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diff --git a/TestData_0411.gdb/a000000a6.gdbindexes b/TestData_0411.gdb/a000000a6.gdbindexes
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diff --git a/TestData_0411.gdb/timestamps b/TestData_0411.gdb/timestamps
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diff --git a/geo_job_control.csv b/geo_job_control.csv
new file mode 100644
index 0000000..396f619
--- /dev/null
+++ b/geo_job_control.csv
@@ -0,0 +1,6897 @@
+Line,Function,Arg1,Arg2,Arg3,Arg4,Arg5,Arg6,Arg7,Arg8,Output,CSV
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+12,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\mlra_raster',mlra_zoneid,F:\Continental_Limnology\Data_Downloaded\Lithology\Pre-processed\lithology.tif,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/mlra_lith,TRUE,,mlra_lith,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/mlra_lith,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/mlra_lith.csv
+13,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\neon_raster',neon_zoneid,F:\Continental_Limnology\Data_Downloaded\Lithology\Pre-processed\lithology.tif,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/neon_lith,TRUE,,neon_lith,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/neon_lith,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/neon_lith.csv
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+15,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\state_raster',state_zoneid,F:\Continental_Limnology\Data_Downloaded\Lithology\Pre-processed\lithology.tif,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/state_lith,TRUE,,state_lith,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/state_lith,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/state_lith.csv
+16,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\wwf_raster',wwf_zoneid,F:\Continental_Limnology\Data_Downloaded\Lithology\Pre-processed\lithology.tif,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/wwf_lith,TRUE,,wwf_lith,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/wwf_lith,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/wwf_lith.csv
+17,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatbuff100_raster',flatbuff100_zoneid,F:\Continental_Limnology\Data_Downloaded\Lithology\Pre-processed\lithology.tif,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/buff100_lith,TRUE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/buff100_unflat',buff100_lith,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/buff100_lith,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/buff100_lith.csv
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+6876,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\neon_raster',neon_zoneid,r'F:\Continental_Limnology\Data_Reused_LAGOSNE\USGS_Groundwater\Pre-processed\satof48_1000m.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/neon_satoverlandflow,FALSE,,neon_satoverlandflow,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/neon_satoverlandflow,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/neon_satoverlandflow.csv
+6877,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\omernik3_raster',omernik3_zoneid,r'F:\Continental_Limnology\Data_Reused_LAGOSNE\USGS_Groundwater\Pre-processed\satof48_1000m.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/omernik3_satoverlandflow,FALSE,,omernik3_satoverlandflow,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/omernik3_satoverlandflow,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/omernik3_satoverlandflow.csv
+6878,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\state_raster',state_zoneid,r'F:\Continental_Limnology\Data_Reused_LAGOSNE\USGS_Groundwater\Pre-processed\satof48_1000m.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/state_satoverlandflow,FALSE,,state_satoverlandflow,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/state_satoverlandflow,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/state_satoverlandflow.csv
+6879,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\wwf_raster',wwf_zoneid,r'F:\Continental_Limnology\Data_Reused_LAGOSNE\USGS_Groundwater\Pre-processed\satof48_1000m.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/wwf_satoverlandflow,FALSE,,wwf_satoverlandflow,pct,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/wwf_satoverlandflow,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/wwf_satoverlandflow.csv
+6880,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatbuff100_raster',flatbuff100_zoneid,r'F:\Continental_Limnology\Data_Downloaded\EDNA_CTI\Unzipped Original\us_cti\cti',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff100_topographicwetness,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/buff100_unflat',buff100_topographicwetness,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff100_topographicwetness,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/buff100_topographicwetness.csv
+6881,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatbuff500_raster',flatbuff500_zoneid,r'F:\Continental_Limnology\Data_Downloaded\EDNA_CTI\Unzipped Original\us_cti\cti',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff500_topographicwetness,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/buff500_unflat',buff500_topographicwetness,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff500_topographicwetness,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/buff500_topographicwetness.csv
+6882,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatws_raster',flatws_zoneid,r'F:\Continental_Limnology\Data_Downloaded\EDNA_CTI\Unzipped Original\us_cti\cti',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/ws_topographicwetness,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/ws_unflat',ws_topographicwetness,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/ws_topographicwetness,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/ws_topographicwetness.csv
+6883,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatnws_raster',flatnws_zoneid,r'F:\Continental_Limnology\Data_Downloaded\EDNA_CTI\Unzipped Original\us_cti\cti',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/nws_topographicwetness,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/nws_unflat',nws_topographicwetness,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/nws_topographicwetness,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/nws_topographicwetness.csv
+6884,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\hu12_raster',hu12_zoneid,r'F:\Continental_Limnology\Data_Downloaded\EDNA_CTI\Unzipped Original\us_cti\cti',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/hu12_topographicwetness,FALSE,,hu12_topographicwetness,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/hu12_topographicwetness,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/hu12_topographicwetness.csv
+6885,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatbuff100_raster',flatbuff100_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\tri.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff100_tri,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/buff100_unflat',buff100_tri,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff100_tri,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/buff100_tri.csv
+6886,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatbuff500_raster',flatbuff500_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\tri.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff500_tri,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/buff500_unflat',buff500_tri,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff500_tri,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/buff500_tri.csv
+6887,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatws_raster',flatws_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\tri.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/ws_tri,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/ws_unflat',ws_tri,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/ws_tri,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/ws_tri.csv
+6888,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatnws_raster',flatnws_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\tri.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/nws_tri,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/nws_unflat',nws_tri,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/nws_tri,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/nws_tri.csv
+6889,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\hu12_raster',hu12_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\tri.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/hu12_tri,FALSE,,hu12_tri,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/hu12_tri,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/hu12_tri.csv
+6890,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatbuff100_raster',flatbuff100_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\elevation.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff100_elevation,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/buff100_unflat',buff100_elevation,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff100_elevation,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/buff100_elevation.csv
+6891,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatbuff500_raster',flatbuff500_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\elevation.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff500_elevation,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/buff500_unflat',buff500_elevation,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/buff500_elevation,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/buff500_elevation.csv
+6892,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatws_raster',flatws_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\elevation.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/ws_elevation,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/ws_unflat',ws_elevation,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/ws_elevation,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/ws_elevation.csv
+6893,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\flatnws_raster',flatnws_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\elevation.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/nws_elevation,FALSE,r'D:/Continental_Limnology/Data_Working/LAGOS_US_GIS_Data_v0.9.gdb/nws_unflat',nws_elevation,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/nws_elevation,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/nws_elevation.csv
+6894,zonal_summary_of_raster_data,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9_RASTER.gdb\hu12_raster',hu12_zoneid,r'F:\Continental_Limnology\Data_Downloaded\3DEP_National_Elevation_Dataset\Zipped\elevation.tif',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/hu12_elevation,FALSE,,hu12_elevation,m,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2020-01-03_Zonal.gdb/hu12_elevation,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/hu12_elevation.csv
+6895,line_density_in_zones,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9.gdb\neon',neon_zoneid,r'D:\Continental_Limnology\Data_Downloaded\NHDPlus_High_Resolution_COMPLETE\Pre-processed\NHDPlus_HR_Streams.gdb\canals',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/neon_canals,,neon_canals,,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/neon_canals,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/neon_canals.csv
+6896,line_density_in_zones,r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9.gdb\buff100',buff100_zoneid,r'D:\Continental_Limnology\Data_Downloaded\NHDPlus_High_Resolution_COMPLETE\Pre-processed\NHDPlus_HR_Streams.gdb\canals',D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/buff100_canals,,buff100_canals,,,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/2021-01-12_Zonal.gdb/neon_canals,D:/Continental_Limnology/Data_Working/Tool_Execution/2020-01-03_Zonal/neon_canals.csv
diff --git a/lagosGIS/LAGOS_GIS_Toolbox.tbx b/lagosGIS/LAGOS_GIS_Toolbox.tbx
index a8373cc..221e96f 100644
Binary files a/lagosGIS/LAGOS_GIS_Toolbox.tbx and b/lagosGIS/LAGOS_GIS_Toolbox.tbx differ
diff --git a/lagosGIS/NHDNetwork.py b/lagosGIS/NHDNetwork.py
index b34c2e7..6058998 100644
--- a/lagosGIS/NHDNetwork.py
+++ b/lagosGIS/NHDNetwork.py
@@ -1,6 +1,6 @@
 # filename: NHDNetwork.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (NOT IN ArcGIS Toolbox)
 
@@ -108,7 +108,7 @@ def __init__(self, nhd_gdb):
         # the following should have no effect on other users besides LAGOS use,
         # but will be used to modify .define_lakes so that it includes any permanent_id
         # found in the LAGOS population, regardless of its size or FType in NHDPlus Plus HR
-        self.lagos_pop_path = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.8.gdb\Lakes\LAGOS_US_All_Lakes_1ha'
+        self.lagos_pop_path = r'F:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.9.gdb\Lakes\LAGOS_US_All_Lakes_1ha'
 
     # ---UTILITIES FOR HIGHER METHODS-----------------------------------------------------------------------------------
     def prepare_upstream(self, force_refresh=False):
diff --git a/lagosGIS/NHD_merge_utility.py b/lagosGIS/NHD_merge_utility.py
index c1853df..2927593 100644
--- a/lagosGIS/NHD_merge_utility.py
+++ b/lagosGIS/NHD_merge_utility.py
@@ -1,18 +1,8 @@
-#-------------------------------------------------------------------------------
-# Name:        NHD_merge_utility
-# Purpose: Merges features from pre-staged NHD subregion downloads, deletes ID
-# duplicates by saving only the one with the latest FDate, and deletes geographic
-# duplicates (different IDs) by saving the one with the latest FDate).
-#
-# Requirements: 1) nhdDir = Directory containing all the NHD subregions you want to merge
-#               2) fcName = Feature class name for features you want to merge
-#               3) outputDir = Output directory
-#
-# Author:      nicolejeansmith
-#
-# Created:     2016-12-20
-
-#-------------------------------------------------------------------------------
+# filename: NHD_merge_utility.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): LOCUS, GEO
+# tool type: re-usable (ArcGIS Toolbox)
 
 # Merge any of the NHD-based layers into a seamless layer and apply a selection if desired
 # do not delete any duplicates
diff --git a/lagosGIS/__init__.py b/lagosGIS/__init__.py
index 2ede856..9694ada 100644
--- a/lagosGIS/__init__.py
+++ b/lagosGIS/__init__.py
@@ -18,12 +18,13 @@
            "zonal_summary_of_classed_polygons",
            "point_attribution_of_raster_data",
            "summarize_raster_for_all_zones",
+           "preprocess_padus",
 
            "spatialize_lakes",
            "georeference_lakes",
 
            "export_to_csv",
-            "zone_prep"
+           "spatial_divisions_processing"
     ]
 
 import os
@@ -47,6 +48,7 @@
 from rasterize_zones import rasterize as rasterize_zones
 from zonal_summary_of_raster_data import calc as zonal_summary_of_raster_data
 from summarize_raster_for_all_zones import summarize as summarize_raster_for_all_zones
+from preprocess_padus import preprocess as preprocess_padus
 
 from zonal_summary_of_classed_polygons import summarize as zonal_summary_of_classed_polygons
 from point_attribution_of_raster_data import attribution as point_attribution_of_raster_data
@@ -55,7 +57,7 @@
 from georeference import georeference_lakes
 
 from export_to_csv import export as export_to_csv
-import zone_prep
+import spatial_divisions_processing
 
 
 LAGOS_FCODE_LIST = (39000,39004,39009,39010,39011,39012,43600,43613,43615,43617,43618,43619,43621)
diff --git a/lagosGIS/calc_glaciation.py b/lagosGIS/calc_glaciation.py
index 0a353af..95b153c 100644
--- a/lagosGIS/calc_glaciation.py
+++ b/lagosGIS/calc_glaciation.py
@@ -1,3 +1,9 @@
+# filename: calc_glaciation.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): LOCUS, GEO
+# tool type: re-usable (NOT in ArcGIS Toolbox)
+
 import os
 
 import arcpy
diff --git a/lagosGIS/calc_relief_ratio.py b/lagosGIS/calc_relief_ratio.py
index a1b4f96..eb11944 100644
--- a/lagosGIS/calc_relief_ratio.py
+++ b/lagosGIS/calc_relief_ratio.py
@@ -1,3 +1,9 @@
+# filename: calc_relief_ratio.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (NOT in ArcGIS Toolbox)
+
 import os
 import arcpy
 
diff --git a/lagosGIS/deprecated/burn_dems.py b/lagosGIS/deprecated/burn_dems.py
index 804366f..7c37b16 100644
--- a/lagosGIS/deprecated/burn_dems.py
+++ b/lagosGIS/deprecated/burn_dems.py
@@ -1,6 +1,6 @@
 # filename: burn_dems.py
 # author: Scott Stopyak, Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/deprecated/lake_from_to.py b/lagosGIS/deprecated/lake_from_to.py
index 45db36a..bcce67d 100644
--- a/lagosGIS/deprecated/lake_from_to.py
+++ b/lagosGIS/deprecated/lake_from_to.py
@@ -1,6 +1,6 @@
 # filename: lake_from_to.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): CONN
 # tool type: re-usable (not ArcGIS Toolbox)
 # status: This code was a PROTOTYPE and was replaced with alternate Python code for the CONN database. It produces
diff --git a/lagosGIS/deprecated/make_catseed.py b/lagosGIS/deprecated/make_catseed.py
index 8a61fe5..f834e6f 100644
--- a/lagosGIS/deprecated/make_catseed.py
+++ b/lagosGIS/deprecated/make_catseed.py
@@ -1,6 +1,6 @@
 # filename: make_catseed.py
 # author: Scott Stopyak, Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/deprecated/make_gridcode.py b/lagosGIS/deprecated/make_gridcode.py
index 6490d27..223a108 100644
--- a/lagosGIS/deprecated/make_gridcode.py
+++ b/lagosGIS/deprecated/make_gridcode.py
@@ -1,6 +1,6 @@
 # filename: make_gridcode.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/deprecated/mosaic_dems.py b/lagosGIS/deprecated/mosaic_dems.py
index 669c399..fec7c7e 100644
--- a/lagosGIS/deprecated/mosaic_dems.py
+++ b/lagosGIS/deprecated/mosaic_dems.py
@@ -1,6 +1,6 @@
 # filename: mosaic_dems.py
 # author: Ed Bissell, Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 # purpose:  The purpose of this script is to create a directory of NED tiles for a NHD subregion and
diff --git a/lagosGIS/deprecated/watersheds_toolchain.py b/lagosGIS/deprecated/watersheds_toolchain.py
index afa54dc..3c9cca7 100644
--- a/lagosGIS/deprecated/watersheds_toolchain.py
+++ b/lagosGIS/deprecated/watersheds_toolchain.py
@@ -1,6 +1,6 @@
 # filename: watersheds_toolchain.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: code journal (no ArcGIS Toolbox, workstation-specific paths)
 # purpose: This code was used to string together the watersheds tools in the correct order for LAGOS, as well as
diff --git a/lagosGIS/export_gis_and_info_tables.py b/lagosGIS/export_gis_and_info_tables.py
index 92b7f98..c451483 100644
--- a/lagosGIS/export_gis_and_info_tables.py
+++ b/lagosGIS/export_gis_and_info_tables.py
@@ -1,7 +1,7 @@
 # filename: export_gis_and_info_tables.py
 # author: Nicole J Smith
-# version: 2.0 Beta
-# LAGOS module(s): LOCUS
+# version: 2.0
+# LAGOS module(s): LOCUS, GEO
 # tool type: code journal, internal use only
 
