[1] "2025-04-29 17:41:45 MDT" [1] "1301" "130113" "d013" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130113a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 17:41:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.777" [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] "18 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.777" [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] "20 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:41:49 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:41:49 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:42:08 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:42:09 MDT" [1] "reading in recalculated plot titles" [1] "Removed 20 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1416 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:42:27 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -448.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.396 co2off = 380.96 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.95 minutes" [1] "Shortest Cal: 8.03 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 62 71 0.04366638 0.04993437 0.04749411 2 61.74863 -65.08016 3 2 72 81 0.05062998 0.05692477 0.05448587 2 -16.34589 95.42855 4 5 82 91 0.05762034 0.06388041 0.06283709 NA 27.97066 -14.69545 6 2 357 366 0.25240281 0.25866250 0.25622809 3 -16.42537 94.51264 7 4 367 376 0.25935793 0.26561696 0.26318309 3 61.83902 -59.81759 8 3 377 384 0.26701178 0.27258643 0.27223880 3 34.85406 15.34309 10 4 648 657 0.46115394 0.46741672 0.46498236 2 61.95906 -65.12132 11 2 658 667 0.46811230 0.47437523 0.47194127 2 -16.55456 95.35690 13 2 946 955 0.66982839 0.67608793 0.67365358 3 -16.08723 92.23314 14 4 956 965 0.67678345 0.68304282 0.68060836 3 61.93798 -63.79184 15 5 966 975 0.68373840 0.69000139 0.68895838 NA 28.65088 -10.90127 16 3 976 985 0.69069676 0.69695949 0.69591638 3 35.08335 5.05045 18 4 1245 1254 0.87855127 0.88481450 0.88237733 2 62.12016 -64.59128 19 2 1255 1264 0.88551027 0.89176916 0.88933504 2 -16.89723 93.86732 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.292939 1.281522 0.004029600 -1.340639e-01 0.012997210 2.873687 3 1.293144 1.281701 -0.006699871 6.353477e-01 0.022433104 2.972799 4 1.293237 1.281805 0.047112905 5.680406e-01 0.033366601 2.614359 6 1.295885 1.284750 0.002969326 3.039526e-01 0.012435433 4.797718 7 1.295901 1.284696 0.006117885 1.644358e+00 0.017410958 5.571433 8 1.295791 1.284598 -0.009008787 2.351273e-15 0.021176849 0.000000 10 1.300492 1.289458 0.002742844 2.911576e-01 0.007766472 2.940634 11 1.300614 1.289593 0.008344688 1.020518e-01 0.023050411 1.617972 13 1.301466 1.290572 -0.005544353 2.720462e-02 0.014706312 1.992479 14 1.301392 1.290493 0.006535436 2.748958e-01 0.018169826 2.191107 15 1.301579 1.290683 0.028464419 2.631290e+00 0.020152543 3.511349 16 1.301553 1.290668 0.006653394 9.482810e-01 0.017698773 1.562620 18 1.301930 1.291217 0.001661049 -1.228558e+00 0.007460760 3.297582 19 1.302083 1.291337 0.004141885 -1.699571e-01 0.018950592 1.487597 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.861 co2l1 = 0.396 co2l0 = 0.15" [1] "co2l0 = -98.08 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "41 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "104 out of 1226 1-min values rejected as stack air" [1] "104 out of 1226 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"