diff --git a/pipelines/params/calibration_factors.yaml b/pipelines/params/calibration_factors.yaml index e088c46..a5f2e4e 100644 --- a/pipelines/params/calibration_factors.yaml +++ b/pipelines/params/calibration_factors.yaml @@ -1,14 +1,14 @@ # Define common factors # Get values from data///config_acsm_.r, values used in Tofware analysis. -IE_tofware: &IE 145.9 -ABRefWave_tofware: &ABRefWave 254000 -RIE_SO4_tofware: &RIE_SO4 0.63 -RIE_NH4_tofware: &RIE_NH4 3.495 -RIE_Org_tofware: &RIE_Org 1.4 -RIE_NO3_tofware: &RIE_NO3 1.05 -RIE_Chl_tofware: &RIE_Chl 1.0 -CE_tofware: &CE 1.0 +IE_tofware: 145.9 +ABRefWave_tofware: 254000 +RIE_SO4_tofware: 0.63 +RIE_NH4_tofware: 3.495 +RIE_Org_tofware: 1.4 +RIE_NO3_tofware: 1.05 +RIE_Chl_tofware: 1.0 +CE_tofware: 1.0 # Get values from data///cal.csv @@ -16,107 +16,107 @@ calibration_intervals: # Specify datetimes (YYYY-MM-DD HH-MM-SS) inverval_1: start_datetime : '2022-01-16 00-00-00' # date and time where calibration was concluded end_datetime : '2022-01-16 00-00-00' - IE_correct: &IE_correct 145.9 - AB_ref_correct: &AB_ref_correct 254000 - RIE_SO4_correct: &RIE_SO4_correct 0.63 - RIE_NH4_correct: &RIE_NH4_correct 3.495 - RIE_Org_correct: &RIE_Org_correct 1.4 - RIE_NO3_correct: &RIE_NO3_correct 1.05 - RIE_Chl_correct: &RIE_Chl_correct 1.0 - CE_correct: &CE_correct 1.0 + IE_correct: 145.9 + AB_ref_correct: 254000 + RIE_SO4_correct: 0.63 + RIE_NH4_correct: 3.495 + RIE_Org_correct: 1.4 + RIE_NO3_correct: 1.05 + RIE_Chl_correct: 1.0 + CE_correct: 1.0 inverval_2 : start_datetime : '2022-06-16 00-00-00' end_datetime : '2022-01-16 00-00-00' - IE_correct: &IE_correct 145.9 - AB_ref_correct: &AB_ref_correct 254000 - RIE_SO4_correct: &RIE_SO4_correct 0.63 - RIE_NH4_correct: &RIE_NH4_correct 3.495 - RIE_Org_correct: &RIE_Org_correct 1.4 - RIE_NO3_correct: &RIE_NO3_correct 1.05 - RIE_Chl_correct: &RIE_Chl_correct 1.0 - CE_correct: &CE_correct 1.0 + IE_correct: 145.9 + AB_ref_correct: 254000 + RIE_SO4_correct: 0.63 + RIE_NH4_correct: 3.495 + RIE_Org_correct: 1.4 + RIE_NO3_correct: 1.05 + RIE_Chl_correct: 1.0 + CE_correct: 1.0 # Define mappings for associated variables variables: # all_dat[, NO3_correct := (NO3_11000 * IE * AB_ref_correct) / (IE_correct * ABRefWave)] NO3_11000: - num: [*IE, *RIE_NO3, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_NO3_correct, *ABRefWave, *CE_correct] + num: ["IE_tofware", "RIE_NO3_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_correct", "RIE_NO3_correct", "ABRefWave_tofware", "CE_correct"] # all_dat[, SO4_correct := (SO4_11000 * IE * RIE_SO4 * AB_ref_correct) / (IE_correct * RIE_SO4_correct * ABRefWave)] SO4_11000: - num: [*IE, *RIE_SO4, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_SO4_correct, *ABRefWave, *CE_correct] + num: ["IE_tofware", "RIE_SO4_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_SO4_correct", "ABRefWave_tofware", "CE_correct"] # all_dat[, NH4_correct := (NH4_11000 * IE * RIE_NH4 * AB_ref_correct) / (IE_correct * RIE_NH4_correct * ABRefWave)] NH4_11000: - num: [*IE, *RIE_NH4, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_NH4_correct, *ABRefWave, *CE_correct] + num: ["IE_tofware", "RIE_NH4_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_NH4_correct", "ABRefWave_tofware", "CE_correct"] # all_dat[, Org_correct := (Org_11000 * IE * AB_ref_correct) / (IE_correct * ABRefWave)] Org_11000: - num: [*IE, *RIE_Org, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_Org_correct, *ABRefWave, *CE_correct] + num: ["IE_tofware", "RIE_Org_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_Org_correct", "ABRefWave_tofware", "CE_correct"] # all_dat[, Chl_correct := (Chl_11000 * IE * AB_ref_correct) / (IE_correct * ABRefWave)] Chl_11000: - num: [*IE, *RIE_Chl, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_Chl_correct, *ABRefWave, *CE_correct] + num: ["IE_tofware", "RIE_Chl_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_Chl_correct", "ABRefWave_tofware", "CE_correct"] # m/z