2021-09-21 09:37:41,950 utils.prepare_workspace(123) INFO Writing log messages to C:\Users\benga\Documents\hra_workspace\InVEST-Habitat-Risk-Assessment-log-2021-09-21--09_37_41.txt
2021-09-21 09:37:41,954 model._logged_target(1646) Level 100 Starting model with parameters: 
Arguments for InVEST natcap.invest.hra 3.9.0:
aoi_vector_path     C:/Users/benga/OneDrive/Desktop/PhD/Phase 1/Geospatial data/Area of interest/Malaysia.shp
criteria_table_path C:/Users/benga/OneDrive/Desktop/PhD/Phase 1/Geospatial data/CSV files/Criteria scores.csv
decay_eq            None
info_table_path     C:/Users/benga/OneDrive/Desktop/PhD/Phase 1/Geospatial data/CSV files/Habitat and stressor information .csv
max_rating          3
n_workers           -1
resolution          1000
results_suffix      
risk_eq             Multiplicative
visualize_outputs   False
workspace_dir       C:\Users\benga\Documents\hra_workspace

2021-09-21 09:37:41,956 hra.execute(224) INFO Validating arguments
2021-09-21 09:37:41,957 validation._wrapped_validate_func(911) DEBUG Using ARG_SPEC for validation
2021-09-21 09:37:41,957 validation._wrapped_validate_func(915) INFO Starting whole-model validation with ARGS_SPEC
2021-09-21 09:37:41,958 validation.timeout(625) DEBUG Starting file checking thread with timeout=5
2021-09-21 09:37:46,968 warnings._showwarnmsg(110) WARNING C:\InVEST_3.9.0_x64\invest-3-x64\natcap\invest\validation.py:631: UserWarning: Validation of file C:/Users/benga/OneDrive/Desktop/PhD/Phase 1/Geospatial data/CSV files/Habitat and stressor information .csv timed out. If this file is stored in a file streaming service, it may be taking a long time to download. Try storing it locally instead.

2021-09-21 09:37:46,968 validation.timeout(625) DEBUG Starting file checking thread with timeout=5
2021-09-21 09:37:46,970 validation.timeout(637) DEBUG File checking thread completed.
2021-09-21 09:37:46,970 validation.timeout(625) DEBUG Starting file checking thread with timeout=5
2021-09-21 09:37:46,978 validation.timeout(637) DEBUG File checking thread completed.
2021-09-21 09:37:46,978 validation.timeout(625) DEBUG Starting file checking thread with timeout=5
2021-09-21 09:37:47,008 validation.timeout(637) DEBUG File checking thread completed.
2021-09-21 09:37:47,008 validation._wrapped_validate_func(962) DEBUG Validation warnings: []
2021-09-21 09:37:47,008 hra.execute(230) INFO Validating criteria table file and return cleaned dataframe.
2021-09-21 09:37:47,019 hra._get_criteria_dataframe(2624) INFO Criteria dataframe was created successfully.
2021-09-21 09:37:47,240 hra._get_attributes_from_df(2694) DEBUG resilience_attributes: ['recruitment rate', 'natural mortality rate', 'connectivity rate', 'recovery time']
2021-09-21 09:37:47,240 hra._get_attributes_from_df(2720) DEBUG stressor_attributes: {'Roads': ['frequency of disturbance', 'change in area rating', 'change in structure rating', 'temporal overlap rating', 'management effectiveness ', 'intensity rating '], 'MIN': ['frequency of disturbance', 'change in area rating', 'change in structure rating', 'temporal overlap rating', 'management effectiveness ', 'intensity rating '], 'OPL': ['frequency of disturbance', 'change in area rating', 'change in structure rating', 'temporal overlap rating', 'management effectiveness ', 'intensity rating '], 'SET': ['frequency of disturbance', 'change in area rating', 'change in structure rating', 'temporal overlap rating', 'management effectiveness ', 'intensity rating '], 'DCL': ['frequency of disturbance', 'change in area rating', 'change in structure rating', 'temporal overlap rating', 'management effectiveness ', 'intensity rating '], 'BRL': ['frequency of disturbance', 'change in area rating', 'change in structure rating', 'temporal overlap rating', 'management effectiveness ', 'intensity rating ']}
2021-09-21 09:37:47,310 hra._get_recovery_dataframe(3082) INFO Recovery dataframe was created successfully.