 import os
diff --git a/lagosGIS/export_to_csv.py b/lagosGIS/export_to_csv.py
index d98d560..4130c69 100644
--- a/lagosGIS/export_to_csv.py
+++ b/lagosGIS/export_to_csv.py
@@ -1,6 +1,6 @@
 # filename: export_to_csv.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS, GEO, CONN
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/flatten_overlapping_zones.py b/lagosGIS/flatten_overlapping_zones.py
index b6afaae..595c075 100644
--- a/lagosGIS/flatten_overlapping_zones.py
+++ b/lagosGIS/flatten_overlapping_zones.py
@@ -1,9 +1,8 @@
 # filename: flatten_overlapping_zones.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): GEO
 # tool type: re-usable (ArcGIS Toolbox)
-# status: working, tested in Beta
 
 import os
 import arcpy
diff --git a/lagosGIS/georeference.py b/lagosGIS/georeference.py
index e280822..bd23791 100644
--- a/lagosGIS/georeference.py
+++ b/lagosGIS/georeference.py
@@ -1,6 +1,6 @@
 # filename: georeference.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LIMNO
 # tool type: limited re-usability as code (change constants by hand for your computer)
 
diff --git a/lagosGIS/lake_connectivity_classification.py b/lagosGIS/lake_connectivity_classification.py
index eba9a0b..3e26635 100644
--- a/lagosGIS/lake_connectivity_classification.py
+++ b/lagosGIS/lake_connectivity_classification.py
@@ -1,6 +1,6 @@
 # filename: lake_connectivity_classification.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/lake_density.py b/lagosGIS/lake_density.py
index 4abfef6..6dc29f1 100644
--- a/lagosGIS/lake_density.py
+++ b/lagosGIS/lake_density.py
@@ -1,5 +1,9 @@
-# Lakes in Zones, the new one
-# this does all the lake stuff at once for a given extent
+# filename: lake_density.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import os
 import arcpy
 import polygon_density_in_zones
diff --git a/lagosGIS/lake_processing.py b/lagosGIS/lake_processing.py
index dc44882..c855e8e 100644
--- a/lagosGIS/lake_processing.py
+++ b/lagosGIS/lake_processing.py
@@ -1,6 +1,6 @@
 # filename: lake_processing.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS, GEO
 # tool type: code journal (no ArcGIS Toolbox)
 
diff --git a/lagosGIS/line_density_in_zones.py b/lagosGIS/line_density_in_zones.py
index d4497ac..99cd15d 100644
--- a/lagosGIS/line_density_in_zones.py
+++ b/lagosGIS/line_density_in_zones.py
@@ -1,3 +1,9 @@
+# filename: line_density_in_zones.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import os
 import arcpy
 import lagosGIS
diff --git a/lagosGIS/locate_lake_inlets.py b/lagosGIS/locate_lake_inlets.py
index bf31d4e..4cbeff1 100644
--- a/lagosGIS/locate_lake_inlets.py
+++ b/lagosGIS/locate_lake_inlets.py
@@ -1,6 +1,6 @@
 # filename: locate_lake_inlets.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): CONN
 # tool type: re-usable (not in ArcGIS Toolbox)
 
diff --git a/lagosGIS/locate_lake_outlets.py b/lagosGIS/locate_lake_outlets.py
index fc350a1..7c31bb4 100644
--- a/lagosGIS/locate_lake_outlets.py
+++ b/lagosGIS/locate_lake_outlets.py
@@ -1,6 +1,6 @@
 # filename: locate_lake_outlets.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): CONN
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/merge_subregion_outputs.py b/lagosGIS/merge_subregion_outputs.py
index 45a26d6..e98eff0 100644
--- a/lagosGIS/merge_subregion_outputs.py
+++ b/lagosGIS/merge_subregion_outputs.py
@@ -1,6 +1,6 @@
 # filename: merge_subregion_outputs.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (not in ArcGIS Toolbox)
 # purpose: These functions assist with merging and deduplicating GIS outputs for analyses that had to be run at the
diff --git a/lagosGIS/mosaic_dem_and_tri.py b/lagosGIS/mosaic_dem_and_tri.py
index a797203..3e316a4 100644
--- a/lagosGIS/mosaic_dem_and_tri.py
+++ b/lagosGIS/mosaic_dem_and_tri.py
@@ -1,5 +1,10 @@
+# filename: mosaic_dem_and_tri.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: code journal, modify paths by hand
+
 import os
-import re
 import subprocess
 import zipfile
 import arcpy
diff --git a/lagosGIS/nhd_merge_helpers.py b/lagosGIS/nhd_merge_helpers.py
index 0a9e282..f1ef724 100644
--- a/lagosGIS/nhd_merge_helpers.py
+++ b/lagosGIS/nhd_merge_helpers.py
@@ -1,6 +1,6 @@
 # filename: nhd_merge_helpers.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (NO ArcGIS Toolbox)
 
diff --git a/lagosGIS/point_attribution_of_raster_data.py b/lagosGIS/point_attribution_of_raster_data.py
index 3eef389..13bccf0 100644
--- a/lagosGIS/point_attribution_of_raster_data.py
+++ b/lagosGIS/point_attribution_of_raster_data.py
@@ -1,3 +1,9 @@
+# filename: point_attribution_of_raster_data.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import arcpy
 import lagosGIS
 
diff --git a/lagosGIS/point_density_in_zones.py b/lagosGIS/point_density_in_zones.py
index 24aefa2..58b644e 100644
--- a/lagosGIS/point_density_in_zones.py
+++ b/lagosGIS/point_density_in_zones.py
@@ -1,5 +1,9 @@
-# Filename: PointDensityInPolygon.py
-# Purpose: Gives the density of points in polygons by point/hectare and point/sqkm.
+# filename: point_density_in_zones.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import os
 import arcpy
 
diff --git a/lagosGIS/polygon_density_in_zones.py b/lagosGIS/polygon_density_in_zones.py
index ae278a9..cf364c4 100644
--- a/lagosGIS/polygon_density_in_zones.py
+++ b/lagosGIS/polygon_density_in_zones.py
@@ -1,13 +1,9 @@
-#-------------------------------------------------------------------------------
-# Name:        module1
-# Purpose:
-#
-# Author:      smithn78
-#
-# Created:     21/05/2014
-# Copyright:   (c) smithn78 2014
-# Licence:     <your licence>
-#-------------------------------------------------------------------------------
+# filename: polygon_density_in_zones.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import arcpy
 
 
@@ -25,7 +21,6 @@ def calc(zone_fc, zone_field, polygons_of_interest, output_table, interest_selec
     if arcpy.Exists(selected_polys):
         arcpy.env.overwriteOutput = True
 
-    arcpy.AddMessage('Copying/selecting polygon features...')
     if interest_selection_expr:
         arcpy.Select_analysis(polygons_of_interest, selected_polys, interest_selection_expr)
     else:
@@ -66,7 +61,6 @@ def calc(zone_fc, zone_field, polygons_of_interest, output_table, interest_selec
     arcpy.AddField_management(spjoin_fc, 'Poly_nperha', 'DOUBLE')
     arcpy.CalculateField_management(spjoin_fc, 'Poly_nperha', '!Poly_n!/!shape.area@hectares!', 'PYTHON')
 
-    arcpy.AddMessage('Refining output...')
     arcpy.JoinField_management(tab_table, zone_field, spjoin_fc, zone_field, ["Poly_n", 'Poly_nperha'])
     final_fields = ['Poly_ha', 'Poly_pct', 'Poly_n', 'Poly_nperha']
 
@@ -82,7 +76,6 @@ def calc(zone_fc, zone_field, polygons_of_interest, output_table, interest_selec
         arcpy.Delete_management(item)
     arcpy.env.workspace = old_workspace
 
-    arcpy.AddMessage('Polygons in zones tool complete.')
     arcpy.SetLogHistory(True)
 
 def main():
diff --git a/lagosGIS/preprocess_padus.py b/lagosGIS/preprocess_padus.py
index b23e348..ae3c47f 100644
--- a/lagosGIS/preprocess_padus.py
+++ b/lagosGIS/preprocess_padus.py
@@ -1,8 +1,14 @@
-import os
+# filename: preprocess_padus.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
+
 import time
 import arcpy
 from arcpy import management as DM
-from lagosGIS import select_fields
+import lagosGIS
 
 
 def preprocess(padus_combined_fc, output_fc):
@@ -11,7 +17,7 @@ def preprocess(padus_combined_fc, output_fc):
     protection types. This tool "flattens" the PADUS2_0Combined_Marined_Fee_Designation_Easement dataset so that the
     Own_Type, GAP_Sts, and IUCN_Cat fields are values are retained, renamed, and filtered for one primary value per
     region according to the following rules:
-    Own_Type -> "agency". "Fee" type > "Easement" > "Marine" > "Designation
+    Own_Type -> "agency" variable in LAGOS-US. Rule is FeatClass "Fee" > "Easement" > "Marine" > "Designation"
     GAP_Sts -> "gap" . Highest GAP status preferentially retained.
     IUCN_Cat -> "iucn". Lowest number codes preferentially retained, then "Other", last "Unassigned".
     :param padus_combined_fc:
@@ -24,8 +30,7 @@ def preprocess(padus_combined_fc, output_fc):
     # Prep: Select only the fields needed, remove curves (densify) which prevents problems with geometry
     # that prevents DeleteIdentical based on Shape
     padus_fields = ['FeatClass', 'Own_Type', 'GAP_Sts', 'IUCN_Cat']
-    arcpy.AddMessage('{} select...'.format(time.ctime()))
-    padus_select = select_fields(padus_combined_fc, 'padus_select', padus_fields, convert_to_table=False)
+    padus_select = lagosGIS.select_fields(padus_combined_fc, 'padus_select', padus_fields, convert_to_table=False)
     arcpy.Densify_edit(padus_select, 'OFFSET', max_deviation = '1 Meters')
     arcpy.AddMessage('{} union...'.format(time.ctime()))
 
@@ -60,7 +65,6 @@ def preprocess(padus_combined_fc, output_fc):
                  'Other Conservation Area': 8,
                  'Unassigned': 9}
 
-    arcpy.AddMessage('{}  calculate...'.format(time.ctime()))
     with arcpy.da.UpdateCursor(union, cursor_fields) as cursor:
         for row in cursor:
             id1, id2, fc1, fc2, gap1, gap2, iucn1, iucn2, own1, own2, agency, gap, iucn, flag, areacalc, areashp = row
@@ -97,13 +101,13 @@ def preprocess(padus_combined_fc, output_fc):
 
     # Sort so that merged polygons are retained in DeleteIdentical, and delete identical shapes to end
     # up with just the merged polygons and non-overlapping polygons
-    arcpy.AddMessage('{}  sort...'.format(time.ctime()))
+    arcpy.AddMessage('{} sort...'.format(time.ctime()))
     sorted_fc = DM.Sort(large_enough, 'sorted_fc', [['merge_flag', 'DESCENDING']])
 
-    arcpy.AddMessage('{}  delete identical shape...'.format(time.ctime()))
+    arcpy.AddMessage('{} delete identical shape...'.format(time.ctime()))
     DM.DeleteIdentical(sorted_fc, "Shape")
     output_fields = [fid1, fid2] + new_fields
-    output_fc = select_fields(sorted_fc, output_fc, output_fields)
+    output_fc = lagosGIS.select_fields(sorted_fc, output_fc, output_fields)
 