levels columns are treated differently to those above # all_dat[, Org_44_11000_correct := (Org_44_11000 * IE * AB_ref_correct) / (IE_correct * ABRefWave)] Org_44_11000: - num: [*IE, *RIE_Org, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_Org_correct, *ABRefWave, *CE, *RIE_Org, *CE_correct] + num: ["IE_tofware", "RIE_Org_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_Org_correct", "ABRefWave_tofware", "CE_tofware", "RIE_Org_tofware", "CE_correct"] # all_dat[, Org_43_11000_correct := (Org_43_11000 * IE * AB_ref_correct) / (IE_correct * ABRefWave)] Org_43_11000: - num: [*IE, *RIE_Org, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_Org_correct, *ABRefWave, *CE, *RIE_Org, *CE_correct] + num: ["IE_tofware", "RIE_Org_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_Org_correct", "ABRefWave_tofware", "CE_tofware", "RIE_Org_tofware", "CE_correct"] # all_dat[, Org_60_11000_correct := (Org_60_11000 * IE * AB_ref_correct) / (IE_correct * ABRefWave)] Org_60_11000: - num: [*IE, *RIE_Org, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_Org_correct, *ABRefWave, *CE, *RIE_Org, *CE_correct] + num: ["IE_tofware", "RIE_Org_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_Org_correct", "ABRefWave_tofware", "CE_tofware", "RIE_Org_tofware", "CE_correct"] # all_dat[, NO3_30_11000_correct := (NO3_30_11000 * IE * AB_ref_correct) / (IE_correct * ABRefWave)] NO3_30_11000: - num: [*IE, *RIE_NO3, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_NO3_correct, *ABRefWave, *CE, *RIE_NO3, *CE_correct] + num: ["IE_tofware", "RIE_NO3_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_NO3_correct", "ABRefWave_tofware", "CE_tofware", "RIE_NO3_tofware", "CE_correct"] # all_dat[, SO4_98_11000_correct := (SO4_98_11000 * IE * RIE_SO4 * AB_ref_correct) / (IE_correct * RIE_SO4_correct * ABRefWave)] SO4_98_11000: - num: [*IE, *RIE_SO4, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_SO4_correct, *ABRefWave, *CE, *RIE_SO4, *CE_correct] + num: ["IE_tofware", "RIE_SO4_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_SO4_correct", "ABRefWave_tofware", "CE_tofware", "RIE_SO4_tofware", "CE_correct"] # all_dat[, SO4_81_11000_correct := (SO4_81_11000 * IE * RIE_SO4 * AB_ref_correct) / (IE_correct * RIE_SO4_correct * ABRefWave)] SO4_81_11000: - num: [*IE, *RIE_SO4, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_SO4_correct, *ABRefWave, *CE, *RIE_SO4, *CE_correct] + num: ["IE_tofware", "RIE_SO4_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_SO4_correct", "ABRefWave_tofware", "CE_tofware", "RIE_SO4_tofware", "CE_correct"] # all_dat[, SO4_82_11000_correct := (SO4_82_11000 * IE * RIE_SO4 * AB_ref_correct) / (IE_correct * RIE_SO4_correct * ABRefWave)] SO4_82_11000: - num: [*IE, *RIE_SO4, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_SO4_correct, *ABRefWave, *CE, *RIE_SO4, *CE_correct] + num: ["IE_tofware", "RIE_SO4_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_SO4_correct", "ABRefWave_tofware", "CE_tofware", "RIE_SO4_tofware", "CE_correct"] # all_dat[, SO4_62_11000_correct := (SO4_62_11000 * IE * RIE_SO4 * AB_ref_correct) / (IE_correct * RIE_SO4_correct * ABRefWave)] SO4_62_11000: - num: [*IE, *RIE_SO4, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_SO4_correct, *ABRefWave, *CE, *RIE_SO4, *CE_correct] + num: ["IE_tofware", "RIE_SO4_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_SO4_correct", "ABRefWave_tofware", "CE_tofware", "RIE_SO4_tofware", "CE_correct"] # all_dat[, SO4_48_11000_correct := (SO4_48_11000 * IE * RIE_SO4 * AB_ref_correct) / (IE_correct * RIE_SO4_correct * ABRefWave)] SO4_48_11000: - num: [*IE, *RIE_SO4, *AB_ref_correct, *CE] - den: [*IE_correct, *RIE_SO4_correct, *ABRefWave, *CE, *RIE_SO4, *CE_correct] + num: ["IE_tofware", "RIE_SO4_tofware", "AB_ref_correct", "CE_tofware"] + den: ["IE_tofware", "RIE_SO4_correct", "ABRefWave_tofware", "CE_tofware", "RIE_SO4_tofware", "CE_correct"]