[1] "2025-04-29 21:43:18 MDT" [1] "1406" "140731" "d212" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140731a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 21:43:22 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.734" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.734" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:43:22 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:43:22 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:43:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:43:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:43:50 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.473 co2off = 390.7 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 83 92 0.05818866 0.06445153 0.06201676 3 -19.88192 281.5742 3 4 93 102 0.06514702 0.07141013 0.06897606 3 38.52080 132.0373 4 3 103 112 0.07210822 0.07836852 0.07732543 3 18.69905 212.2385 6 4 383 391 0.26697454 0.27325231 0.27106563 2 38.58958 137.1513 7 2 392 401 0.27394766 0.28020718 0.27777280 2 -19.82876 282.6219 9 2 682 691 0.47578646 0.48205006 0.47961266 3 -19.82298 281.9022 10 4 692 701 0.48274635 0.48900926 0.48657252 3 38.62762 137.7921 11 5 702 711 0.48970469 0.49596759 0.49492209 NA 16.42522 200.2507 12 3 712 721 0.49666345 0.50292705 0.50188370 3 18.81202 217.5827 14 4 982 991 0.68456253 0.69082289 0.68838830 2 38.66483 133.2812 15 2 992 1001 0.69151852 0.69778157 0.69534668 2 -19.75683 280.8649 17 2 1282 1291 0.89331753 0.89957674 0.89714268 3 -19.68112 282.8471 18 4 1292 1301 0.90027234 0.90653241 0.90409824 3 38.72285 137.6964 19 3 1302 1311 0.90722801 0.91349094 0.91244780 3 18.89674 214.8338 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.224497 1.359671 -8.057983e-03 -0.21376825 0.020055858 2.4213114 3 1.224485 1.359645 3.082485e-03 -2.36590824 0.010482470 10.3344119 4 1.224718 1.359907 2.746419e-05 -0.06970366 0.003328120 0.2050658 6 1.226723 1.362062 3.385919e-03 0.12034288 0.008719198 2.0227470 7 1.226756 1.362152 -2.946804e-03 -0.58787399 0.009621024 3.0752285 9 1.227704 1.363164 -3.605106e-03 0.26150819 0.010805243 2.0339144 10 1.227581 1.363039 5.575680e-03 0.30958164 0.016346774 2.1947143 11 1.227567 1.363032 -1.637609e-02 -0.42492534 0.011623068 1.1378934 12 1.227571 1.363039 -2.183466e-03 -0.66988094 0.006156329 1.1054422 14 1.227748 1.363190 1.677279e-03 1.07317715 0.005373105 3.0398129 15 1.227581 1.363013 -1.517672e-03 -0.20803675 0.013912022 1.4697811 17 1.226628 1.361953 -4.244326e-03 1.71753551 0.010817657 4.5959719 18 1.226473 1.361783 4.451222e-03 1.33091460 0.016254771 3.8258040 19 1.226515 1.361830 -5.933963e-03 0.83063748 0.015939599 1.2511140 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.998 co2l1 = 0.473 co2l0 = 0.09" [1] "co2l0 = -143.17 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "113 out of 625 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "512 out of 1253 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "512 out of 1253 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"