     # cleanup
     for item in [padus_select, union, sorted_fc, large_enough]:
diff --git a/lagosGIS/rasterize_zones.py b/lagosGIS/rasterize_zones.py
index 5a669f6..ebefc89 100644
--- a/lagosGIS/rasterize_zones.py
+++ b/lagosGIS/rasterize_zones.py
@@ -1,3 +1,9 @@
+# filename: rasterize_zones.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 # Converts multiple polygon feature classes to "zone" rasters using a common grid
 import math
 import os
diff --git a/lagosGIS/read_job_control.py b/lagosGIS/read_job_control.py
index dd7e7d7..d49a41a 100644
--- a/lagosGIS/read_job_control.py
+++ b/lagosGIS/read_job_control.py
@@ -1,3 +1,9 @@
+# filename: read_job_control
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (NOT in ArcGIS Toolbox)
+
 import csv
 import os
 import time
diff --git a/lagosGIS/run_tools/batch_run_job_control.py b/lagosGIS/run_tools/batch_run_job_control.py
index 38dea76..0e28ccd 100644
--- a/lagosGIS/run_tools/batch_run_job_control.py
+++ b/lagosGIS/run_tools/batch_run_job_control.py
@@ -1,7 +1,13 @@
+# filename: batch_run_job_control.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): all
+# tool type: code journal, internal use, batch run
+
 import read_job_control as rjc
 
 va = ['Arg1', 'Arg3', 'Arg6']
 pva = ['Arg1', 'Arg3']
-job_csv = r"C:\Users\smithn78\Dropbox\CL_HUB_GEO\Metrics_Job_Control\raster_job_control.csv"
+job_csv = '../geo_job_control.csv'
 
 rjc.read_job_control(job_csv)
\ No newline at end of file
diff --git a/lagosGIS/run_tools/connectivity_run.py b/lagosGIS/run_tools/connectivity_run.py
index 18f208b..86d3154 100644
--- a/lagosGIS/run_tools/connectivity_run.py
+++ b/lagosGIS/run_tools/connectivity_run.py
@@ -1,6 +1,6 @@
 # filename: connectivity_run.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: code journal, internal use, batch run
 
diff --git a/lagosGIS/run_tools/create_lagos_spatial_divisions.py b/lagosGIS/run_tools/create_lagos_spatial_divisions.py
new file mode 100644
index 0000000..0960ee5
--- /dev/null
+++ b/lagosGIS/run_tools/create_lagos_spatial_divisions.py
@@ -0,0 +1,453 @@
+# filename: create_lagos_spatial_divisions.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: code journal
+
+import csv
+import os
+import sys
+import arcpy
+from arcpy import management as DM
+from arcpy import analysis as AN
+
+import calc_glaciation
+from lagosGIS import create_temp_GDB
+
+# files accessed by this script
+import spatial_divisions_processing
+
+MASTER_CLIPPING_POLY = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\NonPublished\US_Countybased_Clip_Polygon'
+LAGOSNE_GDB = r'C:\Users\smithn78\Dropbox\CSI\CSI_LAGOS-exports\LAGOS-NE-EDI\LAGOS-NE-GIS\FileGDB\LAGOS_NE_GIS_Data_v1.0.gdb'
+LAND_BORDER =  r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\NonPublished\Derived_Land_Borders'
+COASTLINE = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\NonPublished\TIGER_Coastline'
+LAGOS_LAKES = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\LAGOS_US_All_Lakes_1ha'
+GLACIAL_EXTENT = r'C:\Users\smithn78\Dropbox\CL_HUB_GEO\GEO_datadownload_inprogress\DATA_glaciationlatewisc\Pre-processed\lgm_glacial_world.shp'
+STATE_FC = r'D:\Continental_Limnology\Data_Downloaded\LAGOS_ZONES_ALL\TIGER_Boundaries\Unzipped Original\tl_2016_us_state.shp'
+STATE_FC_FINDSTATE = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\Spatial_Classifications\state'
+
+# files to control this script
+ZONE_CONTROL_CSV = r"C:\Users\smithn78\Dropbox\CL_HUB_GEO\Reprocessing_LAGOS_Zones.csv"
+TEMP_GDB = create_temp_GDB('process_zones')
+
+# --- HELPER FUNCTIONS--------------------------------------------------------------------------------------------------
+
+
+#---SETUP---------------------------------------------------------------------------------------------------------------
+
+arcpy.env.workspace = TEMP_GDB
+arcpy.env.outputCoordinateSystem = arcpy.SpatialReference(5070)
+
+# read the control file
+with open(ZONE_CONTROL_CSV) as csv_file:
+    reader = csv.DictReader(csv_file)
+    lines = [line for line in reader]
+
+HU8_OUTPUT = [line for line in lines if line['LAGOS Zone Name'] == 'hu8'][0]['Output']
+
+# Define the processing steps.
+# 1) Dissolve on ID.
+# 2) Clip to USA
+# 3) Calculate original area.
+# 4) Generate unique zone IDs.
+def process_zone(zone_fc, output, zone_name, zone_id_field, zone_name_field, other_keep_fields, clip_hu8, lagosne_name):
+    # dissolve fields by the field that zone_id is based on (the field that identifies a unique zone)
+    dissolve_fields = [f for f in "{}, {}, {}".format(
+        zone_id_field, zone_name_field, other_keep_fields).split(', ') if f != '']
+    print("Dissolving...")
+    dissolve1 = DM.Dissolve(zone_fc, 'dissolve1', dissolve_fields)
+
+    # update name field to match our standard
+    DM.AlterField(dissolve1, zone_name_field, 'name')
+
+    # original area
+
+    DM.AddField(dissolve1, 'originalarea', 'DOUBLE')
+    DM.CalculateField(dissolve1, 'originalarea', '!shape.area@hectares!', 'PYTHON')
+
+    #clip
+    print("Clipping...")
+    clip = AN.Clip(dissolve1, MASTER_CLIPPING_POLY, 'clip')
+    if clip_hu8 == 'Y':
+        final_clip = AN.Clip(clip, HU8_OUTPUT, 'final_clip')
+    else:
+        final_clip = clip
+
+    print("Selecting...")
+    # calc new area, orig area pct, compactness
+    DM.AddField(final_clip, 'area_ha', 'DOUBLE')
+    DM.AddField(final_clip, 'originalarea_pct', 'DOUBLE')
+    DM.AddField(final_clip, 'compactness', 'DOUBLE')
+    DM.JoinField(final_clip, zone_id_field, dissolve1, zone_id_field, 'originalarea_pct')
+
+    uCursor_fields = ['area_ha', 'originalarea_pct', 'originalarea', 'compactness', 'SHAPE@AREA', 'SHAPE@LENGTH']
+    with arcpy.da.UpdateCursor(final_clip, uCursor_fields) as uCursor:
+        for row in uCursor:
+            area, orig_area_pct, orig_area, comp, shape_area, shape_length = row
+            area = shape_area/10000 # convert from m2 to hectares
+            orig_area_pct = round(100 * area / orig_area, 2)
+            comp = 4*3.14159*shape_area/(shape_length**2)
+            row = (area, orig_area_pct, orig_area, comp, shape_area, shape_length)
+            uCursor.updateRow(row)
+
+    # if zones are present with <5% of original area and a compactness measure of <.2 (ranges from 0-1)
+    # AND ALSO they are no bigger than 500 sq. km. (saves Chippewa County and a WWF), filter out
+    # save eliminated polygons to temp database as a separate layer for inspection
+
+    # Different processing for HU4 and HU8, so that they match the extent of HU8 more closely but still throw out tiny slivers
+    # County also only eliminated if a tiny, tiny, tiny sliver (so: none should be eliminated)
+    if zone_name not in ('hu4', 'hu12', 'county'):
+        selected = AN.Select(final_clip, 'selected', "originalarea_pct >= 5 OR compactness >= .2 OR area_ha > 50000")
+        not_selected = AN.Select(final_clip, '{}_not_selected'.format(output),
+                                 "originalarea_pct < 5 AND compactness < .2 AND area_ha < 50000")
+
+    else:
+        selected = final_clip
+    # eliminate small slivers, re-calc area fields, add perimeter and multipart flag
+    # leaves the occasional errant sliver but some areas over 25 hectares are more valid so this is
+    # CONSERVATIVE
+    print("Trimming...")
+    trimmed = DM.EliminatePolygonPart(selected, 'trimmed', 'AREA', '25 Hectares', part_option = 'ANY')
+
+    # gather up a few calculations into one cursor because this is taking too long over the HU12 layer
+    DM.AddField(trimmed, 'perimeter_m', 'DOUBLE')
+    DM.AddField(trimmed, 'ismultipart', 'TEXT', field_length = 1)
+    uCursor_fields = ['area_ha', 'originalarea_pct', 'originalarea', 'perimeter_m', 'ismultipart', 'SHAPE@']
+    with arcpy.da.UpdateCursor(trimmed, uCursor_fields) as uCursor:
+        for row in uCursor:
+            area, orig_area_pct, orig_area, perim, multipart, shape = row
+            area = shape.area/10000 # convert to hectares from m2
+            orig_area_pct = round(100*area/orig_area, 2)
+            perim = shape.length
+
+            # multipart flag calc
+            if shape.isMultipart:
+                multipart = 'Y'
+            else:
+                multipart = 'N'
+            row = (area, orig_area_pct, orig_area, perim, multipart, shape)
+            uCursor.updateRow(row)
+
+    # delete intermediate fields
+    DM.DeleteField(trimmed, 'compactness')
+    DM.DeleteField(trimmed, 'originalarea')
+
+    print("Zone IDs....")
+    # link to LAGOS-NE zone IDs
+    DM.AddField(trimmed, 'zoneid', 'TEXT', field_length = 40)
+    trimmed_lyr = DM.MakeFeatureLayer(trimmed, 'trimmed_lyr')
+    if lagosne_name:
+        # join to the old master GDB path on the same master field and copy in the ids
+        old_fc = os.path.join(LAGOSNE_GDB, lagosne_name)
+        old_fc_lyr = DM.MakeFeatureLayer(old_fc, 'old_fc_lyr')
+        if lagosne_name == 'STATE' or lagosne_name == 'COUNTY':
+            DM.AddJoin(trimmed_lyr, zone_id_field, old_fc_lyr, 'FIPS')
+        else:
+            DM.AddJoin(trimmed_lyr, zone_id_field, old_fc_lyr, zone_id_field) # usually works because same source data
+
+        # copy
+        DM.CalculateField(trimmed_lyr, 'zoneid', '!{}.ZoneID!.lower()'.format(lagosne_name), 'PYTHON')
+        DM.RemoveJoin(trimmed_lyr)
+
+    # generate new zone ids
+    old_ids = [row[0] for row in arcpy.da.SearchCursor(trimmed, 'zoneid')]
+    with arcpy.da.UpdateCursor(trimmed, 'zoneid') as cursor:
+        counter = 1
+        for row in cursor:
+            if not row[0]: # if no existing ID borrowed from LAGOS-NE, assign a new one
+                new_id = '{name}_{num}'.format(name = zone_name, num = counter)
+
+                # ensures new ids don't re-use old numbers but fills in all positive numbers eventually
+                while new_id in old_ids:
+                    counter +=1
+                    new_id = '{name}_{num}'.format(name = zone_name, num = counter)
+                row[0] = new_id
+                cursor.updateRow(row)
+                counter += 1
+
+    print("Edge flags...")
+    # add flag fields
+    DM.AddField(trimmed, 'onlandborder', 'TEXT', field_length = 2)
+    DM.AddField(trimmed, 'oncoast', 'TEXT', field_length = 2)
+
+    # identify border zones
+    border_lyr = DM.MakeFeatureLayer(LAND_BORDER, 'border_lyr')
+    DM.SelectLayerByLocation(trimmed_lyr, 'INTERSECT', border_lyr)
+    DM.CalculateField(trimmed_lyr, 'onlandborder', "'Y'", 'PYTHON')
+    DM.SelectLayerByAttribute(trimmed_lyr, 'SWITCH_SELECTION')
+    DM.CalculateField(trimmed_lyr, 'onlandborder' ,"'N'", 'PYTHON')
+
+    # identify coastal zones
+    coastal_lyr = DM.MakeFeatureLayer(COASTLINE, 'coastal_lyr')
+    DM.SelectLayerByLocation(trimmed_lyr, 'INTERSECT', coastal_lyr)
+    DM.CalculateField(trimmed_lyr, 'oncoast', "'Y'", 'PYTHON')
+    DM.SelectLayerByAttribute(trimmed_lyr, 'SWITCH_SELECTION')
+    DM.CalculateField(trimmed_lyr, 'oncoast' ,"'N'", 'PYTHON')
+
+    # label sourcezoneid
+    sourceid_name = 'sourceid_{}'.format(zone_id_field.replace('_', ''))
+    arcpy.AlterField(trimmed, zone_id_field, 'sourceid', clear_field_alias=True)
+
+    # add lat long
+    spatial_divisions_processing.add_lat_lon(trimmed)
+
+    print("State assignment...")
+    # State?
+    spatial_divisions_processing.find_states(trimmed, STATE_FC_FINDSTATE)
+
+    # glaciation status
+    calc_glaciation.calc(trimmed, GLACIAL_EXTENT, 'ZoneID')
+
+    # preface the names with the division prefix if needed
+    DM.DeleteField(trimmed, 'ORIG_FID')
+    fields = [f.name for f in arcpy.ListFields(trimmed, '*')
+              if f.type not in ('OID', 'Geometry')
+              and not f.name.startswith('Shape_')
+              and not f.name.startswith(zone_name)]
+    for f in fields:
+        new_fname = '{zn}_{orig}'.format(zn=zone_name, orig = f).lower()
+        try:
+            DM.AlterField(trimmed, f, new_fname, clear_field_alias = 'TRUE')
+        # sick of debugging the required field message-I don't want to change required fields anyway
+        except:
+            pass
+
+    DM.CopyFeatures(trimmed, output)
+
+    # cleanup
+    lyr_objects = [lyr_object for var_name, lyr_object in locals().items() if var_name.endswith('lyr')]
+    temp_fcs = arcpy.ListFeatureClasses('*')
+    for l in lyr_objects + temp_fcs:
+        DM.Delete(l)
+
+# COUNTY was originally processed by hand due to the need for manual editing
+# Then it was used the make the clipping poly that is used in this script
+
+# Then process HU8 because it will be used to clip HU4 and HU12 also
+hu8 = [line for line in lines if line['LAGOS Zone Name'] == 'hu8'][0]
+print('hu8')
+process_zone(hu8['Original'],
+             hu8['Output'],
+             hu8['LAGOS Zone Name'],
+             hu8['Zone Field'],
+             hu8['Name Field'],
+             hu8['Other Keep Fields'],
+             hu8['Clip to HU8'],
+             hu8['LAGOS-NE Name'])
+
+# Then loop through everything else
+# County is included just to make it easier to reproduce and prove it's consistent with the others
+lines = [line for line in lines if line['LAGOS Zone Name'] not in ('hu8')]
+for line in lines:
+    print(line['LAGOS Zone Name'])
+    process_zone(line['Original'],
+                 line['Output'],
+                 line['LAGOS Zone Name'],
+                 line['Zone Field'],
+                 line['Name Field'],
+                 line['Other Keep Fields'],
+                 line['Clip to HU8'],
+                 line['LAGOS-NE Name'])
+
+
+
+# delete hu12 with SHAPE_Area < 5000 and (hu12_onlandborder = 'Y' or hu12_oncoast = 'Y')
+# TODO: 2019-11-20 add the code to do this, because you deleted 16 sliver hu12 ( area < 0.5) by hand on this date.
+# Don't let the zoneids change!!
+
+
+# # Add 100% open water designation to HU12
+# # First select only LAGOS lakes over 250 hectares (0.2% of HU12 size):  3567 lakes
+# arcpy.env.workspace = 'in_memory'
+# hu12 = [line for line in lines if line['LAGOS Zone Name'] == 'hu12'][0]['Output']
+# lagos_lakes_250ha = AN.Select(LAGOS_LAKES, 'lagos_lakes_250ha', 'Hectares > 250')
+# hu12_erase = AN.Erase(hu12, lagos_lakes_250ha, 'hu12_erase')
+# DM.AddField(hu12_erase, 'not_lake_pct', 'FLOAT')
+# pct_dict = {}
+# with arcpy.da.UpdateCursor(hu12_erase, ['hu12_zoneid', 'hu12_area_ha', 'not_lake_pct', 'SHAPE@']) as uCursor:
+#     for zone_id, area_ha, not_lake_pct, shape in uCursor:
+#         not_lake_pct = 100*shape.area/(area_ha*10000) # convert area_ha to square meters
+#         pct_dict[zone_id] = not_lake_pct
+#         uCursor.updateRow((zone_id, area_ha, not_lake_pct, shape))
+#
+# DM.AddField(hu12, 'openwaterhu12', 'TEXT', field_length = 1)
+# with arcpy.da.UpdateCursor(hu12, ['hu12_zoneid', 'openwaterhu12']) as uCursor:
+#     for zone_id, flag in uCursor:
+#         if pct_dict[zone_id] <= 20:
+#             flag = 'Y'
+#         else:
+#             flag = 'N'
+#     uCursor.updateRow((zone_id, flag))
+#
+# DM.Delete('in_memory')
+#
+#
+#
+# # Add hu12edge
+# # Atlantic Ocean name or Pacific Ocean or Gulf of Mexico name, does not have "Frontal", "Beach", "Bank" in the name AND contains no lakes
+# # 	Border slivers as detected by compactness (something like this query original_area_pct < 0.1 AND compactness < .2 AND area_ha < 60)
+# # 	Belongs to a HU8 not found in LAGOS (true for just one HU12: 040602000000)
+
+#scratch
+
+def update_zone(zone_fc, zone_name):
+    for fname in [name.format(zone_name) for name in ['{}_states',
+                                                   '{}_lat_decdeg',
+                                                   '{}_lon_decdeg']]:
+        DM.DeleteField(zone_fc, fname)
+
+    # rename
+    old_mp = '{}_multipart'.format(zone_name)
+    new_mp = '{}_ismultipart'.format(zone_name)
+    if not arcpy.ListFields(zone_fc, new_mp):
+        DM.AlterField(zone_fc, old_mp, new_mp, clear_field_alias=True)
+
+    # add lat long
+    spatial_divisions_processing.add_lat_lon(zone_fc, zone_name)
+
+    print("State assignment...")
+    # State?
+    if 'state' not in zone_fc:
+        spatial_divisions_processing.find_states(zone_fc, STATE_FC_FINDSTATE)
+
+    # preface the names with the division prefix if needed
+    fields = [f.name for f in arcpy.ListFields(zone_fc, '*')
+              if f.type not in ('OID', 'Geometry')
+              and not f.name.startswith('Shape_')
+              and not f.name.startswith(zone_name)]
+    for f in fields:
+        new_fname = '{zn}_{orig}'.format(zn=zone_name, orig=f).lower()
+        try:
+            DM.AlterField(zone_fc, f, new_fname, clear_field_alias='TRUE')
+        # sick of debugging the required field message-I don't want to change required fields anyway
+        except:
+            pass
+
+def process_buffer_zones(zones_fc, zone_name=''):
+    """
+    This function will add or refresh the following GEO metrics and flags as columns, modifying the input
+    feature class:
+    area_ha
+    perimeter_m
+    onlandborder
+    oncoast
+    ismultipart
+    lat
+    lon
+    states
+    inusa
+    lateglaciatedwisc
+
+    :param zones_fc: The zone feature class to add the columns to
+    :param zone_name: The zone name to use as a prefix for column names, if not the same as the feature class basename
+    :return: None
+    """
+
+    if not zone_name:
+        zone_name = os.path.basename(zones_fc)
+
+    # test geometry
+    if str(arcpy.Describe(zones_fc).spatialReference.factoryCode) not in ['5070', '102039']:
+        arcpy.AddError("""Zones feature class does not have desired projection (Albers USGS). 
+        Re-project to factory code 102039 and try again.""")
+        sys.exit(1)
+
+    # add field names except those added by functions below
+    # which are lat, lon, states, inusa, lateglaciatedwisc
+    area_ha = '{}_area_ha'.format(zone_name)
+    perimeter_m = '{}_perimeter_m'.format(zone_name)
+    onlandborder = '{}_onlandborder'.format(zone_name)
+    oncoast = '{}_oncoast'.format(zone_name)
+    ismultipart = '{}_ismultipart'.format(zone_name)
+    zoneid = '{}_zoneid'.format(zone_name)
+
+    # delete fields if necessary (refresh fields)
+    for fieldname in [area_ha, perimeter_m, onlandborder, oncoast, ismultipart]:
+        if arcpy.ListFields(zones_fc, fieldname):
+            DM.DeleteField(zones_fc, fieldname)
+    DM.AddField(zones_fc, area_ha, 'DOUBLE')
+    DM.AddField(zones_fc, perimeter_m, 'DOUBLE')
+    DM.AddField(zones_fc, onlandborder, 'TEXT', field_length=2)
+    DM.AddField(zones_fc, oncoast, 'TEXT', field_length=2)
+    DM.AddField(zones_fc, ismultipart, 'TEXT', field_length=2)
+
+    # calc geometry
+    with arcpy.da.UpdateCursor(zones_fc, [area_ha, perimeter_m, ismultipart, 'SHAPE@']) as cursor:
+        for row in cursor:
+            area, perim, multi, shape = row
+            area = shape.area/10000
+            perim = shape.length
+            # don't use shape.isMultipart this time because all buffers have a hole so always "True"
+            # use part count instead which doesn't count the hole as a part in our buffers
+            multi = 'Y' if shape.partCount > 1 else 'N'
+            row = [area, perim, multi, shape]
+            cursor.updateRow(row)
+
+    # calc edge flags
+    arcpy.AddMessage("Calculating edge flags...")
+    zone_layer = DM.MakeFeatureLayer(zones_fc, 'zone_layer')
+    border_lyr = DM.MakeFeatureLayer(LAND_BORDER, 'border_lyr')
+    DM.SelectLayerByLocation(zone_layer, 'INTERSECT', border_lyr)
+    DM.CalculateField(zone_layer, onlandborder, "'Y'", 'PYTHON')
+    DM.SelectLayerByAttribute(zone_layer, 'SWITCH_SELECTION')
+    DM.CalculateField(zone_layer, onlandborder, "'N'", 'PYTHON')
+
+    # identify coastal zones
+    coastal_lyr = DM.MakeFeatureLayer(COASTLINE, 'coastal_lyr')
+    DM.SelectLayerByLocation(zone_layer, 'INTERSECT', coastal_lyr)
+    DM.CalculateField(zone_layer, oncoast, "'Y'", 'PYTHON')
+    DM.SelectLayerByAttribute(zone_layer, 'SWITCH_SELECTION')
+    DM.CalculateField(zone_layer, oncoast, "'N'", 'PYTHON')
+
+    # add lat long
+    spatial_divisions_processing.add_lat_lon(zones_fc, zone_name)
+
+    print("State assignment...")
+    # State?
+    spatial_divisions_processing.find_states(zones_fc, STATE_FC_FINDSTATE, zone_name)
+
+    # glaciation status
+    calc_glaciation.calc(zones_fc, GLACIAL_EXTENT, zoneid, zone_name)
+
+    # fix
+
+    # in usa
+    spatial_divisions_processing.inusa_pct(zones_fc, zoneid, STATE_FC_FINDSTATE, zone_name)
+
+    # cleanup
+    for field in arcpy.ListFields(zones_fc, '*Join_Count*', '*TARGET_FID'):
+        DM.DeleteField(zones_fc, field.name)
+
+    for item in [border_lyr, coastal_lyr, zone_layer]:
+        DM.Delete(item)
+
+
+mgdb = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb'
+zones = ['buff100',
+         'buff500',
+         'nws',
+         'ws',
+         'hu12',
+         'hu8',
+         'hu4',
+         'county',
+         'state',
+         'wwf',
+         'mlra',
+         'bailey',
+         'neon',
+         'omernik3',
+         'epanutr']
+
+for z in zones:
+    print(z)
+    zone_fc = os.path.join(mgdb, z)
+    col_pattern = '{}_states'.format(z)
+    if arcpy.ListFields(zone_fc, col_pattern):
+        sourceid_field = arcpy.ListFields(zone_fc, col_pattern)[0].name
+        name_vals = [r[0] for r in arcpy.da.SearchCursor(zone_fc, sourceid_field)]
+        try:
+            print(max([len(v) for v in name_vals if v]))
+        except:
+            print("field is not character)")
+        print(any([True if not v else False for v in name_vals]))
diff --git a/lagosGIS/run_tools/dams_link_lake_junctions_doit.py b/lagosGIS/run_tools/dams_link_lake_junctions_doit.py
index 2a5aaea..71a58c5 100644
--- a/lagosGIS/run_tools/dams_link_lake_junctions_doit.py
+++ b/lagosGIS/run_tools/dams_link_lake_junctions_doit.py
@@ -1,6 +1,6 @@
 # filename: dams_link_lake_junctions_doit.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): CONN
 # tool type: code journal, internal use, batch run
 
