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Test #6

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baf6fd0
Update met2model.CLM45.R
rahul799 Apr 28, 2020
f50e1c6
Update write.config.MAAT.R
rahul799 Apr 28, 2020
9810db1
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Apr 28, 2020
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207 changes: 102 additions & 105 deletions models/clm45/R/met2model.CLM45.R
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Expand Up @@ -21,117 +21,114 @@
##' @param lst timezone offset to GMT in hours
##' @param overwrite should existing files be overwritten
##' @param verbose should the function be very verbosefor(year in start_year:end_year)
met2model.CLM45 <- function(in.path,in.prefix,outfolder,start_date, end_date, lst=0,lat,lon,..., overwrite=FALSE,verbose=FALSE){

met2model.CLM45 <- function(in.path, in.prefix, outfolder, start_date, end_date, lst = 0, lat, lon, ..., overwrite = FALSE, verbose = FALSE) {
PEcAn.logger::logger.severe("NOT IMPLEMENTED")

#General Structure- CLM Uses Netcdf so for now just need to rename vars.(Many not is CF standard. Need to Check that out)
#Get Met file from inpath.
#Loop over years (Open nc.file,rename vars,change dimensions as needed,close/save .nc file)
#close
#defining temporal dimension needs to be figured out. If we configure clm to use same tstep then we may not need to change dimensions

#
# #Process start and end dates
# start_date<-as.POSIXlt(start.date,tz="UTC")
# end_date<-as.POSIXlt(end.date,tz="UTC")
#
# start_year <- year(start_date)
# end_year <- year(end_date)
#
# timestep.s<-86400 #Number of seconds in a day
#
# ## Build met
# met <- NULL
# for(year in start_year:end_year){
#
# met.file.y = paste(met.file,year,"nc",sep=".")
#
# if(file.exists(met.file.y)){
#
# ## Open netcdf file
# nc=ncdf4::nc_open(met.file.y)
#
#
# ## convert time to seconds
# sec <- nc$dim$time$vals
# sec = udunits2::ud.convert(sec,unlist(strsplit(nc$dim$time$units," "))[1],"seconds")
#
#
#
# ##build day and year
#
# dt <- PEcAn.utils::seconds_in_year(year) / length(sec)
# tstep = round(timestep.s/dt) #time steps per day
#
# diy <- PEcAn.utils::days_in_year(year)
# doy <- rep(seq_len(diy), each=tstep)[1:length(sec)]
#
# General Structure- CLM Uses Netcdf so for now just need to rename vars.(Many not is CF standard. Need to Check that out)
# Get Met file from inpath.
# Loop over years (Open nc.file,rename vars,change dimensions as needed,close/save .nc file)
# close
# defining temporal dimension needs to be figured out. If we configure clm to use same tstep then we may not need to change dimensions

## extract variables. These need to be read in and converted to CLM standards
#
# #Process start and end dates
# start_date<-as.POSIXlt(start.date,tz="UTC")
# end_date<-as.POSIXlt(end.date,tz="UTC")
#
# start_year <- year(start_date)
# end_year <- year(end_date)
#
# timestep.s<-86400 #Number of seconds in a day
#
# ## Build met
# met <- NULL
# for(year in start_year:end_year){
#
# met.file.y = paste(met.file,year,"nc",sep=".")
#
# if(file.exists(met.file.y)){
#
# ## Open netcdf file
# nc=ncdf4::nc_open(met.file.y)
#
#
# ## convert time to seconds
# sec <- nc$dim$time$vals
# sec = udunits2::ud.convert(sec,unlist(strsplit(nc$dim$time$units," "))[1],"seconds")
#
#
#
# ##build day and year
#
# dt <- PEcAn.utils::seconds_in_year(year) / length(sec)
# tstep = round(timestep.s/dt) #time steps per day
#
# diy <- PEcAn.utils::days_in_year(year)
# doy <- rep(seq_len(diy), each=tstep)[1:length(sec)]
#