2021-09-21 09:37:47,316 hra._get_overlap_dataframe(2864) DEBUG multi_index: MultiIndex([('UDF', 'Roads'),
            ('UDF',   'MIN'),
            ('UDF',   'OPL'),
            ('UDF',   'SET'),
            ('UDF',   'DCL'),
            ('UDF',   'BRL'),
            ('DIF', 'Roads'),
            ('DIF',   'MIN'),
            ('DIF',   'OPL'),
            ('DIF',   'SET'),
            ('DIF',   'DCL'),
            ('DIF',   'BRL'),
            ('SCH', 'Roads'),
            ('SCH',   'MIN'),
            ('SCH',   'OPL'),
            ('SCH',   'SET'),
            ('SCH',   'DCL'),
            ('SCH',   'BRL'),
            ('GRS', 'Roads'),
            ('GRS',   'MIN'),
            ('GRS',   'OPL'),
            ('GRS',   'SET'),
            ('GRS',   'DCL'),
            ('GRS',   'BRL'),
            ('USF', 'Roads'),
            ('USF',   'MIN'),
            ('USF',   'OPL'),
            ('USF',   'SET'),
            ('USF',   'DCL'),
            ('USF',   'BRL'),
            ('DSF', 'Roads'),
            ('DSF',   'MIN'),
            ('DSF',   'OPL'),
            ('DSF',   'SET'),
            ('DSF',   'DCL'),
            ('DSF',   'BRL'),
            ('SSH', 'Roads'),
            ('SSH',   'MIN'),
            ('SSH',   'OPL'),
            ('SSH',   'SET'),
            ('SSH',   'DCL'),
            ('SSH',   'BRL'),
            ('SGR', 'Roads'),
            ('SGR',   'MIN'),
            ('SGR',   'OPL'),
            ('SGR',   'SET'),
            ('SGR',   'DCL'),
            ('SGR',   'BRL'),
            ('TPL', 'Roads'),
            ('TPL',   'MIN'),
            ('TPL',   'OPL'),
            ('TPL',   'SET'),
            ('TPL',   'DCL'),
            ('TPL',   'BRL'),
            ('MTC', 'Roads'),
            ('MTC',   'MIN'),
            ('MTC',   'OPL'),
            ('MTC',   'SET'),
            ('MTC',   'DCL'),
            ('MTC',   'BRL'),
            ('RCF', 'Roads'),
            ('RCF',   'MIN'),
            ('RCF',   'OPL'),
            ('RCF',   'SET'),
            ('RCF',   'DCL'),
            ('RCF',   'BRL'),
            ('UDM', 'Roads'),
            ('UDM',   'MIN'),
            ('UDM',   'OPL'),
            ('UDM',   'SET'),
            ('UDM',   'DCL'),
            ('UDM',   'BRL'),
            ('DIM', 'Roads'),
            ('DIM',   'MIN'),
            ('DIM',   'OPL'),
            ('DIM',   'SET'),
            ('DIM',   'DCL'),
            ('DIM',   'BRL'),
            ('WAB', 'Roads'),
            ('WAB',   'MIN'),
            ('WAB',   'OPL'),
            ('WAB',   'SET'),
            ('WAB',   'DCL'),
            ('WAB',   'BRL')],
           names=['HABITAT', 'STRESSOR'])
2021-09-21 09:37:48,956 hra._get_overlap_dataframe(2986) INFO Overlap dataframe was created successfully.
2021-09-21 09:37:48,963 hra.execute(299) INFO Target projection from AOI: Mercator_1SP. EPSG: 3857. Linear unit: 1.0.
2021-09-21 09:37:48,964 hra._has_field_name(1404) INFO The name field is not provided in the vector.
2021-09-21 09:37:48,964 hra.execute(324) INFO Simplifying AOI vector without subregion field.
