From 97e0e80c908f1016c63eb7f374ac657898c0001f Mon Sep 17 00:00:00 2001
From: GitHub Documentation Robot <pecanproj@gmail.com>
Date: Mon, 4 Mar 2024 14:45:36 +0000
Subject: [PATCH] Build book from pecan revision
 a5869aae8d4829c4475ddf15e22583f7059d915c

---
 develop/time-standard.html | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/develop/time-standard.html b/develop/time-standard.html
index 2e7b33320..c0a4981a6 100644
--- a/develop/time-standard.html
+++ b/develop/time-standard.html
@@ -806,8 +806,8 @@ <h5><span class="header-section-number">11.2.1.1.1</span> Dimensions:<a href="ti
 </div>
 <div id="the-variable-names-should-be-standard_name" class="section level5 hasAnchor" number="11.2.1.1.2">
 <h5><span class="header-section-number">11.2.1.1.2</span> The variable names should be <code>standard_name</code><a href="time-standard.html#the-variable-names-should-be-standard_name" class="anchor-section" aria-label="Anchor link to header"></a></h5>
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 <ul>
 <li>preferred variables indicated in bold</li>
 <li>wind_direction has no CF equivalent and should not be converted, instead the met2CF functions should convert wind_direction and wind_speed to eastward_wind and northward_wind</li>
@@ -841,8 +841,8 @@ <h3><span class="header-section-number">11.2.3</span> Output Standards<a href="t
 <li>Can be seen at HERE</li>
 </ul>
 <p>We originally used the <a href="http://nacp.ornl.gov/MsTMIP_variables.shtml">MsTMIP</a> conventions. Since then, we’ve added the PaLEON variable conventions to our standard as well. If a variable isn’t in one of those two, we stick to the CF conventions.</p>
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at center of each grid cell","latitude at center of each grid cell","depth to bottom of soil layer","Name of each plant function type or species included in the model","julian days days since [year]-01-01 00:00:00 UTC for middle of time averaging period Proleptic_Gregorian calendar","Minimum threshold of root size class","Minimum threshold of woody debris size class","(west boundary of grid cell, east boundary of grid cell)","(south boundary of grid cell, north boundary of grid cell)","(julian days days since 1700-01-01 beginning time ave period, julian days days since 1700-01-01 end time ave period)","Start and end fractional DOY for each model averaging period (i.e. timepoint), starting from the base \"time\" start date used in the output netCDF file (e.g. days since 2000-01-01 00:00:00). E.g. 1, 1.25; 1.25, 1.5 ","decimal date in fractional years for middle of time averaging period","(decimal date beginning time ave period, decimal date end time ave period)","calender date middle of time ave period: year, month, day, hour, minute, second for UTC time zone","calender date beginning of time ave period: year, month, day, hour, minute, second for UTC time zone","calender date end of time ave period: year, month, day, hour, minute, second for UTC time zone","Rate of photosynthesis (always positive)","Net Ecosystem Exchange (NEE=HeteroResp+AutoResp-GPP, positive into atmosphere)","Total respiration (TotalResp=AutoResp+heteroResp, always positive)","Autotrophic respiration rate (always positive)","Heterotrophic respiration rate (always positive)","Sum of respiration in the soil by heterotrophs and by the roots of plants (autotrophs)","Loss of organic carbon dissolved in ground water or rivers (positive out of grid cell)","Flux of carbon due to fires (always positive)","Total carbon flux of litter, excluding coarse woody debris","Total carbon flux of surface litter","Total carbon flux of subsurface litter","Carbon flux of leaf litter","DALEC output; haven't yet resolved standard woody litter flux","Total carbon flux of woody debris, including downed woody debris and standing deadwood; excludes litter; size class defined by wdsize dimension","Net Primary Productivity (NPP=GPP-AutoResp, positive into plants)","Variable most analogous to tree-ring-derived change in stem biomass (before mortality/CWD flux)","Variable most analogous to flux of woody material material to the detrital pool resulting from mortality","Crop yield; ED2 output variable","Name of each carbon pool (i.e., wood or Coarse Woody Debris)","Total size of each carbon pool vertically integrated over the entire soil column","Total carbon content of the living biomass (leaves+roots+wood)","aboveground biomass","Area of leaves per area ground","Leaf carbon content","\nRoot carbon content, optionally by size class; alternatively specify fine_ and coarse_root_carbon_content","Carbon content of fine roots (2 mm and smaller); alternative to providing dimensions for root_carbon_content","Carbon content of coarse roots (larger