[1] "2025-04-30 02:15:46 MDT" [1] "1701" "170117" "d017" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170117a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 76980 63 [1] 76980 [1] 76980 [1] "testing skipping spike filter" [1] 76980 [1] 76980 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 02:15:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.052, ave o2scale2 = 0.854" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "30 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.052, ave o2scale2 = 0.854" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "30 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:15:50 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:15:50 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:15:59 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:16:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 30 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1252 172 TRUE" [1] "Removed 172 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:16:04 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.963 co2off = 418.34 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.23 minutes" [1] "Average Cal: 7.91 minutes" [1] "Shortest Cal: 7.21 minutes" [1] "Longest Cal: 8.37 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 158 165 0.3259247 0.3309345 0.3291575 3 -39.65821 227.3041 3 4 166 174 0.3316528 0.3374295 0.3352636 3 -17.33012 126.8888 4 3 175 182 0.3381615 0.3432118 0.3428495 3 -30.68658 228.4116 6 4 441 449 0.5331870 0.5389595 0.5367764 2 -17.40727 115.8762 7 2 450 458 0.5396845 0.5454966 0.5433125 2 -39.73708 232.9330 10 2 723 731 0.7412406 0.7469571 0.7448124 3 -39.67867 230.5527 11 4 732 740 0.7476822 0.7533925 0.7512511 3 -17.35274 112.0304 12 3 741 748 0.7541092 0.7591176 0.7587588 3 -30.70279 216.7169 14 4 1012 1020 0.9497914 0.9555311 0.9533752 2 -17.39646 113.5518 15 2 1021 1028 0.9562405 0.9613175 0.9595050 2 -39.72727 229.8312 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9500858 1.170238 1.135446e-03 9.47247584 0.003995049 20.088820 3 0.9500777 1.170250 -2.950295e-04 1.20118526 0.003578442 12.450176 4 0.9501437 1.170326 8.042883e-04 6.82022804 0.004066184 5.032213 6 0.9507151 1.171304 -2.257627e-05 0.27248298 0.002353442 3.379552 7 0.9507674 1.171456 -3.055145e-03 3.15078416 0.007465870 7.327246 10 0.9518034 1.172874 9.253164e-04 -0.46757794 0.002485561 1.402296 11 0.9517562 1.172764 2.523478e-03 -1.49150266 0.006929653 4.177935 12 0.9517909 1.172825 -3.730953e-03 -4.30294986 0.007835084 3.144067 14 0.9524769 1.174087 -1.010715e-03 -0.06393979 0.003020084 2.671597 15 0.9525633 1.174190 -2.915659e-03 -0.18873864 0.007445077 5.007764 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 422.898 co2l1 = 0.963 co2l0 = 0.074" [1] "co2l0 = -142.16 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "76 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "204 out of 938 1-min values rejected as stack air" [1] "204 out of 938 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"