diff --git a/lagosGIS/run_tools/doit_national_outlets_inlets.py b/lagosGIS/run_tools/doit_national_outlets_inlets.py
index d24a933..1ec0ab3 100644
--- a/lagosGIS/run_tools/doit_national_outlets_inlets.py
+++ b/lagosGIS/run_tools/doit_national_outlets_inlets.py
@@ -1,6 +1,6 @@
 # filename: do_national_outlets_inlets.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): CONN
 # tool type: code journal, batch run
 
diff --git a/lagosGIS/run_tools/make_lagos_lakes.py b/lagosGIS/run_tools/make_lagos_lakes.py
index d70914f..e2b0ee1 100644
--- a/lagosGIS/run_tools/make_lagos_lakes.py
+++ b/lagosGIS/run_tools/make_lagos_lakes.py
@@ -1,6 +1,6 @@
 # filename: make_lagos_lakes.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: code journal (no ArcGIS Toolbox)
 
diff --git a/lagosGIS/run_tools/make_lagos_streams.py b/lagosGIS/run_tools/make_lagos_streams.py
index 4b344a0..f0b7171 100644
--- a/lagosGIS/run_tools/make_lagos_streams.py
+++ b/lagosGIS/run_tools/make_lagos_streams.py
@@ -1,9 +1,8 @@
 # filename: make_lagos_streams.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): GEO
-# tool type: code journal, no ArcGIS toolbox
-# status: work in progress
+# tool type: code journal
 
 import os
 import re
@@ -35,27 +34,27 @@ def stream_process(gdb):
 
     return out_streams
 
-# # make a stream layer with Strahler for each gdb
-# for gdb in gdb_list:
-#     print(gdb)
-#     stream_process(gdb)
-#
-# # then merge to region
-# arcpy.env.workspace = OUTPUT_GDB
-# for region in regions:
-#     wildcard = 'streams_{}*'.format(region)
-#     print wildcard
-#     fcs = arcpy.ListFeatureClasses(wildcard)
-#     print(fcs)
-#     streams_all = 'streams_all_{}'.format(region)
-#     streams_24k = 'streams_24k_{}'.format(region)
-#     if not arcpy.Exists(streams_all):
-#         lagosGIS.efficient_merge(fcs, streams_all)
-#         arcpy.Select_analysis(streams_all, streams_24k, 'VisibilityFilter >= 24000')
-#
-#
-# streams_all_all = [os.path.join(OUTPUT_GDB, 'streams_all_{}'.format(region)) for region in regions if region not in ('10', '01', '02', '03')]
-#
+# make a stream layer with Strahler for each gdb
+for gdb in gdb_list:
+    print(gdb)
+    stream_process(gdb)
+
+# then merge to region
+arcpy.env.workspace = OUTPUT_GDB
+for region in regions:
+    wildcard = 'streams_{}*'.format(region)
+    print wildcard
+    fcs = arcpy.ListFeatureClasses(wildcard)
+    print(fcs)
+    streams_all = 'streams_all_{}'.format(region)
+    streams_24k = 'streams_24k_{}'.format(region)
+    if not arcpy.Exists(streams_all):
+        lagosGIS.efficient_merge(fcs, streams_all)
+        arcpy.Select_analysis(streams_all, streams_24k, 'VisibilityFilter >= 24000')
+
+
+streams_all_all = [os.path.join(OUTPUT_GDB, 'streams_all_{}'.format(region)) for region in regions if region not in ('10', '01', '02', '03')]
+
 all_streams_nhdhr = os.path.join(OUTPUT_GDB, 'all_streams_nhdhr')
 all_nhdarea = os.path.join(OUTPUT_GDB, 'all_nhdarea')
 artificial_paths = os.path.join(OUTPUT_GDB, 'artificial_paths')
@@ -65,24 +64,24 @@ def stream_process(gdb):
 river = os.path.join(OUTPUT_GDB, 'river')
 
