[1] "2025-04-29 21:17:45 MDT" [1] "1404" "140518" "d138" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140518a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-29 21:17:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.719" [1] "Removing 0 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] "7 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.719" [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] "9 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:17:50 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:17:50 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:18:04 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:18:05 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1427 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:18:10 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.4 co2off = 373.56 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.71 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 76 85 0.05445553 0.06071432 0.05828042 2 8.096789 280.4979 3 4 86 95 0.06140981 0.06766927 0.06523536 2 76.933539 131.0783 5 4 376 385 0.26320515 0.26946814 0.26703394 3 77.065500 134.9422 6 2 386 395 0.27016351 0.27642402 0.27398955 3 7.957594 275.0002 7 3 396 405 0.27711930 0.28338275 0.28233958 3 53.304773 210.0866 9 2 674 682 0.47265350 0.47821719 0.47613071 2 7.996027 279.1832 10 4 683 691 0.47891319 0.48447685 0.48239047 2 76.988911 125.4864 13 4 969 978 0.68069100 0.68695414 0.68451968 3 77.071242 134.5836 14 2 979 988 0.68764957 0.69390972 0.69147530 3 7.964375 270.9900 15 3 989 998 0.69460530 0.70086808 0.69982480 3 53.355688 212.6052 17 2 1269 1278 0.88942708 0.89568981 0.89325436 2 7.815281 266.7445 18 4 1279 1288 0.89638542 0.90264476 0.90021071 2 77.195289 125.4681 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.263305 1.386958 -0.003671152 1.9124649 0.012165476 5.838845 3 1.263470 1.387127 0.003434821 2.3499632 0.014539161 9.859497 5 1.266698 1.390557 -0.001649091 2.9210516 0.006581647 9.231894 6 1.266810 1.390676 -0.006120462 0.5072140 0.015728266 2.561437 7 1.266722 1.390590 -0.001716309 -0.2699598 0.006925379 1.270409 9 1.267550 1.391533 -0.001158797 -0.1538190 0.006973523 4.760721 10 1.267558 1.391471 0.005799676 1.3047808 0.016601011 6.948034 13 1.268504 1.392086 -0.001066735 1.5672780 0.003466266 3.974565 14 1.268508 1.392031 -0.002735576 -1.7685805 0.014528029 5.046325 15 1.268452 1.391929 0.006625277 1.9416238 0.017238253 2.627712 17 1.269641 1.392747 -0.009964087 -1.1411204 0.026304472 5.521607 18 1.269654 1.392778 0.008362954 -0.2178459 0.026300376 4.576014 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.457 co2l1 = 0.4 co2l0 = -0.188" [1] "co2l0 = -142.51 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "128 out of 225 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "97 out of 1249 1-min values rejected as stack air" [1] "97 out of 1249 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"