[1] "2025-04-30 01:26:12 MDT" [1] "1605" "160530" "d151" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160530a.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] "2025-04-30 01:26:16 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.925, ave o2scale2 = 0.786" [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 = 0.925, ave o2scale2 = 0.786" [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] "2025-04-30 01:26:16 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:26:16 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:26:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:26:37 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 1426 820 TRUE" [1] "Removed 820 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:26:39 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 = -522.7" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.943 co2off = 396.83 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.69 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SL" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 271 280 0.7627972 0.7690624 0.7666257 3 -12.852172 249.1364 1.076053 3 4 281 290 0.7697589 0.7760231 0.7735867 3 9.954516 138.0778 1.075702 5 3 299 306 0.7836835 0.7885560 0.7882080 3 -3.662927 243.2296 1.075224 8 4 566 575 0.9716932 0.9779583 0.9755215 2 9.942727 136.9699 1.075539 9 2 576 585 0.9786551 0.9849218 0.9824845 2 -12.896164 256.9043 1.075676 jfcv2 co2slp o2slp co2sd o2sd 2 1.266962 -4.048225e-03 -0.5195751 0.0105000930 3.790405 3 1.266781 2.515349e-03 2.3942810 0.0072781742 11.874275 5 1.266395 1.352303e-03 -1.8779740 0.0042401387 1.330971 8 1.266358 -4.527449e-05 4.1372440 0.0008957598 12.499728 9 1.266477 -5.542716e-03 -0.9945124 0.0149992536 8.835838 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 396.799 co2l1 = 0.942 co2l0 = -0.026" [1] "co2l0 = -146.15 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "38 out of 126 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "88 out of 531 1-min values rejected as stack air" [1] "81 out of 522 Line 1 1-min values rejected as stack air" [1] "7 out of 9 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"