 
-# lagosGIS.efficient_merge(streams_all_all, all_streams_nhdhr))
-
-# # # Merge all NHDArea polygons with StreamRiver ftype (460)
-# # nhd_areas = [os.path.join(gdb, 'NHDArea') for gdb in gdb_list]
-# # lagosGIS.efficient_merge(nhd_areas, all_nhdarea, 'FType = 460')
-#
-# # find artificial paths that are associated with StreamRiver polygons
-# print("artificial paths")
-# artificial_paths = arcpy.Select_analysis(all_streams_nhdhr, artificial_paths, 'FType = 558')
-# arcpy.Select_analysis(all_streams_nhdhr, final_streams, 'FType NOT IN (566, 558)')
-# area_permids = [r[0] for r in arcpy.da.SearchCursor(all_nhdarea, 'Permanent_Identifier')]
-# with arcpy.da.UpdateCursor(artificial_paths, ['WBArea_Permanent_Identifier']) as cursor:
-#     for row in cursor:
-#         if row[0] not in area_permids:
-#             cursor.deleteRow()
-#
-# #append
-# arcpy.Append_management(artificial_paths, final_streams)
+lagosGIS.efficient_merge(streams_all_all, all_streams_nhdhr)
+
+# Merge all NHDArea polygons with StreamRiver ftype (460)
+nhd_areas = [os.path.join(gdb, 'NHDArea') for gdb in gdb_list]
+lagosGIS.efficient_merge(nhd_areas, all_nhdarea, 'FType = 460')
+
+# find artificial paths that are associated with StreamRiver polygons
+print("artificial paths")
+artificial_paths = arcpy.Select_analysis(all_streams_nhdhr, artificial_paths, 'FType = 558')
+arcpy.Select_analysis(all_streams_nhdhr, final_streams, 'FType NOT IN (566, 558)')
+area_permids = [r[0] for r in arcpy.da.SearchCursor(all_nhdarea, 'Permanent_Identifier')]
+with arcpy.da.UpdateCursor(artificial_paths, ['WBArea_Permanent_Identifier']) as cursor:
+    for row in cursor:
+        if row[0] not in area_permids:
+            cursor.deleteRow()
+
+#append
+arcpy.Append_management(artificial_paths, final_streams)
 
 print("river")
 arcpy.Select_analysis(final_streams, river, 'StreamOrder >= 7')
diff --git a/lagosGIS/run_tools/temp_national_lakes_for_great_lakes_layer.py b/lagosGIS/run_tools/temp_national_lakes_for_great_lakes_layer.py
index e24452d..3525893 100644
--- a/lagosGIS/run_tools/temp_national_lakes_for_great_lakes_layer.py
+++ b/lagosGIS/run_tools/temp_national_lakes_for_great_lakes_layer.py
@@ -1,3 +1,9 @@
+# filename: temp_national_lakes_for_great_lakes_layer.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): all
+# tool type: code journal, internal use
+
 import arcpy
 
 # Locations. Change these for your system. To re-run this code, you can always run this whole section.
diff --git a/lagosGIS/run_tools/upstream_run.py b/lagosGIS/run_tools/upstream_run.py
index 0294373..5b74881 100644
--- a/lagosGIS/run_tools/upstream_run.py
+++ b/lagosGIS/run_tools/upstream_run.py
@@ -1,6 +1,6 @@
 # filename: upstream_run.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: code journal, internal use, batch run
 
diff --git a/lagosGIS/spatial_divisions_processing.py b/lagosGIS/spatial_divisions_processing.py
index ccbf6c3..0e55a95 100644
--- a/lagosGIS/spatial_divisions_processing.py
+++ b/lagosGIS/spatial_divisions_processing.py
@@ -1,454 +1,81 @@
 # filename: spatial_divisions_processing.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): GEO
-# tool type: code journal
-# status: working and re-usable internally, minor edits needed for GEO publication
+# tool type: re-usable (NOT in ArcGIS Toolbox)
 
-import csv
 import os
-import sys
 import arcpy
-from arcpy import management as DM
-from arcpy import analysis as AN
+from arcpy import analysis as AN, management as DM
 
-import calc_glaciation
-from lagosGIS import create_temp_GDB
-
-# files accessed by this script
-import zone_prep
-
-MASTER_CLIPPING_POLY = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\NonPublished\US_Countybased_Clip_Polygon'
-LAGOSNE_GDB = r'C:\Users\smithn78\Dropbox\CSI\CSI_LAGOS-exports\LAGOS-NE-EDI\LAGOS-NE-GIS\FileGDB\LAGOS_NE_GIS_Data_v1.0.gdb'
-LAND_BORDER =  r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\NonPublished\Derived_Land_Borders'
-COASTLINE = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\NonPublished\TIGER_Coastline'
-LAGOS_LAKES = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\LAGOS_US_All_Lakes_1ha'
-GLACIAL_EXTENT = r'C:\Users\smithn78\Dropbox\CL_HUB_GEO\GEO_datadownload_inprogress\DATA_glaciationlatewisc\Pre-processed\lgm_glacial_world.shp'
-STATE_FC = r'D:\Continental_Limnology\Data_Downloaded\LAGOS_ZONES_ALL\TIGER_Boundaries\Unzipped Original\tl_2016_us_state.shp'
-STATE_FC_FINDSTATE = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb\Spatial_Classifications\state'
-
-# files to control this script
-ZONE_CONTROL_CSV = r"C:\Users\smithn78\Dropbox\CL_HUB_GEO\Reprocessing_LAGOS_Zones.csv"
-TEMP_GDB = create_temp_GDB('process_zones')
-
-# --- HELPER FUNCTIONS--------------------------------------------------------------------------------------------------
-
-
-#---SETUP---------------------------------------------------------------------------------------------------------------
-
-arcpy.env.workspace = TEMP_GDB
-arcpy.env.outputCoordinateSystem = arcpy.SpatialReference(5070)
-
-# read the control file
-with open(ZONE_CONTROL_CSV) as csv_file:
-    reader = csv.DictReader(csv_file)
-    lines = [line for line in reader]
-
-HU8_OUTPUT = [line for line in lines if line['LAGOS Zone Name'] == 'hu8'][0]['Output']
-
-# Define the processing steps.
-# 1) Dissolve on ID.
-# 2) Clip to USA
-# 3) Calculate original area.
-# 4) Generate unique zone IDs.
-def process_zone(zone_fc, output, zone_name, zone_id_field, zone_name_field, other_keep_fields, clip_hu8, lagosne_name):
-    # dissolve fields by the field that zone_id is based on (the field that identifies a unique zone)
-    dissolve_fields = [f for f in "{}, {}, {}".format(
-        zone_id_field, zone_name_field, other_keep_fields).split(', ') if f != '']
-    print("Dissolving...")
-    dissolve1 = DM.Dissolve(zone_fc, 'dissolve1', dissolve_fields)
-
-    # update name field to match our standard
-    DM.AlterField(dissolve1, zone_name_field, 'name')
-
-    # original area
-
-    DM.AddField(dissolve1, 'originalarea', 'DOUBLE')
-    DM.CalculateField(dissolve1, 'originalarea', '!shape.area@hectares!', 'PYTHON')
-
-    #clip
-    print("Clipping...")
-    clip = AN.Clip(dissolve1, MASTER_CLIPPING_POLY, 'clip')
-    if clip_hu8 == 'Y':
-        final_clip = AN.Clip(clip, HU8_OUTPUT, 'final_clip')
-    else:
-        final_clip = clip
-
-    print("Selecting...")
-    # calc new area, orig area pct, compactness
-    DM.AddField(final_clip, 'area_ha', 'DOUBLE')
-    DM.AddField(final_clip, 'originalarea_pct', 'DOUBLE')
-    DM.AddField(final_clip, 'compactness', 'DOUBLE')
-    DM.JoinField(final_clip, zone_id_field, dissolve1, zone_id_field, 'originalarea_pct')
-
-    uCursor_fields = ['area_ha', 'originalarea_pct', 'originalarea', 'compactness', 'SHAPE@AREA', 'SHAPE@LENGTH']
-    with arcpy.da.UpdateCursor(final_clip, uCursor_fields) as uCursor:
-        for row in uCursor:
-            area, orig_area_pct, orig_area, comp, shape_area, shape_length = row
-            area = shape_area/10000 # convert from m2 to hectares
-            orig_area_pct = round(100 * area / orig_area, 2)
-            comp = 4*3.14159*shape_area/(shape_length**2)
-            row = (area, orig_area_pct, orig_area, comp, shape_area, shape_length)
-            uCursor.updateRow(row)
-
-    # if zones are present with <5% of original area and a compactness measure of <.2 (ranges from 0-1)
-    # AND ALSO they are no bigger than 500 sq. km. (saves Chippewa County and a WWF), filter out
-    # save eliminated polygons to temp database as a separate layer for inspection
-
-    # Different processing for HU4 and HU8, so that they match the extent of HU8 more closely but still throw out tiny slivers
-    # County also only eliminated if a tiny, tiny, tiny sliver (so: none should be eliminated)
-    if zone_name not in ('hu4', 'hu12', 'county'):
-        selected = AN.Select(final_clip, 'selected', "originalarea_pct >= 5 OR compactness >= .2 OR area_ha > 50000")
-        not_selected = AN.Select(final_clip, '{}_not_selected'.format(output),
-                                 "originalarea_pct < 5 AND compactness < .2 AND area_ha < 50000")
-
-    else:
-        selected = final_clip
-    # eliminate small slivers, re-calc area fields, add perimeter and multipart flag
-    # leaves the occasional errant sliver but some areas over 25 hectares are more valid so this is
-    # CONSERVATIVE
-    print("Trimming...")
-    trimmed = DM.EliminatePolygonPart(selected, 'trimmed', 'AREA', '25 Hectares', part_option = 'ANY')
-
-    # gather up a few calculations into one cursor because this is taking too long over the HU12 layer
-    DM.AddField(trimmed, 'perimeter_m', 'DOUBLE')
-    DM.AddField(trimmed, 'ismultipart', 'TEXT', field_length = 1)
-    uCursor_fields = ['area_ha', 'originalarea_pct', 'originalarea', 'perimeter_m', 'ismultipart', 'SHAPE@']
-    with arcpy.da.UpdateCursor(trimmed, uCursor_fields) as uCursor:
-        for row in uCursor:
-            area, orig_area_pct, orig_area, perim, multipart, shape = row
-            area = shape.area/10000 # convert to hectares from m2
-            orig_area_pct = round(100*area/orig_area, 2)
-            perim = shape.length
-
-            # multipart flag calc
-            if shape.isMultipart:
-                multipart = 'Y'
-            else:
-                multipart = 'N'
-            row = (area, orig_area_pct, orig_area, perim, multipart, shape)
-            uCursor.updateRow(row)
-
-    # delete intermediate fields
-    DM.DeleteField(trimmed, 'compactness')
-    DM.DeleteField(trimmed, 'originalarea')
-
-    print("Zone IDs....")
-    # link to LAGOS-NE zone IDs
-    DM.AddField(trimmed, 'zoneid', 'TEXT', field_length = 40)
-    trimmed_lyr = DM.MakeFeatureLayer(trimmed, 'trimmed_lyr')
-    if lagosne_name:
-        # join to the old master GDB path on the same master field and copy in the ids
-        old_fc = os.path.join(LAGOSNE_GDB, lagosne_name)
-        old_fc_lyr = DM.MakeFeatureLayer(old_fc, 'old_fc_lyr')
-        if lagosne_name == 'STATE' or lagosne_name == 'COUNTY':
-            DM.AddJoin(trimmed_lyr, zone_id_field, old_fc_lyr, 'FIPS')
-        else:
-            DM.AddJoin(trimmed_lyr, zone_id_field, old_fc_lyr, zone_id_field) # usually works because same source data
-
-        # copy
-        DM.CalculateField(trimmed_lyr, 'zoneid', '!{}.ZoneID!.lower()'.format(lagosne_name), 'PYTHON')
-        DM.RemoveJoin(trimmed_lyr)
-
-    # generate new zone ids
-    old_ids = [row[0] for row in arcpy.da.SearchCursor(trimmed, 'zoneid')]
-    with arcpy.da.UpdateCursor(trimmed, 'zoneid') as cursor:
-        counter = 1
-        for row in cursor:
-            if not row[0]: # if no existing ID borrowed from LAGOS-NE, assign a new one
-                new_id = '{name}_{num}'.format(name = zone_name, num = counter)
-
-                # ensures new ids don't re-use old numbers but fills in all positive numbers eventually
-                while new_id in old_ids:
-                    counter +=1
-                    new_id = '{name}_{num}'.format(name = zone_name, num = counter)
-                row[0] = new_id
-                cursor.updateRow(row)
-                counter += 1
-
-    print("Edge flags...")
-    # add flag fields
-    DM.AddField(trimmed, 'onlandborder', 'TEXT', field_length = 2)
-    DM.AddField(trimmed, 'oncoast', 'TEXT', field_length = 2)
-
-    # identify border zones
-    border_lyr = DM.MakeFeatureLayer(LAND_BORDER, 'border_lyr')
-    DM.SelectLayerByLocation(trimmed_lyr, 'INTERSECT', border_lyr)
-    DM.CalculateField(trimmed_lyr, 'onlandborder', "'Y'", 'PYTHON')
-    DM.SelectLayerByAttribute(trimmed_lyr, 'SWITCH_SELECTION')
-    DM.CalculateField(trimmed_lyr, 'onlandborder' ,"'N'", 'PYTHON')
-
-    # identify coastal zones
-    coastal_lyr = DM.MakeFeatureLayer(COASTLINE, 'coastal_lyr')
-    DM.SelectLayerByLocation(trimmed_lyr, 'INTERSECT', coastal_lyr)
-    DM.CalculateField(trimmed_lyr, 'oncoast', "'Y'", 'PYTHON')
-    DM.SelectLayerByAttribute(trimmed_lyr, 'SWITCH_SELECTION')
-    DM.CalculateField(trimmed_lyr, 'oncoast' ,"'N'", 'PYTHON')
-
-    # label sourcezoneid
-    sourceid_name = 'sourceid_{}'.format(zone_id_field.replace('_', ''))
-    arcpy.AlterField(trimmed, zone_id_field, 'sourceid', clear_field_alias=True)
-
-    # add lat long
-    zone_prep.add_lat_lon(trimmed)
-
-    print("State assignment...")
-    # State?
-    zone_prep.find_states(trimmed, STATE_FC_FINDSTATE)
-
-    # glaciation status
-    calc_glaciation.calc(trimmed, GLACIAL_EXTENT, 'ZoneID')
-
-    # preface the names with the division prefix if needed
-    DM.DeleteField(trimmed, 'ORIG_FID')
-    fields = [f.name for f in arcpy.ListFields(trimmed, '*')
-              if f.type not in ('OID', 'Geometry')
-              and not f.name.startswith('Shape_')
-              and not f.name.startswith(zone_name)]
-    for f in fields:
-        new_fname = '{zn}_{orig}'.format(zn=zone_name, orig = f).lower()
-        try:
-            DM.AlterField(trimmed, f, new_fname, clear_field_alias = 'TRUE')
-        # sick of debugging the required field message-I don't want to change required fields anyway
-        except:
-            pass
-
-    DM.CopyFeatures(trimmed, output)
-
-    # cleanup
-    lyr_objects = [lyr_object for var_name, lyr_object in locals().items() if var_name.endswith('lyr')]
-    temp_fcs = arcpy.ListFeatureClasses('*')
-    for l in lyr_objects + temp_fcs:
-        DM.Delete(l)
-
-# COUNTY was originally processed by hand due to the need for manual editing
-# Then it was used the make the clipping poly that is used in this script
-
-# Then process HU8 because it will be used to clip HU4 and HU12 also
-hu8 = [line for line in lines if line['LAGOS Zone Name'] == 'hu8'][0]
-print('hu8')
-process_zone(hu8['Original'],
-             hu8['Output'],
-             hu8['LAGOS Zone Name'],
-             hu8['Zone Field'],
-             hu8['Name Field'],
-             hu8['Other Keep Fields'],
-             hu8['Clip to HU8'],
-             hu8['LAGOS-NE Name'])
-
-# Then loop through everything else
-# County is included just to make it easier to reproduce and prove it's consistent with the others
-lines = [line for line in lines if line['LAGOS Zone Name'] not in ('hu8')]
-for line in lines:
-    print(line['LAGOS Zone Name'])
-    process_zone(line['Original'],
-                 line['Output'],
-                 line['LAGOS Zone Name'],
-                 line['Zone Field'],
-                 line['Name Field'],
-                 line['Other Keep Fields'],
-                 line['Clip to HU8'],
-                 line['LAGOS-NE Name'])
-
-
-
-# delete hu12 with SHAPE_Area < 5000 and (hu12_onlandborder = 'Y' or hu12_oncoast = 'Y')
-# TODO: 2019-11-20 add the code to do this, because you deleted 16 sliver hu12 ( area < 0.5) by hand on this date.
-# Don't let the zoneids change!!
-
-
-# # Add 100% open water designation to HU12
-# # First select only LAGOS lakes over 250 hectares (0.2% of HU12 size):  3567 lakes
-# arcpy.env.workspace = 'in_memory'
-# hu12 = [line for line in lines if line['LAGOS Zone Name'] == 'hu12'][0]['Output']
-# lagos_lakes_250ha = AN.Select(LAGOS_LAKES, 'lagos_lakes_250ha', 'Hectares > 250')
-# hu12_erase = AN.Erase(hu12, lagos_lakes_250ha, 'hu12_erase')
-# DM.AddField(hu12_erase, 'not_lake_pct', 'FLOAT')
-# pct_dict = {}
-# with arcpy.da.UpdateCursor(hu12_erase, ['hu12_zoneid', 'hu12_area_ha', 'not_lake_pct', 'SHAPE@']) as uCursor:
-#     for zone_id, area_ha, not_lake_pct, shape in uCursor:
-#         not_lake_pct = 100*shape.area/(area_ha*10000) # convert area_ha to square meters
-#         pct_dict[zone_id] = not_lake_pct
-#         uCursor.updateRow((zone_id, area_ha, not_lake_pct, shape))
-#
-# DM.AddField(hu12, 'openwaterhu12', 'TEXT', field_length = 1)
-# with arcpy.da.UpdateCursor(hu12, ['hu12_zoneid', 'openwaterhu12']) as uCursor:
-#     for zone_id, flag in uCursor:
-#         if pct_dict[zone_id] <= 20:
-#             flag = 'Y'
-#         else:
-#             flag = 'N'
-#     uCursor.updateRow((zone_id, flag))
-#
-# DM.Delete('in_memory')
-#
-#
-#
-# # Add hu12edge
-# # Atlantic Ocean name or Pacific Ocean or Gulf of Mexico name, does not have "Frontal", "Beach", "Bank" in the name AND contains no lakes
-# # 	Border slivers as detected by compactness (something like this query original_area_pct < 0.1 AND compactness < .2 AND area_ha < 60)
-# # 	Belongs to a HU8 not found in LAGOS (true for just one HU12: 040602000000)
-
-#scratch
-
-def update_zone(zone_fc, zone_name):
-    for fname in [name.format(zone_name) for name in ['{}_states',
-                                                   '{}_lat_decdeg',
-                                                   '{}_lon_decdeg']]:
-        DM.DeleteField(zone_fc, fname)
-
-    # rename
-    old_mp = '{}_multipart'.format(zone_name)
-    new_mp = '{}_ismultipart'.format(zone_name)
-    if not arcpy.ListFields(zone_fc, new_mp):
-        DM.AlterField(zone_fc, old_mp, new_mp, clear_field_alias=True)
-
-    # add lat long
-    zone_prep.add_lat_lon(zone_fc, zone_name)
-
-    print("State assignment...")
-    # State?
-    if 'state' not in zone_fc:
-        zone_prep.find_states(zone_fc, STATE_FC_FINDSTATE)
-
-    # preface the names with the division prefix if needed
-    fields = [f.name for f in arcpy.ListFields(zone_fc, '*')
-              if f.type not in ('OID', 'Geometry')
-              and not f.name.startswith('Shape_')
-              and not f.name.startswith(zone_name)]
-    for f in fields:
-        new_fname = '{zn}_{orig}'.format(zn=zone_name, orig=f).lower()
-        try:
-            DM.AlterField(zone_fc, f, new_fname, clear_field_alias='TRUE')
-        # sick of debugging the required field message-I don't want to change required fields anyway
-        except:
-            pass
-
-def process_buffer_zones(zones_fc, zone_name=''):
-    """
-    This function will add or refresh the following GEO metrics and flags as columns, modifying the input
-    feature class:
-    area_ha
-    perimeter_m
-    onlandborder
-    oncoast
-    ismultipart
-    lat
-    lon
-    states
-    inusa
-    lateglaciatedwisc
-
-    :param zones_fc: The zone feature class to add the columns to
-    :param zone_name: The zone name to use as a prefix for column names, if not the same as the feature class basename
-    :return: None
-    """
 