than 2 mm); alternative to providing dimensions for root_carbon_content","Wood carbon content including above (AbvGrndWood) and below ground (coarse roots, shared with root_carbon_content)","Total above ground wood biomass","Total soil and litter carbon content vertically integrated over the enire soil column","Total carbon content of litter pool, excluding coarse woody debris","Carbon content of surface litter pool","Carbon content of subsurface litter pool; depth dimension optional","Carbon content of leaf litter pool","Carbon content of reproductive litter pool (e.g. seeds, flowers, cones, pollen)","Carbon content of uncategorized litter pool (e.g. insect excreta)","Carbon content of downed woody debris and standing deadwood; excludes litter; size classes defined by wdsize dimension","Total carbon content of soil layer, excluding litter","Total inorganic carbon content of soil layer (mineralized carbon such as carbonate)","Total organic carbon content of soil layer, excluding litter","Slow soil pool carbon content of soil layer","Fast soil pool carbon content of soil layer","Structural soil pool carbon content of soil layer","Total nitrogen content of soil layer","Total phosphorus content of soil layer","Sensible heat flux into the boundary layer (positive into atmosphere)","Latent heat flux into the boundary layer (positive into atmosphere)","Ground heat flux; ED2 output variable","Rate of leaf conductance of water vapor from the leaf sub-stomatal cavities to the atmosphere","Sum of all evaporation sources (positive into atmosphere)","Deprecated, to be replaced by Transp. Total Plant transpiration (always positive)","Total transpiration of each PFT within each grid cell","Longwave Albedo","Shortwave albedo","Incident longwave radiation minus simulated outgoing longwave radiation (positive into grnd)","Incident shortwave radiation minus simulated outgoing shortwave radiation (positive into grnd)","absorbed fraction incoming photosyntetically active radiation","Depth from soil surface to top of soil layer","Depth from soil surface to layer prognostic variables, typically center of soil layer","Depth from soil surface to bottom of soil layer","Soil water content in each soil layer, including liquid, vapor and ice","Fraction of saturation of soil water in each soil layer, including liquid and ice","Vertically integrated soil moisture divided by maximum allowable soil moisture above wilting point","Runoff from the landsurface and/or subsurface stormflow","Gravity soil water drainage and/or soil water lateral flow","Average soil temperature in each soil layer","Thaw depth to zero centigrade isotherm in permafrost","Freeze depth to zero centigrade isotherm in non-permafrost","Canopy or vegetation temperature (or temperature used in photosynthesis calculations)","Total water mass of snow pack, including ice and liquid water","Overall bulk density of the snow pack, including ice and liquid water","Total snow depth","CO2 in canopy air space; ED2 output variable","Near surface dry air CO2 mole fraction","Surface incident longwave radiation","Surface pressure","Near surface specific humidity","Rainfall rate","Surface incident shortwave radiation","Near surface air temperature","Near surface wind magnitude","Daily Maximum Temperature","Daily Minimum Temperature","Northward Component of Wind","Eastward Component of Wind","Relative Humidity","Photosynthetically Active Radiation","The per unit area and time precipitation representing the sum of convective rainfall, stratiform rainfall, and snowfall","Basal area by PFT","Stem Density by PFT","DBH by PFT","Aboveground biomass Fractional composition of each PFT within each grid cell","New Individuals","Individuals lost through death","Depth to the bottom of each model-defined soil layer","Rate of leaf photosynthesis / carbon assimilation","Date of Budburst","Date of Senescence","Litter water content in litter layer including liquid vapor and ice"],["","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","","",""]],"container":"<table class=\"display\">\n  <thead>\n    <tr>\n      <th> <\/th>\n      <th>Variable.Name<\/th>\n      <th>standard_name<\/th>\n      <th>Units<\/th>\n      <th>Long.name<\/th>\n      <th>Category<\/th>\n      <th>var_type<\/th>\n      <th>dim1<\/th>\n      <th>dim2<\/th>\n      <th>dim3<\/th>\n      <th>dim4<\/th>\n      <th>Description<\/th>\n      <th>X<\/th>\n    <\/tr>\n  <\/thead>\n<\/table>","options":{"dom":"Bfrtip","scrollX":true,"fixedColumns":true,"buttons":["copy","csv","excel","pdf","print"],"columnDefs":[{"orderable":false,"targets":0}],"order":[],"autoWidth":false,"orderClasses":false}},"evals":[],"jsHooks":[]}</script>
 
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