[1] "2025-04-30 02:44:27 MDT" [1] "1704" "170419" "d109" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170419a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 76744 63 [1] 76744 [1] 76744 [1] "testing skipping spike filter" [1] 76744 [1] 76744 [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 02:44:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.114, ave o2scale2 = 0.896" [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] "165 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.114, ave o2scale2 = 0.896" [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] "165 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:44:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:44:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:44:47 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:44:48 MDT" [1] "reading in recalculated plot titles" [1] "Removed 165 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1111 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:44:51 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [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 = 4.45 co2off = 371.96 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 7.38 minutes" [1] "Shortest Cal: 2.05 minutes" [1] "Longest Cal: 8.33 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Removed 1 anomalous calibration row(s)" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 4 [3,] 5 6 [4,] 7 8 [5,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 196 204 0.1415341 0.1472268 0.1450917 3 5.519348 318.4115 0.8992899 3 4 205 209 0.1479547 0.1508005 0.1500890 3 8.274292 123.4999 0.8991197 5 3 219 227 0.1607692 0.1664607 0.1657492 3 4.716580 291.1566 0.8988130 7 4 387 393 0.3495218 0.3537911 0.3523679 1 8.330000 153.4694 0.8942731 10 2 642 650 0.5575211 0.5632135 0.5610781 2 5.527714 313.1915 0.8970718 11 4 651 659 0.5639249 0.5696310 0.5674901 2 8.291232 156.2813 0.8970139 14 4 927 935 0.7656560 0.7713593 0.7692233 2 8.400107 160.8803 0.8993212 15 2 936 944 0.7720711 0.7777691 0.7756318 2 5.637946 310.7421 0.8994479 18 3 1014 1021 0.9230851 0.9280784 0.9277226 3 4.799469 296.8711 0.9011534 19 2 1022 1030 0.9287901 0.9344825 0.9323479 3 5.579473 318.8280 0.9012718 20 4 1031 1039 0.9351941 0.9408961 0.9387618 3 8.296286 159.3715 0.9010391 jfcv2 co2slp o2slp co2sd o2sd 2 1.117430 -0.0002766028 2.061191 0.002385082 11.779889 3 1.117352 0.0013116688 -21.849975 0.001736930 22.388749 5 1.116725 0.0015840075 -4.386604 0.003614517 4.648749 7 1.112412 0.0015005494 -1.305112 0.002491391 3.375690 10 1.115841 -0.0003942323 -1.739892 0.001247319 7.947568 11 1.115844 0.0009526399 4.365788 0.002280098 10.375646 14 1.118673 0.0016253979 1.797590 0.003665846 5.664908 15 1.118897 -0.0016664893 4.473243 0.003778956 10.421366 18 1.120546 -0.0025298297 -2.846374 0.005165352 2.062840 19 1.120589 -0.0028298981 -3.411162 0.006280225 9.423013 20 1.120468 -0.0023642149 -1.906603 0.005309418 9.690926 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.208 co2l1 = 4.427 co2l0 = -0.69" [1] "co2l0 = -158.17 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "129 out of 632 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "503 out of 912 1-min values rejected as stack air" [1] "464 out of 873 Line 1 1-min values rejected as stack air" [1] "39 out of 39 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"