[1] "2025-04-29 22:14:20 MDT" [1] "1409" "141017" "d290" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141017a.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 22:14:25 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.831, ave o2scale2 = 0.749" [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] "20 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.831, ave o2scale2 = 0.749" [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] "19 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:14:25 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:14:25 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:14:44 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:14:45 MDT" [1] "reading in recalculated plot titles" [1] "Removed 19 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 22:14:51 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.48 co2off = 405.49 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 4 [3,] 5 6 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 10 0.001296701 0.007557176 0.005123065 1 -33.701742 284.7729 3 2 291 300 0.203045312 0.209305035 0.206870714 3 -33.681453 283.1018 4 4 301 310 0.210000405 0.216263802 0.213827080 3 23.886977 140.0458 5 3 311 320 0.216959288 0.223218750 0.222175318 3 4.383227 218.2119 7 4 591 600 0.411758623 0.418018924 0.415584209 2 24.042344 138.3868 8 2 601 610 0.418717593 0.424981076 0.422544332 2 -33.562203 283.6831 9 5 611 620 0.425676360 0.431935937 0.430892520 NA 2.537531 196.9667 11 2 889 898 0.620266291 0.626525492 0.624091399 3 -33.593969 284.5079 12 4 899 908 0.627221094 0.633481076 0.631046850 3 23.961469 136.5869 13 3 909 918 0.634176968 0.640439815 0.639396463 3 4.449859 216.0448 15 4 1177 1186 0.828970660 0.835230324 0.832795822 2 23.973797 139.9085 16 2 1187 1196 0.835925839 0.842185446 0.839751186 2 -33.628234 284.3167 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.201108 1.332369 -7.616066e-04 -1.31274483 0.007951614 4.309834 3 1.200369 1.331554 -1.118869e-03 0.36696903 0.005672493 6.872445 4 1.200217 1.331376 -2.994737e-04 1.07632175 0.009325401 6.758962 5 1.200362 1.331564 -1.553283e-03 0.23365527 0.006561347 2.017588 7 1.204737 1.336633 -3.397994e-03 0.09040068 0.009157416 3.537267 8 1.204822 1.336712 -6.243560e-03 -0.19377128 0.016547778 2.398739 9 1.204768 1.336641 -2.308364e-03 -1.88939006 0.001635184 2.667658 11 1.204986 1.336824 -3.869607e-03 0.84506727 0.009831334 3.535365 12 1.204981 1.336791 -4.230946e-03 -0.54021745 0.013255769 2.007866 13 1.205051 1.336821 -7.708099e-05 -3.41777483 0.007661560 5.893595 15 1.204631 1.336112 3.402945e-04 -1.07872850 0.005249655 3.758116 16 1.204611 1.336121 -7.362014e-03 -0.55319366 0.019827936 3.281019 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.77 co2l1 = 0.48 co2l0 = 0.086" [1] "co2l0 = -144.35 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "58 out of 345 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "287 out of 1244 1-min values rejected as stack air" [1] "285 out of 1035 Line 1 1-min values rejected as stack air" [1] "2 out of 209 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"