run and analyse all measCamp of 2023 together (MR !4)

run and analyse all measCamp of 2023 together (MR !4 (merged))

issue

• run flux calculation for all measurement campaigns 2023 together

solution

• append measCamp to meas_ID to have unique identifier of each measurement period across measurement campaigns
  • the measID is now a number combining [year][month] = measCamp and measID as four digit number
  • e.g.: 2023050001 is the measurement period 1 of measCamp 202305
• change main script so all measCamp can be run in one go for statistical analyses
  • split the main script into preprocess and flux calculation scripts
  • create a function for each of them
  • call the functions in the new run_main.R script
  • by running run_main.R all processing & calculation is done
  • the list of measurement campaigns measCampList <- c("202305", "202307", "202309") variable defines the measCamp the script runs for
    • tested only for 2023!
• modify flux calculation in the way that all measCamp can be calculated together
  • essentially removing all code that writes/reads files
  • and rename few data frames for consistency
• the result DF of the script is:
  • goflux_data_metadata_df
  • provided by combine_all_data_and_meta_data.R
  • and written as file to paste0(fluxResOutDir, "/", currentDateTime, "__goflux_n2o_data_metadata_corrected__mc", measCampListString, ".csv")
    • e.g.: 20240223_213649__goflux_n2o_data_metadata_corrected__mc_202305_202307_202309.csv
• improve calculation of environmental var:
  • soil temperature per mp is calculated from all four sensors, using the last 10 values of the mp to calc the median
  • soil moisture per mp is calculated as median of the last 10 values of the mp
  • this already solves !3 (closed)
• multiple minor changes
• testing:
  • works at BGC HPC with latest packages and R 4.3.2
  • works at private Laptop with latest packages and R 4.3.2

Closes #11 (closed)