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e626162
Update to the `of_variable` of Binkley1999
SavaScott Jan 25, 2026
ebe40ea
Added in `core_description`
SavaScott Jan 25, 2026
a7930e1
Added in some more of the Binkley1999 Lev1 and switch the plus sign i…
SavaScott Jan 31, 2026
45d9260
Added in more lev1
SavaScott Jan 31, 2026
ecc08c4
Merge branch 'ktoddbrown:main' into Binkley1999_Lev1
SavaScott Feb 4, 2026
be26387
Updated to new qmd and updated studyMeta with units. Also added in th…
SavaScott Feb 6, 2026
5cf9c94
Added in Table1Meta until running in error (also confusion on control…
SavaScott Feb 6, 2026
c119124
Mostly done, running into an error with combining tables
SavaScott Feb 7, 2026
897b9d5
Same message as before
SavaScott Feb 7, 2026
fd2bf74
trying to debug error
SavaScott Feb 8, 2026
fe69cb4
Fixed elevation_id error and added in age_id
SavaScott Feb 12, 2026
10c38ac
Merge branch 'ktoddbrown:main' into Binkley1999_Lev1
SavaScott Feb 15, 2026
e5fc07d
Merge branch 'ktoddbrown:main' into Binkley1999_Lev1
SavaScott Feb 23, 2026
5a50242
Updated Binkley1999 with updates made in meeting
SavaScott Feb 26, 2026
68c06ec
Updated soil_pH_water and attempted to split where there was a -, but…
SavaScott Feb 28, 2026
2f35b48
Deleted extra line
SavaScott Feb 28, 2026
f21709d
Merge branch 'ktoddbrown:main' into Binkley1999_Lev1
SavaScott Mar 1, 2026
9e151c3
Seperated some of the lower/upper bounds and mean and SE
SavaScott Mar 2, 2026
4b99676
Merge branch 'Binkley1999_Lev1' of https://github.com/SavaScott/SoilD…
SavaScott Mar 2, 2026
eb4a7b0
Dropped C and K in the data cells for Table1
SavaScott Mar 6, 2026
5d83823
Fixed table1 to work with the pivot, working on the upperbound still
SavaScott Mar 13, 2026
5ded4bc
Updated Elmore2006 to new template and started lev1
SavaScott Mar 14, 2026
486fdf4
Minor change to Lev1
SavaScott Mar 14, 2026
1986866
Update with new land use variable name
SavaScott Mar 14, 2026
fa4d4cf
Merge branch 'ktoddbrown:main' into Elmore2006_Lev1
SavaScott Mar 16, 2026
c3e91db
Merge branch 'Elmore2006_Lev1' of https://github.com/SavaScott/SoilDR…
SavaScott Mar 16, 2026
35ff9a8
Edited studyMeta
SavaScott Mar 16, 2026
1e60eca
Checking variables names and running the check chunks
SavaScott Mar 22, 2026
cc45c1a
Revert the Elmore2006 branch to match the Binkely1999 files in the ma…
SavaScott Mar 28, 2026
f9a41be
Adding extra line in at bottom of two files to match main
SavaScott Mar 28, 2026
dbf708f
Final checks before PR
SavaScott Mar 28, 2026
6ff6c00
Added in transect variables
SavaScott Apr 1, 2026
85654ab
Attempting to fix illegal quoting issue
SavaScott Apr 3, 2026
783d3ab
Updated is_type and of_variable to match Elmore-Lev1. Hold on min and…
SavaScott Apr 3, 2026
b564b76
Updated is_type with minimum and maxiumum rows, and expanded shorthan…
SavaScott Apr 3, 2026
aeb53a4
Reverting Elmore files on this branch for a PR for the list csvs
SavaScott Apr 3, 2026
2b0da7b
Fixing minor issues with PR comparison
SavaScott Apr 3, 2026
4cd20d2
Added line at bottom
SavaScott Apr 3, 2026
8e7dbb8
Added line
SavaScott Apr 3, 2026
7b9994b
Adding in the Binkley1999 variables to the is_type and of_variable csvs
SavaScott Apr 4, 2026
096f56d
Merge branch 'ktoddbrown:main' into Elmore2006_Lev1-update_lists
SavaScott Apr 9, 2026
608319e
Reverting file to match KTB to end merge conflcit
SavaScott Apr 13, 2026
04df87f
Merge branch 'ktoddbrown:main' into Elmore2006_Lev1-update_lists
SavaScott Apr 13, 2026
eaae28d
Adding in Binkely and Elmore Variables
SavaScott Apr 13, 2026
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10 changes: 6 additions & 4 deletions 02_DataHarmonization/is_type.csv
Original file line number Diff line number Diff line change
@@ -1,10 +1,12 @@
is_type,project_definition,of_variable
comment,"a free text comment that could be anything","carbon_percent,inorganic_carbon_percent,layer_middle,loss_on_ignition,organic_carbon_percent,organic_matter_density,total_carbon_percent"
control_vocabulary,"the control vocabulary used in the value","soil_class,stand_type,NA"
