[4] "1"
user system elapsed
0.609 0.018 0.627
(venv) xuns-black-pro:libgeoda_paper xun$ Rscript perf_spdep.R ./data/natregimes.shp HR60 99 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `natregimes' from data source `/Users/xun/Github/libgeoda_paper/data/natregimes.shp' using driver `ESRI Shapefile'
Simple feature collection with 3085 features and 73 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7314 ymin: 24.95597 xmax: -66.96985 ymax: 49.37173
geographic CRS: WGS 84
user system elapsed
2.543 0.124 2.666
[1] "./data/natregimes.shp" "HR60" "99"
[4] "1"
user system elapsed
0.591 0.021 0.611
xuns-black-pro:libgeoda_paper xun$ Rscript perf_spdep.R ./data/NYC_Area2010_2data.shp CE01_02 99 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `NYC_Area2010_2data' from data source `/Users/xun/Github/libgeoda_paper/data/NYC_Area2010_2data.shp' using driver `ESRI Shapefile'
Simple feature collection with 108487 features and 8 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: 1796733 ymin: 544070.8 xmax: 1991063 ymax: 677021.4
projected CRS: USA_Contiguous_Albers_Equal_Area_Conic
user system elapsed
1950.513 191.398 2141.948
[1] "./data/NYC_Area2010_2data.shp" "CE01_02"
[3] "99" "1"
user system elapsed
84.129 28.363 112.491
Rscript perf_spdep.R ./data/Chicago_parcels_points.shp EstBuild 9 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `Chicago_parcels_points' from data source `/Users/xun/Github/libgeoda_paper/data/Chicago_parcels_points.shp' using driver `ESRI Shapefile'
Simple feature collection with 321701 features and 6 fields
geometry type: POINT
dimension: XY
bbox: xmin: -88.26351 ymin: 41.46987 xmax: -87.52488 ymax: 42.15398
geographic CRS: WGS 84
user system elapsed
13177.018 4.018 13181.457
Warning message:
In st_centroid.sfc(st_geometry(dt)) :
st_centroid does not give correct centroids for longitude/latitude data
[1] "./data/Chicago_parcels_points.shp" "EstBuild"
[3] "9" "1"
Rscript perf_spdep.R ./data/us-sdoh-2014.shp EstBuild 1 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `us-sdoh-2014' from data source `/Users/xun/Github/libgeoda_paper/data/us-sdoh-2014.shp' using driver `ESRI Shapefile'
Simple feature collection with 71901 features and 25 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7625 ymin: 24.5231 xmax: -66.94989 ymax: 49.38436
geographic CRS: WGS 84
user system elapsed
809.976 97.109 907.075
[1] "./data/us-sdoh-2014.shp" "EstBuild"
[3] "1" "1"
Rscript perf_spdep.R ./data/us-sdoh-2014.shp EstBuild 1 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `us-sdoh-2014' from data source `/Users/xun/Github/libgeoda_paper/data/us-sdoh-2014.shp' using driver `ESRI Shapefile'
Simple feature collection with 71901 features and 25 fields
geometry type: MULTIPOLYGON
dimension: XY
bbox: xmin: -124.7625 ymin: 24.5231 xmax: -66.94989 ymax: 49.38436
geographic CRS: WGS 84
user system elapsed
810.013 96.747 906.954
[1] "./data/us-sdoh-2014.shp" "EstBuild"
[3] "1" "1"
Rscript perf_spdep.R ./data/Chicago_parcels_points.shp Test 1 1
Linking to GEOS 3.8.1, GDAL 3.1.4, PROJ 6.3.1
Loading required package: sp
Loading required package: spData
Reading layer `Chicago_parcels_points' from data source `/Users/xun/Github/libgeoda_paper/data/Chicago_parcels_points.shp' using driver `ESRI Shapefile'
Simple feature collection with 321701 features and 6 fields
geometry type: POINT
dimension: XY
bbox: xmin: -88.26351 ymin: 41.46987 xmax: -87.52488 ymax: 42.15398
geographic CRS: WGS 84
user system elapsed
13779.772 4.204 13783.930
Warning message:
In st_centroid.sfc(st_geometry(dt)) :
st_centroid does not give correct centroids for longitude/latitude data
[1] "./data/Chicago_parcels_points.shp" "Test"
[3] "1" "1"