2021-09-21 09:37:48,967 hra.execute(338) INFO Rasterizing AOI vector.
2021-09-21 09:37:55,796 geoprocessing.logger_callback(3402) INFO RasterizeLayer 52.4% complete 
2021-09-21 09:38:00,972 geoprocessing.logger_callback(3402) INFO RasterizeLayer 87.3% complete 
2021-09-21 09:38:02,803 geoprocessing.logger_callback(3402) INFO RasterizeLayer 100.0% complete 
2021-09-21 09:38:04,296 hra.execute(409) INFO Rasterizing UDF vector.
2021-09-21 09:38:04,306 hra.execute(409) INFO Rasterizing DIF vector.
2021-09-21 09:38:04,312 hra.execute(409) INFO Rasterizing SCH vector.
2021-09-21 09:38:04,318 hra.execute(409) INFO Rasterizing GRS vector.
2021-09-21 09:38:04,324 hra.execute(409) INFO Rasterizing USF vector.
2021-09-21 09:38:04,330 hra.execute(409) INFO Rasterizing DSF vector.
2021-09-21 09:38:04,336 hra.execute(409) INFO Rasterizing SSH vector.
2021-09-21 09:38:04,342 hra.execute(409) INFO Rasterizing SGR vector.
2021-09-21 09:38:04,348 hra.execute(409) INFO Rasterizing TPL vector.
2021-09-21 09:38:04,354 hra.execute(409) INFO Rasterizing MTC vector.
2021-09-21 09:38:04,360 hra.execute(409) INFO Rasterizing RCF vector.
2021-09-21 09:38:04,366 hra.execute(409) INFO Rasterizing UDM vector.
2021-09-21 09:38:04,372 hra.execute(409) INFO Rasterizing DIM vector.
2021-09-21 09:38:04,378 hra.execute(409) INFO Rasterizing WAB vector.
2021-09-21 09:38:04,384 hra.execute(409) INFO Rasterizing Roads vector.
2021-09-21 09:38:04,424 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:04,425 utils._log_gdal_errors(80) WARNING [errno 1] A geometry of type MULTILINESTRING is inserted into layer simplified_Roads of geometry type LINESTRING, which is not normally allowed by the GeoPackage specification, but the driver will however do it. To create a conformant GeoPackage, if using ogr2ogr, the -nlt option can be used to override the layer geometry type. This warning will no longer be emitted for this combination of layer and feature geometry type.
2021-09-21 09:38:04,433 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:04,453 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:04,463 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:04,568 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:04,592 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:04,679 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:05,146 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:07,799 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:15,050 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:16,325 utils._log_gdal_errors(80) WARNING [errno 1] OGR_G_Area() called against non-surface geometry type.
2021-09-21 09:38:19,661 Task.add_task(781) ERROR Something went wrong when adding task simplify_Roads_vector (31), terminating taskgraph.
Traceback (most recent call last):
  File "site-packages\taskgraph\Task.py", line 747, in add_task
  File "site-packages\taskgraph\Task.py", line 1234, in _call
  File "site-packages\natcap\invest\hra.py", line 3148, in _simplify_geometry
AttributeError: 'NoneType' object has no attribute 'SimplifyPreserveTopology'
2021-09-21 09:38:19,662 model._logged_target(1652) ERROR Exception while executing <function execute at 0x0000022241520B88>
Traceback (most recent call last):
  File "site-packages\natcap\invest\ui\model.py", line 1649, in _logged_target
  File "site-packages\natcap\invest\hra.py", line 418, in execute
  File "site-packages\taskgraph\Task.py", line 747, in add_task
  File "site-packages\taskgraph\Task.py", line 1234, in _call
  File "site-packages\natcap\invest\hra.py", line 3148, in _simplify_geometry
AttributeError: 'NoneType' object has no attribute 'SimplifyPreserveTopology'
2021-09-21 09:38:19,663 model._logged_target(1655) INFO Execution finished
2021-09-21 09:38:19,665 utils.prepare_workspace(129) INFO Elapsed time: 37.71s