description,"a human readable discription often of a variable","carbon_percent,dry_bulk_density,field_water_percent,inorganic_carbon_percent,layer_bottom,layer_middle,layer_thickness,layer_top,loss_on_ignition,organic_carbon_density,organic_carbon_percent,organic_matter_density,organic_matter_percent,total_carbon_percent"
method,"what was the method used to record the value","carbon_percent,elevation,layer_middle,mean_air_temperature,mean_max_vapor_pressure_deficit,mean_solar_radiation,organic_carbon_density,organic_carbon_percent,soil_class,soil_nitrogen,soil_organic_carbon,soil_ph,soil_phosphorus,total_carbon_percent,total_rainfall"
description,"a human readable discription often of a variable","carbon_percent,dry_bulk_density,field_water_percent,inorganic_carbon_percent,layer_bottom,layer_middle,layer_thickness,layer_top,loss_on_ignition,organic_carbon_density,organic_carbon_percent,organic_matter_density,organic_matter_percent,sampling_method,total_carbon_percent"
method,"what was the method used to record the value","carbon_percent,delta_13_carbon,dry_bulk_density,elevation,layer_middle,mean_air_temperature,mean_max_vapor_pressure_deficit,mean_solar_radiation,nitrogen_density,organic_carbon_density,organic_carbon_percent,sample_prep,soil_aluminum,soil_calcium,soil_class,soil_control_potassium,soil_depth,soil_fertilized_potassium,soil_magnesium,soil_nitrogen,soil_organic_carbon,soil_ph,soil_pH_calcium_chloride,soil_phosphorus,stand_age,total_carbon_percent,total_rainfall"
interval,"an interval of time","land_use"
interval_format,"the format for the time interval, generally ISO8601","land_use"
unit,"the unit that the value is in","carbon_percent,dry_bulk_density,elevation,elevation_end,elevation_start,field_water_percent,inorganic_carbon_percent,layer_bottom,layer_middle,layer_thickness,layer_top,loss_on_ignition,mean_air_temperature,mean_max_vapor_pressure_deficit,mean_solar_radiation,organic_carbon_density,organic_carbon_percent,organic_matter_density,organic_matter_percent,soil_nitrogen,soil_organic_carbon,soil_phosphorus,stand_age,total_carbon_percent,total_rainfall"
unit,"the unit that the value is in","carbon_percent,dry_bulk_density,elevation,elevation_end,elevation_start,field_water_percent,grazing_distance,inorganic_carbon_percent,layer_bottom,layer_middle,layer_thickness,layer_top,loss_on_ignition,mean_air_temperature,mean_max_vapor_pressure_deficit,mean_rainfall,mean_solar_radiation,nitrogen_density,organic_carbon_density,organic_carbon_percent,organic_matter_density,organic_matter_percent,precipitation,soil_age,soil_aluminum,soil_calcium,soil_control_potassium,soil_depth,soil_fertilized_potassium,soil_magnesium,soil_nitrogen,soil_organic_carbon,soil_phosphorus,stand_age,total_carbon_percent,total_rainfall,transect_distance,transect_size"
time_format,"time format, often ISO8601","observation_time"
value,"the reported value of a variable, could be a mean, observed or measured value that is numerical, text, or control vocabulary","carbon_percent,citation,core_comment,data_license,doi,dry_bulk_density,elevation,elevation_end,elevation_start,field_water_percent,inital_planting,inorganic_carbon_percent,land_use,latitude,layer_bottom,layer_middle,layer_thickness,layer_top,longitude,loss_on_ignition,mean_air_temperature,mean_max_vapor_pressure_deficit,mean_solar_radiation,observation_time,organic_carbon_density,organic_carbon_percent,organic_matter_density,organic_matter_percent,principal_investigator,projects,region,related_research,sampling_method,soil_class,soil_nitrogen,soil_organic_carbon,soil_ph,soil_phosphorus,stand_age,stand_type,total_carbon_percent,total_rainfall"