+def add_lat_lon(fc, zone_name=''):
+    """Add fields for lat and long, per LAGOS naming standard. Only works when fc path is short (use env.workspace.)"""
     if not zone_name:
-        zone_name = os.path.basename(zones_fc)
-
-    # test geometry
-    if str(arcpy.Describe(zones_fc).spatialReference.factoryCode) not in ['5070', '102039']:
-        arcpy.AddError("""Zones feature class does not have desired projection (Albers USGS). 
-        Re-project to factory code 102039 and try again.""")
-        sys.exit(1)
-
-    # add field names except those added by functions below
-    # which are lat, lon, states, inusa, lateglaciatedwisc
-    area_ha = '{}_area_ha'.format(zone_name)
-    perimeter_m = '{}_perimeter_m'.format(zone_name)
-    onlandborder = '{}_onlandborder'.format(zone_name)
-    oncoast = '{}_oncoast'.format(zone_name)
-    ismultipart = '{}_ismultipart'.format(zone_name)
-    zoneid = '{}_zoneid'.format(zone_name)
-
-    # delete fields if necessary (refresh fields)
-    for fieldname in [area_ha, perimeter_m, onlandborder, oncoast, ismultipart]:
-        if arcpy.ListFields(zones_fc, fieldname):
-            DM.DeleteField(zones_fc, fieldname)
-    DM.AddField(zones_fc, area_ha, 'DOUBLE')
-    DM.AddField(zones_fc, perimeter_m, 'DOUBLE')
-    DM.AddField(zones_fc, onlandborder, 'TEXT', field_length=2)
-    DM.AddField(zones_fc, oncoast, 'TEXT', field_length=2)
-    DM.AddField(zones_fc, ismultipart, 'TEXT', field_length=2)
-
-    # calc geometry
-    with arcpy.da.UpdateCursor(zones_fc, [area_ha, perimeter_m, ismultipart, 'SHAPE@']) as cursor:
-        for row in cursor:
-            area, perim, multi, shape = row
-            area = shape.area/10000
-            perim = shape.length
-            # don't use shape.isMultipart this time because all buffers have a hole so always "True"
-            # use part count instead which doesn't count the hole as a part in our buffers
-            multi = 'Y' if shape.partCount > 1 else 'N'
-            row = [area, perim, multi, shape]
-            cursor.updateRow(row)
-
-    # calc edge flags
-    arcpy.AddMessage("Calculating edge flags...")
-    zone_layer = DM.MakeFeatureLayer(zones_fc, 'zone_layer')
-    border_lyr = DM.MakeFeatureLayer(LAND_BORDER, 'border_lyr')
-    DM.SelectLayerByLocation(zone_layer, 'INTERSECT', border_lyr)
-    DM.CalculateField(zone_layer, onlandborder, "'Y'", 'PYTHON')
-    DM.SelectLayerByAttribute(zone_layer, 'SWITCH_SELECTION')
-    DM.CalculateField(zone_layer, onlandborder, "'N'", 'PYTHON')
-
-    # identify coastal zones
-    coastal_lyr = DM.MakeFeatureLayer(COASTLINE, 'coastal_lyr')
-    DM.SelectLayerByLocation(zone_layer, 'INTERSECT', coastal_lyr)
-    DM.CalculateField(zone_layer, oncoast, "'Y'", 'PYTHON')
-    DM.SelectLayerByAttribute(zone_layer, 'SWITCH_SELECTION')
-    DM.CalculateField(zone_layer, oncoast, "'N'", 'PYTHON')
-
-    # add lat long
-    zone_prep.add_lat_lon(zones_fc, zone_name)
-
-    print("State assignment...")
-    # State?
-    zone_prep.find_states(zones_fc, STATE_FC_FINDSTATE, zone_name)
-
-    # glaciation status
-    calc_glaciation.calc(zones_fc, GLACIAL_EXTENT, zoneid, zone_name)
-
-    # fix
-
-    # in usa
-    zone_prep.inusa_pct(zones_fc, zoneid, STATE_FC_FINDSTATE, zone_name)
-
-    # cleanup
-    for field in arcpy.ListFields(zones_fc, '*Join_Count*', '*TARGET_FID'):
-        DM.DeleteField(zones_fc, field.name)
-
-    for item in [border_lyr, coastal_lyr, zone_layer]:
-        DM.Delete(item)
-
-
-mgdb = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.7.gdb'
-zones = ['buff100',
-         'buff500',
-         'nws',
-         'ws',
-         'hu12',
-         'hu8',
-         'hu4',
-         'county',
-         'state',
-         'wwf',
-         'mlra',
-         'bailey',
-         'neon',
-         'omernik3',
-         'epanutr']
-
-for z in zones:
-    print(z)
-    zone_fc = os.path.join(mgdb, z)
-    col_pattern = '{}_states'.format(z)
-    if arcpy.ListFields(zone_fc, col_pattern):
-        sourceid_field = arcpy.ListFields(zone_fc, col_pattern)[0].name
-        name_vals = [r[0] for r in arcpy.da.SearchCursor(zone_fc, sourceid_field)]
-        try:
-            print(max([len(v) for v in name_vals if v]))
-        except:
-            print("field is not character)")
-        print(any([True if not v else False for v in name_vals]))
+        zone_name = fc
+    lat = '{}_lat_decdeg'.format(zone_name)
+    lon = '{}_lon_decdeg'.format(zone_name)
+    if not arcpy.ListFields(fc, lat):
+        DM.AddField(fc, lat, 'DOUBLE')
+    if not arcpy.ListFields(fc, lon):
+        DM.AddField(fc, lon, 'DOUBLE')
+    orig_crs = arcpy.SpatialReference(5070)
+    new_crs = arcpy.SpatialReference(4326)  # NAD83
+
+    with arcpy.da.UpdateCursor(fc, [lat, lon, 'SHAPE@']) as u_cursor:
+        for row in u_cursor:
+            centroid = arcpy.PointGeometry(row[2].centroid, orig_crs)
+            centroid_nad83 = centroid.projectAs(new_crs)
+            row[0] = centroid_nad83.firstPoint.Y
+            row[1] = centroid_nad83.firstPoint.X
+            u_cursor.updateRow(row)
+
+
+def find_states(fc, state_fc, zone_name=''):
+    """Populate *_states field. States fc must have field 'states' with length 255 and state abbreviations within."""
+    if zone_name:
+        zone_name = zone_name
+    else:
+        zone_name = os.path.basename(fc)
+    states_field = '{}_states'.format(zone_name)
+    if arcpy.ListFields(fc, states_field):
+        DM.DeleteField(fc, states_field)
+
+
+    # make a field mapping that gathers all the intersecting states into one new value
+    field_list = [f.name for f in arcpy.ListFields(fc) if f.type <> 'OID' and f.type <> 'Geometry']
+    field_mapping = arcpy.FieldMappings()
+    for f in field_list:
+        map = arcpy.FieldMap()
+        map.addInputField(fc, f)
+        field_mapping.addFieldMap(map)
+    map_states = arcpy.FieldMap()
+    map_states.addInputField(state_fc, 'states')
+    map_states.mergeRule = 'Join'
+    map_states.joinDelimiter = ' '
+    field_mapping.addFieldMap(map_states)
+
+    # perform join and use output to replace original fc
+    spjoin = AN.SpatialJoin(fc, state_fc, 'in_memory/spjoin_intersect', 'JOIN_ONE_TO_ONE',
+                            field_mapping=field_mapping, match_option='INTERSECT')
+    DM.AlterField(spjoin, 'states', new_field_name=states_field, clear_field_alias=True)
+    DM.Delete(fc)
+    DM.CopyFeatures(spjoin, fc)
+    DM.Delete(spjoin)
+
+def inusa_pct(zone_fc, zoneid, states_fc, zone_name=''):
+    DM.AddField(zone_fc, '{}_inusa_pct'.format(zone_name), 'DOUBLE')
+    # percent in USA
+    arcpy.AddMessage('Tabulating intersection...')
+    arcpy.TabulateIntersection_analysis(zone_fc, zoneid, states_fc, 'in_memory/tabarea')
+
+    # round to 2 digits and don't let values exceed 100
+    inusa_dict = {r[0]:min(round(r[1],2), 100)
+                  for r in arcpy.da.SearchCursor('in_memory/tabarea', [zoneid, 'PERCENTAGE'])}
+
+    with arcpy.da.UpdateCursor(zone_fc, [zoneid, 'inusa_pct']) as u_cursor:
+        for row in u_cursor:
+            row[1] = inusa_dict[row[0]]
+            u_cursor.updateRow(row)
+
+    DM.Delete('in_memory/tabarea')
\ No newline at end of file
diff --git a/lagosGIS/stream_density.py b/lagosGIS/stream_density.py
index 334b26d..bd6a267 100644
--- a/lagosGIS/stream_density.py
+++ b/lagosGIS/stream_density.py
@@ -1,3 +1,9 @@
+# filename: stream_density.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import os
 import arcpy
 import lagosGIS
@@ -27,8 +33,6 @@ def calc_all(zones_fc, zone_field, lines_fc, out_table, zone_prefix=''):
     # Perform identity analysis to join fields and crack lines at polygon boundaries
     arcpy.AddMessage("Cracking lines...")
     lines_identity = arcpy.Identity_analysis(lines_fc, zones_only, 'lines_identity', cluster_tolerance='1 meters')
-    arcpy.AddMessage("Summarizing results...")
-    print("Calculating length...")
     arcpy.AddField_management(lines_identity, 'length_m', 'DOUBLE')
     with arcpy.da.UpdateCursor(lines_identity, ['length_m', 'SHAPE@LENGTH']) as cursor:
         for row in cursor:
@@ -51,19 +55,16 @@ def calc_all(zones_fc, zone_field, lines_fc, out_table, zone_prefix=''):
 
