[1] "2025-04-29 19:03:55 MDT" [1] "1306" "130621" "d172" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130621a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86100 63 [1] 86100 [1] 86100 [1] "testing skipping spike filter" [1] 86100 [1] 86100 [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 19:03:59 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.73" [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] "108 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.73" [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] "108 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:03:59 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:03:59 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:04:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:04:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 108 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1325 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:04:35 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 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.31 co2off = 369.87 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.59 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.02 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 jfcv1 3 4 216 225 0.1530153 0.1592784 0.1568434 2 47.97716 159.6339 1.268517 4 2 226 235 0.1599738 0.1662367 0.1638020 2 -18.46715 247.9888 1.268676 5 5 236 245 0.1669320 0.1731950 0.1721509 NA 38.63337 137.2739 1.268238 8 2 499 508 0.3617749 0.3680347 0.3656002 3 -18.81943 247.7338 1.268710 9 4 509 518 0.3687384 0.3750028 0.3725650 3 47.76875 155.1618 1.268412 10 3 519 528 0.3756974 0.3819617 0.3809184 3 82.84556 83.9736 1.268285 12 4 771 780 0.5705532 0.5768159 0.5743804 2 48.09072 157.5540 1.268132 13 2 781 790 0.5775112 0.5837740 0.5813393 2 -18.87809 245.7592 1.267827 16 2 1044 1049 0.7792820 0.7855416 0.7838025 3 -18.35373 245.3611 1.267645 17 4 1050 1059 0.7862370 0.7925000 0.7900629 3 48.12677 159.8521 1.267624 18 5 1060 1069 0.7931949 0.7994578 0.7984128 NA 38.45416 142.0657 1.267790 19 3 1070 1077 0.8001532 0.8050252 0.8046761 3 82.93208 82.4033 1.267781 21 4 1310 1318 0.9888718 0.9944516 0.9923543 2 48.18866 158.7971 1.269270 22 2 1319 1325 0.9951490 0.9993249 0.9979340 2 -18.45770 243.4682 1.269532 jfcv2 co2slp o2slp co2sd o2sd 3 1.369797 0.018304037 -0.04525905 0.045115056 3.0293397 4 1.369938 0.038220323 0.05397067 0.095547827 2.3233739 5 1.369493 -0.081887405 -1.53632316 0.057982756 4.6797034 8 1.370008 -0.056280034 0.91453009 0.138881250 4.1933373 9 1.369677 -0.002229894 0.06774133 0.007473241 2.5169891 10 1.369543 0.008970624 -2.95272814 0.024836564 4.0023542 12 1.369303 -0.017052576 0.27839633 0.041989742 1.7210199 13 1.369009 -0.039520678 1.30979059 0.098155802 4.3838824 16 1.368755 -0.016275144 -0.50894157 0.051567396 3.1623129 17 1.368745 -0.005377812 -0.12910127 0.021589689 2.3818427 18 1.368873 -0.058239700 -0.90824436 0.041233164 1.9483789 19 1.368878 0.005826876 -1.11984142 0.012239196 0.7960706 21 1.370388 0.018774878 1.10461018 0.042238840 2.8102465 22 1.370577 0.021797937 -1.09884515 0.035475878 1.9737871 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.076 co2l1 = 0.308 co2l0 = 0.13" [1] "co2l0 = -132.08 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "71 out of 180 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "109 out of 1142 1-min values rejected as stack air" [1] "34 out of 565 Line 1 1-min values rejected as stack air" [1] "75 out of 577 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"