value,"the reported value of a variable, could be a mean, observed or measured value that is numerical, text, or control vocabulary","carbon_percent,citation,core_comment,data_license,doi,delta_13_carbon,dry_bulk_density,elevation,elevation_end,elevation_start,field_water_percent,grazing_distance,initial_planting,inorganic_carbon_percent,land_use,latitude,layer_bottom,layer_middle,layer_thickness,layer_top,longitude,loss_on_ignition,mean_air_temperature,mean_max_vapor_pressure_deficit,mean_solar_radiation,nitrogen_density,observation_time,organic_carbon_density,organic_carbon_percent,organic_matter_density,organic_matter_percent,principal_investigator,projects,region,related_research,sampling_method,sample_id,soil_aluminum,soil_calcium,soil_class,soil_control_potassium,soil_depth,soil_fertilized_potassium,soil_magnesium,soil_nitrogen,soil_organic_carbon,soil_ph,soil_pH_calcium_chloride,soil_phosphorus,stand_age,stand_type,total_carbon_percent,total_rainfall,transect_distance,transect_size"
maximum,"upper interval of ranged value","mean_rainfall,soil_age,soil_pH_water,precipitation"
minimum,"lower interval of ranged value","mean_rainfall,soil_age,soil_pH_water,precipitation"
21 changes: 20 additions & 1 deletion 02_DataHarmonization/of_variable.csv
Original file line number Diff line number Diff line change
Expand Up @@ -7,26 +7,41 @@
"land_use","a classification of the current land use","draft"
"mean_air_temperature","mean annual air temperature","draft"
"mean_max_vapor_pressure_deficit","mean maximum vapor presure deficit","draft"
"mean_rainfall","mean rainfall of the site","draft"
"mean_solar_radiation","mean solar radiation","draft"
"nitrogen_density","density of nitrogen found in sample","draft"
"observation_time","when observations were made","draft"
"region","free text discription of region site location","draft"
"sample_prep","how the soil sample was prepped","draft"
"soil_aluminum","soil aluminum content","draft"
"soil_class","soil taxonomic class","draft"
"soil_calcium","soil calcium content","draft"
"soil_control_potassium","soil potassium content without added fertilizer","draft"
"soil_depth","depth of soil samples that were collected","draft"
"soil_fertilized_potassium","soil potassium content with added fertilizer","draft"
"soil_magnesium","soil magnesium content","draft"
"soil_nitrogen","soil nitrogen content","draft"
"soil_organic_carbon","soil organic carbon content","draft"
"soil_ph","soil pH","draft"
"soil_pH_calcium_chloride","soil pH measured with calcium chloride","draft"
"soil_pH_water","soil pH found in water","draft"
"soil_phosphorus","soil phosphorus","draft"
"soil_age","age of the soil at site", "draft"
"stand_age","age of tree stand at site","draft"
"stand_type","type of tree stand at site, generally species","draft"
"stem_density","stem density of a tree","incomplete"
"total_rainfall","total annual rainfall","draft"
"carbon_percent","carbon percent of soil","draft"
"core_comment","coment on soil core","draft"
"data_license","license for data use","draft"
"delta_13_carbon","measure of the ratio of stable carbon isotopes 13C to 12C","draft"
"dry_bulk_density","bulk density of dry soil","draft"
"elevation_end","ending elevation of a survey transect","draft"
"elevation_start","starting elevation of a soil transect","draft"
"field_water_percent","soil water percent under field condition","draft"
"inorganic_carbon_percent","inorganic carbon precentage of soil","draft"
"initial_planting","data of the stand planting at site","draft"
"grazing_distance","distance from grazing center","draft"
"inorganic_carbon_percent","inorganic carbon percentage of soil","draft"
"latitude","latitude of a geolocation","draft"
"layer_bottom","bottom boundary of a soil layer","draft"
"layer_middle","mid point of a soil layer","draft"
Expand All @@ -40,8 +55,12 @@
"organic_matter_percent","organic mater as a percent of soil","draft"
"peatland_class","peat classification","draft"
"principal_investigator","prinicipal investigator of study","draft"
"precipitation","amount of precipitation site receives","draft"
"projects","project study was associated with","draft"
"related_research","other related research","draft"
"sampling_method","sampling method notes","draft"
"sample_id","soil sample id label","draft"
"site_name","site name","draft"
"total_carbon_percent","carbon percent of soil including organic and inorganic","draft"
"transect_size","size of transect used in study","draft"
"transect_distance","interval distance from the origin of transect","draft"