     def summarize_cracked(cracked_lines, density_field_name):
         # calc total length grouped by zone (numerator)
-        print("Statistics...")
         lines_stat = arcpy.Statistics_analysis(cracked_lines, 'lines_stat', 'length_m SUM', zone_field)
         lines_stat_full = lagosGIS.one_in_one_out(lines_stat, zones_fc, zone_field, 'lines_stat_full')
 
         # get area of zones for density calc (denominator)
-        print("Getting zone areas...")
         zones_area = {}
         with arcpy.da.SearchCursor(zones_fc, [zone_field, 'SHAPE@']) as cursor:
             for row in cursor:
                 zones_area[row[0]] = row[1].getArea(units='HECTARES')
 
         # calc the density by dividing
-        print("Calculating density...")
         arcpy.AddField_management(lines_stat_full, density_field_name, 'DOUBLE')
         with arcpy.da.UpdateCursor(lines_stat_full, [zone_field, density_field_name, 'SUM_length_m']) as cursor:
             for row in cursor:
diff --git a/lagosGIS/summarize_raster_for_all_zones.py b/lagosGIS/summarize_raster_for_all_zones.py
index 1304aae..86071a4 100644
--- a/lagosGIS/summarize_raster_for_all_zones.py
+++ b/lagosGIS/summarize_raster_for_all_zones.py
@@ -1,3 +1,10 @@
+# filename: summarize_raster_for_all_zones.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+# status: To be implemented
+
 import os
 import arcpy
 import zonal_summary_of_raster_data
@@ -17,3 +24,13 @@ def summarize(lagos_zone_rasters_list, raster_to_summarize, variable_basename =
 
     # manage the renaming process
 
+def main():
+    lagos_zone_raster_list_input = arcpy.GetParameterAsText(0)
+    lagos_zone_raster_list = lagos_zone_raster_list_input.split(";")
+    raster_to_summarize = arcpy.GetParameterAsText(1)
+    variable_basename = arcpy.GetParameterAsText(2)
+    is_thematic = arcpy.GetParameter(3) # boolean
+    summarize(lagos_zone_raster_list, raster_to_summarize, variable_basename, is_thematic)
+
+if __name__ == '__main__':
+    main()
\ No newline at end of file
diff --git a/lagosGIS/upstream_lakes.py b/lagosGIS/upstream_lakes.py
index 0d9dce0..da70292 100644
--- a/lagosGIS/upstream_lakes.py
+++ b/lagosGIS/upstream_lakes.py
@@ -1,6 +1,6 @@
 # filename: upstream_lakes.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/add_lake_seeds_toolbox.py b/lagosGIS/watershed_delineation/add_lake_seeds_toolbox.py
index 010fb57..60fef30 100644
--- a/lagosGIS/watershed_delineation/add_lake_seeds_toolbox.py
+++ b/lagosGIS/watershed_delineation/add_lake_seeds_toolbox.py
@@ -1,6 +1,6 @@
 # filename: add_lake_seeds_toolbox.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/add_waterbody_nhdpid_toolbox.py b/lagosGIS/watershed_delineation/add_waterbody_nhdpid_toolbox.py
index 0f19755..ff36f42 100644
--- a/lagosGIS/watershed_delineation/add_waterbody_nhdpid_toolbox.py
+++ b/lagosGIS/watershed_delineation/add_waterbody_nhdpid_toolbox.py
@@ -1,6 +1,6 @@
 # filename: add_waterbody_nhdpid_toolbox.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/aggregate_watersheds.py b/lagosGIS/watershed_delineation/aggregate_watersheds.py
index 8599fbe..b904476 100644
--- a/lagosGIS/watershed_delineation/aggregate_watersheds.py
+++ b/lagosGIS/watershed_delineation/aggregate_watersheds.py
@@ -1,6 +1,6 @@
 # filename: aggregate_watersheds.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/delineate_catchments_toolbox.py b/lagosGIS/watershed_delineation/delineate_catchments_toolbox.py
index d0a9d26..a1e89ce 100644
--- a/lagosGIS/watershed_delineation/delineate_catchments_toolbox.py
+++ b/lagosGIS/watershed_delineation/delineate_catchments_toolbox.py
@@ -1,6 +1,6 @@
 # filename: delineate_catchments_toolbox.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/fix_hydrodem_toolbox.py b/lagosGIS/watershed_delineation/fix_hydrodem_toolbox.py
index 272e857..b7b82fb 100644
--- a/lagosGIS/watershed_delineation/fix_hydrodem_toolbox.py
+++ b/lagosGIS/watershed_delineation/fix_hydrodem_toolbox.py
@@ -1,6 +1,6 @@
 # filename: fix_hydrodem_toolbox.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/flow_direction_toolbox.py b/lagosGIS/watershed_delineation/flow_direction_toolbox.py
index d85e06e..acb63df 100644
--- a/lagosGIS/watershed_delineation/flow_direction_toolbox.py
+++ b/lagosGIS/watershed_delineation/flow_direction_toolbox.py
@@ -1,6 +1,6 @@
 # filename: flow_direction_toolbox.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/make_hydrodem_toolbox.py b/lagosGIS/watershed_delineation/make_hydrodem_toolbox.py
index c0b7154..895a66e 100644
--- a/lagosGIS/watershed_delineation/make_hydrodem_toolbox.py
+++ b/lagosGIS/watershed_delineation/make_hydrodem_toolbox.py
@@ -1,6 +1,6 @@
 # filename: make_hydrodem_toolbox.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/nhd_plus_watersheds_tools.py b/lagosGIS/watershed_delineation/nhd_plus_watersheds_tools.py
index 884edbc..fd22f61 100644
--- a/lagosGIS/watershed_delineation/nhd_plus_watersheds_tools.py
+++ b/lagosGIS/watershed_delineation/nhd_plus_watersheds_tools.py
@@ -1,6 +1,6 @@
 # filename: nhd_plus_watersheds_tools.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)--tools called in individual scripts to make tools
 
diff --git a/lagosGIS/watershed_delineation/postprocess_watersheds.py b/lagosGIS/watershed_delineation/postprocess_watersheds.py
index befc0dc..ac2c47c 100644
--- a/lagosGIS/watershed_delineation/postprocess_watersheds.py
+++ b/lagosGIS/watershed_delineation/postprocess_watersheds.py
@@ -1,16 +1,16 @@
 # filename: postprocess_watersheds.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: code journal (no ArcGIS Toolbox)
 
 import arcpy
 from arcpy import management as DM
 
-import calc_glaciation
+
 import lagosGIS
-import lagosGIS.zone_prep
-import NHDNetwork
+import lagosGIS.calc_glaciation as calc_glaciation
+import lagosGIS.NHDNetwork as NHDNetwork
 
 LAND_BORDER =  r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.8.gdb\NonPublished\Derived_Land_Borders'
 COASTLINE = r'D:\Continental_Limnology\Data_Working\LAGOS_US_GIS_Data_v0.8.gdb\NonPublished\TIGER_Coastline'
@@ -56,7 +56,7 @@ def calc_watershed_subtype(nhd_gdb, interlake_fc, fits_naming_standard=True):
     if fits_naming_standard:
         permid = 'ws_permanent_identifier'
         eq = 'ws_equalsnws'
-        vpuid = 'ws_vpuid'
+        vpuid = 'VPUID'
 
     else:
         permid = 'Permanent_Identifier'
@@ -278,7 +278,7 @@ def process_ws(sheds_fc, zone_name, network_fc ='', nhd_gdb='', fits_naming_stan
 
     # assign states to zone
     print('State assignment...')
-    lagosGIS.zone_prep.find_states(sheds_fc, STATES_GEO, zone_name)
+    lagosGIS.spatial_divisions_processing.find_states(sheds_fc, STATES_GEO, zone_name)
     # glaciation status
     calc_glaciation.calc(sheds_fc, GLACIAL_EXTENT, zoneid, zone_name)
 
diff --git a/lagosGIS/watershed_delineation/update_grid_codes_toolbox.py b/lagosGIS/watershed_delineation/update_grid_codes_toolbox.py
index 537c027..d73cb35 100644
--- a/lagosGIS/watershed_delineation/update_grid_codes_toolbox.py
+++ b/lagosGIS/watershed_delineation/update_grid_codes_toolbox.py
@@ -1,6 +1,6 @@
 # filename: update_grid_codes_toolbox.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: re-usable (ArcGIS Toolbox)
 
diff --git a/lagosGIS/watershed_delineation/watersheds_merge_run.py b/lagosGIS/watershed_delineation/watersheds_merge_run.py
index f658e99..38c0d16 100644
--- a/lagosGIS/watershed_delineation/watersheds_merge_run.py
+++ b/lagosGIS/watershed_delineation/watersheds_merge_run.py
@@ -1,6 +1,6 @@
 # filename: watersheds_merge_run.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: code journal (no ArcGIS Toolbox, workstation-specific paths)
 
diff --git a/lagosGIS/watershed_delineation/watersheds_toolchain.py b/lagosGIS/watershed_delineation/watersheds_toolchain.py
index c754ab0..1167b2e 100644
--- a/lagosGIS/watershed_delineation/watersheds_toolchain.py
+++ b/lagosGIS/watershed_delineation/watersheds_toolchain.py
@@ -1,6 +1,6 @@
 # filename: watersheds_toolchain.py
 # author: Nicole J Smith
-# version: 2.0 Beta
+# version: 2.0
 # LAGOS module(s): LOCUS
 # tool type: code journal (no ArcGIS Toolbox, workstation-specific paths)
 # purpose: This code was used to string together the watersheds tools in the correct order for LAGOS, as well as
diff --git a/lagosGIS/zonal_summary_of_classed_polygons.py b/lagosGIS/zonal_summary_of_classed_polygons.py
index b55af7a..e402614 100644
--- a/lagosGIS/zonal_summary_of_classed_polygons.py
+++ b/lagosGIS/zonal_summary_of_classed_polygons.py
@@ -1,3 +1,9 @@
+# filename: zonal_summary_of_classed_polygons.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import csv
 import os
 import arcpy
@@ -7,8 +13,6 @@
 def summarize(zone_fc, zone_field, class_fc, out_table, class_field, rename_tag=''):
 
     def rename_to_standard(table, numeric=False):
-        arcpy.AddMessage("Renaming.")
-
         # look up the values based on the rename tag
         this_files_dir = os.path.dirname(os.path.abspath(__file__))
         os.chdir(this_files_dir)
@@ -19,7 +23,7 @@ def rename_to_standard(table, numeric=False):
                        for row in reader if row['main_feature'] in rename_tag and row['main_feature']}
             if numeric:
                 mapping = {'{}{}'.format(class_field, k):v for k, v in mapping.items()}
-            arcpy.AddMessage(mapping)
+            arcpy.AddMessage('Renaming fields: {}'.format(mapping))
 