# ncdf4::ncvar_rename(ncfile,varid="LONGXY")
# ncdf4::ncvar_rename(ncfile,varid="LATIXY")
# # double ZBOT(time, lat, lon) ;
# # ZBOT:long_name = "observational height" ;
# # ZBOT:units = "m" ;
# ZBOT = ncvar_rename(ncfile,"ZBOT","ZBOT")
# #
# # double EDGEW(scalar) ;
# # EDGEW:long_name = "western edge in atmospheric data" ;
# # EDGEW:units = "degrees E" ;
# EDGEW = ncvar_rename(ncfile,"EDGEW","EDGEW")
#
# # double EDGEE(scalar) ;
# # EDGEE:long_name = "eastern edge in atmospheric data" ;
# # EDGEE:units = "degrees E" ;
# EDGEE = ncvar_rename(ncfile,"EDGEE","EDGEE")
#
# # double EDGES(scalar) ;
# # EDGES:long_name = "southern edge in atmospheric data" ;
# # EDGES:units = "degrees N" ;
# EDGES = ncvar_rename(ncfile,"EDGES","EDGES")
# #
# # double EDGEN(scalar) ;
# # EDGEN:long_name = "northern edge in atmospheric data" ;
# # EDGEN:units = "degrees N" ;
# EDGEN = ncvar_rename(ncfile,"EDGEN","air_temperature")
# # double TBOT(time, lat, lon) ;
# # TBOT:long_name = "temperature at the lowest atm level (TBOT)" ;
# # TBOT:units = "K" ;
# TBOT = ncvar_rename(ncfile,"TBOT","specific_humidity")
# # double RH(time, lat, lon) ;
# # RH:long_name = "relative humidity at the lowest atm level (RH)" ;
# # relative_humidity
# # RH:units = "%" ;
# RH = ncvar_rename(ncfile,"RH","relative_humidity")
# # double WIND(time, lat, lon) ;
# # WIND:long_name = "wind at the lowest atm level (WIND)" ;
# # wind_speed
# # WIND:units = "m/s" ;
# WIND = ncvar_rename(ncfile,"WIND","wind_speed")
# # double FSDS(time, lat, lon) ;
# # FSDS:long_name = "incident solar (FSDS)" ;
# # FSDS:units = "W/m2" ;
# FSDS = ncvar_rename(ncfile,"FSDS","FSDS")
# # double FLDS(time, lat, lon) ;
# # FLDS:long_name = "incident longwave (FLDS)" ;
# # FLDS:units = "W/m2" ;
# FLDS = ncvar_rename(ncfile,"FLDS","")
# # double PSRF(time, lat, lon) ;
# # PSRF:long_name = "pressure at the lowest atm level (PSRF)" ;
# # PSRF:units = "Pa" ;
# PSRF = ncvar_rename(ncfile,"PSRF","air_pressure")
# # double PRECTmms(time, lat, lon) ;
# # PRECTmms:long_name = "precipitation (PRECTmms)" ;
# # PRECTmms:units = "mm/s" ;
# PRECTmms =ncvar_rename(ncfile,"PRECTmmc","precipitation_flux")
## extract variables. These need to be read in and converted to CLM standards

#nc_close(ncfiles)
# ncdf4::ncvar_rename(ncfile,varid="LONGXY")
# ncdf4::ncvar_rename(ncfile,varid="LATIXY")
# # double ZBOT(time, lat, lon) ;
# # ZBOT:long_name = "observational height" ;
# # ZBOT:units = "m" ;
# ZBOT = ncvar_rename(ncfile,"ZBOT","ZBOT")
# #
# # double EDGEW(scalar) ;
# # EDGEW:long_name = "western edge in atmospheric data" ;
# # EDGEW:units = "degrees E" ;
# EDGEW = ncvar_rename(ncfile,"EDGEW","EDGEW")
#
# # double EDGEE(scalar) ;
# # EDGEE:long_name = "eastern edge in atmospheric data" ;
# # EDGEE:units = "degrees E" ;
# EDGEE = ncvar_rename(ncfile,"EDGEE","EDGEE")
#
# # double EDGES(scalar) ;
# # EDGES:long_name = "southern edge in atmospheric data" ;
# # EDGES:units = "degrees N" ;
# EDGES = ncvar_rename(ncfile,"EDGES","EDGES")
# #
# # double EDGEN(scalar) ;
# # EDGEN:long_name = "northern edge in atmospheric data" ;
# # EDGEN:units = "degrees N" ;
# EDGEN = ncvar_rename(ncfile,"EDGEN","air_temperature")
# # double TBOT(time, lat, lon) ;
# # TBOT:long_name = "temperature at the lowest atm level (TBOT)" ;
# # TBOT:units = "K" ;
# TBOT = ncvar_rename(ncfile,"TBOT","specific_humidity")
# # double RH(time, lat, lon) ;
# # RH:long_name = "relative humidity at the lowest atm level (RH)" ;
# # relative_humidity
# # RH:units = "%" ;
# RH = ncvar_rename(ncfile,"RH","relative_humidity")
# # double WIND(time, lat, lon) ;
# # WIND:long_name = "wind at the lowest atm level (WIND)" ;
# # wind_speed
# # WIND:units = "m/s" ;
# WIND = ncvar_rename(ncfile,"WIND","wind_speed")
# # double FSDS(time, lat, lon) ;
# # FSDS:long_name = "incident solar (FSDS)" ;
# # FSDS:units = "W/m2" ;
# FSDS = ncvar_rename(ncfile,"FSDS","FSDS")
# # double FLDS(time, lat, lon) ;
# # FLDS:long_name = "incident longwave (FLDS)" ;
# # FLDS:units = "W/m2" ;
# FLDS = ncvar_rename(ncfile,"FLDS","")
# # double PSRF(time, lat, lon) ;
# # PSRF:long_name = "pressure at the lowest atm level (PSRF)" ;
# # PSRF:units = "Pa" ;
# PSRF = ncvar_rename(ncfile,"PSRF","air_pressure")
# # double PRECTmms(time, lat, lon) ;
# # PRECTmms:long_name = "precipitation (PRECTmms)" ;
# # PRECTmms:units = "mm/s" ;
# PRECTmms =ncvar_rename(ncfile,"PRECTmmc","precipitation_flux")

#} ### end loop over met files
# nc_close(ncfiles)

#print("Done with met2model.CLM4")
# } ### end loop over met files

# print("Done with met2model.CLM4")
} ### end met2model.CLM4

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