[1] "2025-04-30 02:28:24 MDT" [1] "1702" "170309" "d068" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170309a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84480 63 [1] 84480 [1] 84480 [1] "testing skipping spike filter" [1] 84480 [1] 84480 [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 02:28:28 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.056, ave o2scale2 = 0.851" [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] "26 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.056, ave o2scale2 = 0.851" [1] "Removing 0 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 0 RC FC 2 jog(s) with SP SD > 1000" [1] "26 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:28:28 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:28:28 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:28:41 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:28:43 MDT" [1] "reading in recalculated plot titles" [1] "Removed 26 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1380 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:28:45 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" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -647.9" [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 CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.983 co2off = 361.7 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.18 minutes" [1] "Average Cal: 7.96 minutes" [1] "Shortest Cal: 6.14 minutes" [1] "Longest Cal: 8.19 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 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 7 0.001481076 0.005741522 0.004321429 3 19.65290 326.5906 2 4 8 16 0.006451852 0.012136400 0.010006196 3 41.57218 206.4116 3 3 17 25 0.012846701 0.018530816 0.017819367 3 28.42008 293.0281 5 4 289 297 0.208272049 0.213952720 0.211822028 2 41.36423 201.3242 6 2 298 306 0.214662992 0.220346586 0.218215803 2 19.40249 320.3889 8 2 577 584 0.417136169 0.422106134 0.420330908 3 19.35328 318.7550 9 4 585 593 0.422816522 0.428502720 0.426368295 3 41.26144 202.5737 11 3 603 611 0.435602373 0.441287008 0.440576997 3 28.15711 304.8184 13 4 864 872 0.624593576 0.630275145 0.628144655 2 41.60247 207.6691 14 2 873 881 0.630985446 0.636665133 0.634535189 2 19.62981 320.2444 16 2 1145 1153 0.832728067 0.838413802 0.836280465 3 19.59476 318.9465 17 4 1154 1162 0.839123843 0.844803993 0.842673830 3 41.52235 204.5822 18 3 1163 1171 0.845514149 0.851197685 0.850487741 3 28.43117 297.6447 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 0.9468108 1.174237 -8.973058e-03 1.5299752 0.015807472 2.689273 2 0.9467135 1.174204 -1.847158e-03 1.6160321 0.011441451 4.514065 3 0.9468902 1.174507 -3.667028e-03 14.4879802 0.009494634 15.817427 5 0.9465763 1.174457 -3.311248e-03 -1.7170456 0.008639685 6.975203 6 0.9467010 1.174541 -3.445702e-03 1.2800439 0.013307581 3.749479 8 0.9472321 1.175777 -1.667895e-03 3.2158668 0.006939893 8.038487 9 0.9470595 1.175556 -4.693073e-03 -1.4453651 0.011593146 4.615992 11 0.9470741 1.175632 -3.972502e-05 -4.2931231 0.006559991 4.607531 13 0.9475281 1.175939 -5.187824e-03 -2.8946348 0.011713699 7.043567 14 0.9474766 1.175825 -6.941771e-04 -0.3811641 0.021318151 6.873499 16 0.9478317 1.176514 -1.893411e-05 -0.2855003 0.004783112 3.795277 17 0.9477724 1.176486 6.784963e-03 -0.6026344 0.016828518 2.829515 18 0.9477253 1.176240 -1.498839e-03 -5.9487011 0.003492312 6.176134 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 365.534 co2l1 = 0.98 co2l0 = 0.02" [1] "co2l0 = -161.11 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "130 out of 437 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "307 out of 1217 1-min values rejected as stack air" [1] "307 out of 1217 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"