         # update them
         for old, new in mapping.items():
@@ -36,7 +40,6 @@ def rename_to_standard(table, numeric=False):
 
     arcpy.env.workspace = 'in_memory'
     tab = arcpy.TabulateIntersection_analysis(zone_fc, zone_field, class_fc, 'tab', class_field, xy_tolerance='0.001 Meters')
-    print([f.name for f in arcpy.ListFields(tab)])
     # guard against all numeric values--can't pivot when that is the case
     vals = [r[0] for r in arcpy.da.SearchCursor(tab, class_field)]
     all_numeric = all([str.isdigit(str(v)) for v in vals])
diff --git a/lagosGIS/zonal_summary_of_raster_data.py b/lagosGIS/zonal_summary_of_raster_data.py
index 1a12abe..5dfc44e 100644
--- a/lagosGIS/zonal_summary_of_raster_data.py
+++ b/lagosGIS/zonal_summary_of_raster_data.py
@@ -1,3 +1,9 @@
+# filename: zonal_summary_of_raster_data.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): GEO
+# tool type: re-usable (ArcGIS Toolbox)
+
 import csv
 import os
 import arcpy
diff --git a/lagosGIS/zone_prep.py b/lagosGIS/zone_prep.py
deleted file mode 100644
index 1a47c8b..0000000
--- a/lagosGIS/zone_prep.py
+++ /dev/null
@@ -1,75 +0,0 @@
-import os
-import arcpy
-from arcpy import analysis as AN, management as DM
-
-
-def add_lat_lon(fc, zone_name=''):
-    """Add fields for lat and long, per LAGOS naming standard. Only works when fc path is short (use env.workspace.)"""
-    if not zone_name:
-        zone_name = fc
-    lat = '{}_lat_decdeg'.format(zone_name)
-    lon = '{}_lon_decdeg'.format(zone_name)
-    if not arcpy.ListFields(fc, lat):
-        DM.AddField(fc, lat, 'DOUBLE')
-    if not arcpy.ListFields(fc, lon):
-        DM.AddField(fc, lon, 'DOUBLE')
-    orig_crs = arcpy.SpatialReference(5070)
-    new_crs = arcpy.SpatialReference(4326)  # NAD83
-
-    with arcpy.da.UpdateCursor(fc, [lat, lon, 'SHAPE@']) as u_cursor:
-        for row in u_cursor:
-            centroid = arcpy.PointGeometry(row[2].centroid, orig_crs)
-            centroid_nad83 = centroid.projectAs(new_crs)
-            row[0] = centroid_nad83.firstPoint.Y
-            row[1] = centroid_nad83.firstPoint.X
-            u_cursor.updateRow(row)
-
-
-def find_states(fc, state_fc, zone_name=''):
-    """Populate *_states field. States fc must have field 'states' with length 255 and state abbreviations within."""
-    if zone_name:
-        zone_name = zone_name
-    else:
-        zone_name = os.path.basename(fc)
-    states_field = '{}_states'.format(zone_name)
-    if arcpy.ListFields(fc, states_field):
-        DM.DeleteField(fc, states_field)
-
-
-    # make a field mapping that gathers all the intersecting states into one new value
-    field_list = [f.name for f in arcpy.ListFields(fc) if f.type <> 'OID' and f.type <> 'Geometry']
-    field_mapping = arcpy.FieldMappings()
-    for f in field_list:
-        map = arcpy.FieldMap()
-        map.addInputField(fc, f)
-        field_mapping.addFieldMap(map)
-    map_states = arcpy.FieldMap()
-    map_states.addInputField(state_fc, 'states')
-    map_states.mergeRule = 'Join'
-    map_states.joinDelimiter = ' '
-    field_mapping.addFieldMap(map_states)
-
-    # perform join and use output to replace original fc
-    spjoin = AN.SpatialJoin(fc, state_fc, 'in_memory/spjoin_intersect', 'JOIN_ONE_TO_ONE',
-                            field_mapping=field_mapping, match_option='INTERSECT')
-    DM.AlterField(spjoin, 'states', new_field_name=states_field, clear_field_alias=True)
-    DM.Delete(fc)
-    DM.CopyFeatures(spjoin, fc)
-    DM.Delete(spjoin)
-
-def inusa_pct(zone_fc, zoneid, states_fc, zone_name=''):
-    DM.AddField(zone_fc, '{}_inusa_pct'.format(zone_name), 'DOUBLE')
-    # percent in USA
-    arcpy.AddMessage('Tabulating intersection...')
-    arcpy.TabulateIntersection_analysis(zone_fc, zoneid, states_fc, 'in_memory/tabarea')
-
-    # round to 2 digits and don't let values exceed 100
-    inusa_dict = {r[0]:min(round(r[1],2), 100)
-                  for r in arcpy.da.SearchCursor('in_memory/tabarea', [zoneid, 'PERCENTAGE'])}
-
-    with arcpy.da.UpdateCursor(zone_fc, [zoneid, 'inusa_pct']) as u_cursor:
-        for row in u_cursor:
-            row[1] = inusa_dict[row[0]]
-            u_cursor.updateRow(row)
-
-    DM.Delete('in_memory/tabarea')
\ No newline at end of file
diff --git a/test_lagosGIS.py b/test_lagosGIS.py
index b4e2d38..7a54864 100644
--- a/test_lagosGIS.py
+++ b/test_lagosGIS.py
@@ -1,24 +1,109 @@
+# filename: test_lagosGIS.py
+# author: Nicole J Smith
+# version: 2.0
+# LAGOS module(s): all
+# tool type: re-usable (NOT in ArcGIS Toolbox)
+
 import os
 import sys
+from datetime import datetime
 import arcpy
 sys.path.insert(0, os.path.abspath(os.path.join(os.path.dirname(__file__), '..')))
 import lagosGIS
 
 os.chdir(os.path.dirname(os.path.abspath(__file__)))
 TEST_DATA_GDB = os.path.abspath(os.path.join(os.curdir, 'TestData_0411.gdb'))
+hu12 = os.path.join(TEST_DATA_GDB, 'hu12')
 
 arcpy.env.overwriteOutput = True
 
 __all__ = ["lake_connectivity_classification",
-           "zonal_summary_of_raster_data",
-           "polygon_density_in_zones",
-           "lake_density",
-           "aggregate_watersheds",
-           "upstream_lakes",
-           "point_attribution_of_raster_data"]
+            "upstream_lakes",
+            "locate_lake_outlets",
+            "locate_lake_inlets",
+            "aggregate_watersheds",
+            "calc_watershed_subtype",
+
+            "point_density_in_zones",
+            "line_density_in_zones",
+            "polygon_density_in_zones",
+            "stream_density",
+            "lake_density",
+
+            "flatten_overlaps",
+            "rasterize_zones",
+            "zonal_summary_of_raster_data",
+            "zonal_summary_of_classed_polygons",
+            "point_attribution_of_raster_data",
+            "summarize_raster_for_all_zones",
+            "preprocess_padus",
+
+            "export_to_csv"]
+
+
+def lake_connectivity_classification(out_fc):
+    lagosGIS.lake_connectivity_classification(TEST_DATA_GDB, out_fc)
+
+
+def upstream_lakes(out_table):
+    lagosGIS.upstream_lakes(TEST_DATA_GDB, out_table)
+
+
+def locate_lake_outlets(out_fc):
+    lagosGIS.locate_lake_outlets(TEST_DATA_GDB, out_fc)
+
+
+def locate_lake_inlets(out_fc):
+    lagosGIS.locate_lake_inlets(TEST_DATA_GDB, out_fc)
+
+
+def aggregate_watersheds(out_fc):
+    catchments_fc = os.path.join(TEST_DATA_GDB, 'catchments')
+    lakes_fc = os.path.join(TEST_DATA_GDB, 'Lakes_1ha')
+    lagosGIS.aggregate_watersheds(catchments_fc, TEST_DATA_GDB, lakes_fc, out_fc, mode='interlake')
+
+
+def calc_watershed_subtype(out_fc):
+    interlake_fc_orig = os.path.join(TEST_DATA_GDB, 'ws')
+    interlake_fc = arcpy.CopyFeatures_management(interlake_fc_orig, out_fc)
+    lagosGIS.calc_watershed_subtype(TEST_DATA_GDB, interlake_fc, fits_naming_standard=True)
+
+
+def point_density_in_zones(out_table, selection_expression=''):
+    points_fc = os.path.join(TEST_DATA_GDB, 'Dams')
+    lagosGIS.point_density_in_zones(hu12, 'hu12_zoneid', points_fc, out_table, selection_expression)
+
+
+def line_density_in_zones(out_table, selection_expression=''):
+    lines_fc = os.path.join(TEST_DATA_GDB, 'lagos_streams')
+    lagosGIS.point_density_in_zones(hu12, 'hu12_zoneid', lines_fc, out_table, selection_expression)
+
+
+def polygon_density_in_zones(out_table, selection_expression=''):
+    polygons_fc = os.path.join(TEST_DATA_GDB, 'Lakes_1ha')
+    lagosGIS.polygon_density_in_zones(hu12, 'hu12_zoneid', polygons_fc, out_table, selection_expression)
+
+
+def stream_density(out_table):
+    lines_fc = os.path.join(TEST_DATA_GDB, 'lagos_streams')
+    lagosGIS.stream_density(hu12, 'hu12_zoneid', lines_fc, out_table, zone_prefix='hu12')
+
+
+def lake_density(out_table):
+    polygons_fc = os.path.join(TEST_DATA_GDB, 'Lakes_1ha')
+    lagosGIS.lake_density(hu12, 'hu12_zoneid', polygons_fc, out_table)
+
+
+def flatten_overlaps(out_fc, out_table=''):
+    if not out_table:
+        out_table = out_fc + '_unflat'
+    zones_fc = os.path.join(TEST_DATA_GDB, 'buff500')
+    lagosGIS.flatten_overlaps(zones_fc, 'buff500_zoneid', out_fc, out_table)
+
+
+def rasterize_zones(out_gdb):
+    lagosGIS.rasterize_zones([hu12], out_gdb)
 
-def lake_connectivity_classification(out_feature_class, debug_mode = True):
-    lagosGIS.lake_connectivity_classification(TEST_DATA_GDB, out_feature_class, debug_mode)
 
 def zonal_summary_of_raster_data(out_table, overlaps=False, is_thematic=False):
     if overlaps:
@@ -38,35 +123,67 @@ def zonal_summary_of_raster_data(out_table, overlaps=False, is_thematic=False):
         rename_tag = 'wetdepno3_2006'
         units = 'kgperha'
     lagosGIS.zonal_summary_of_raster_data(zone_fc, zone_field, in_value_raster, out_table, is_thematic=is_thematic,
-                                              unflat_table=unflat_table, rename_tag=rename_tag, units=units)
-# hand-verified to be correct
-# update 2018-05-29, these numbers rely on the old method of using the source raster data grid instead of the
-# common_grid.tif
-hu12_7509_totalN_2006 = {"CELL_COUNT": 7, "MIN": 6.749966, "MAX": 7.41714, "MEAN": 7.026327, "STD": 0.226898}
-hu12_7454_totalN_2006 = {"CELL_COUNT": None, "MIN": None, "MAX": None, "MEAN": None, "STD": None}
+                                        unflat_table=unflat_table, rename_tag=rename_tag, units=units)
 
 
-def polygon_density_in_zones(out_table, selection_expression = ''):
-    zone_fc = os.path.join(TEST_DATA_GDB, 'HU12')
-    polygons_fc = os.path.join(TEST_DATA_GDB, 'Lakes_1ha')
-    lagosGIS.polygon_density_in_zones(zone_fc, 'ZoneID', polygons_fc, out_table, selection_expression)
-
-def lake_density(out_table):
-    zone_fc = os.path.join(TEST_DATA_GDB, 'HU12')
-    polygons_fc = os.path.join(TEST_DATA_GDB, 'Lakes_1ha')
-    lagosGIS.lake_density(zone_fc, 'ZoneID', polygons_fc, out_table)
+def zonal_summary_of_classed_polygons(out_table):
+    class_fc = os.path.join(TEST_DATA_GDB, 'padus_processed')
+    lagosGIS.zonal_summary_of_classed_polygons(hu12, 'hu12_zoneid', class_fc, out_table, 'agency', 'agency')
 
-def aggregate_watersheds(out_fc):
-    # watersheds = r'C:\Users\smithn78\Dropbox\CL_HUB_GEO\QAQC\New_Watershed_Methods\Test.gdb\lake_and_flowline_catchments_feb27'
-    nhdplus_gdb = r'D:\Not_ContLimno\NHDPlus HR\NHDPlus_H_0205_GDB.gdb'
-    eligible_lakes = r'C:\Users\smithn78\Dropbox\CL_HUB_GEO\LAGOS_US_GIS_Data_v0.5.gdb\Lakes\LAGOS_US_All_Lakes_1ha'
-    lagosGIS.aggregate_watersheds(nhdplus_gdb, eligible_lakes, out_fc, mode = 'interlake')
-
-def upstream_lakes(out_table):
-    lagosGIS.upstream_lakes(TEST_DATA_GDB, out_table)
 
 def point_attribution_of_raster_data(out_table):
     zone_points = os.path.join(TEST_DATA_GDB, 'Lakes_1ha_Point')
     in_value_raster = os.path.join(TEST_DATA_GDB, 'Total_Nitrogen_Deposition_2006')
-    lagosGIS.attribution(zone_points, 'Permanent_Identifier', in_value_raster, out_table,
-                                              'lake_wetdepinorgnitrogen', 'kgperha')
\ No newline at end of file
+    lagosGIS.point_attribution_of_raster_data(zone_points, 'Permanent_Identifier', in_value_raster, out_table,
+                                              'lake_wetdepinorgnitrogen', 'kgperha')
+
+
+def summarize_raster_for_all_zones():
+    pass
+
+
+def preprocess_padus(out_fc):
+    padus_original = os.path.join(TEST_DATA_GDB, 'padus_original')
+    lagosGIS.preprocess_padus(padus_original, out_fc)
+
+
+def export_to_csv(out_folder):
+    in_table = os.path.join(TEST_DATA_GDB, 'buff500_unflat')
+    lagosGIS.export_to_csv(in_table, out_folder)
+
+
+def test_all(out_gdb):
+    """
+    Sets up tests for many tests in LAGOS GIS Toolbox using the test data included and saves the outputs to a common
+    file geodatabase. Takes about 5 minutes to run.
+    :param out_gdb: A file geodatabase to save the test outputs to.
+    :return: None
+    """
+
+    if not arcpy.Exists(out_gdb):
+        arcpy.CreateFileGDB_management(os.path.dirname(out_gdb), os.path.basename(out_gdb))
+    dt_prefix = datetime.now().strftime("%b%d_%H%M")
+    arcpy.AddMessage("All test files will start with date-time prefix {}".format(dt_prefix))
+    for method in __all__:
+        if method == 'rasterize_zones':
+            eval_str = '''{}('{}')'''.format(method, out_gdb)
+            arcpy.AddMessage('\n' + 'TESTING: ' + eval_str)
+            eval(eval_str)
+            old_name = os.path.join(out_gdb, 'hu12_raster')
+            new_name = os.path.join(out_gdb, '{}_rasterize_zones'.format(dt_prefix))
+            arcpy.Rename_management(old_name, new_name)
+        elif method in ('summarize_raster_for_all_zones', 'export_to_csv'):
+            continue # skip
+        else:
+            eval_str = '''{}(os.path.join('{}', '{}_{}'))'''.format(method, out_gdb, dt_prefix, method)
+            arcpy.AddMessage('\n' + 'TESTING: ' + eval_str)
+            eval(eval_str)
+
+
+def main():
+    out_gdb = arcpy.GetParameterAsText(0)
+    test_all(out_gdb)
+
+
+if __name__ == '__main__':
+    main()
\ No newline at end of file