[1] "2025-04-30 01:56:54 MDT" [1] "1611" "161122" "d327" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/161122a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 81780 63 [1] 81780 [1] 81780 [1] "testing skipping spike filter" [1] 81780 [1] 81780 [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 01:56:58 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.013, ave o2scale2 = 0.83" [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] "72 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.013, ave o2scale2 = 0.83" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "74 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:56:58 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:56:58 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:57:14 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:57:16 MDT" [1] "reading in recalculated plot titles" [1] "Removed 74 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1288 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:57:19 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.963 co2off = 408.92 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.44 minutes" [1] "Average Cal: 7.64 minutes" [1] "Shortest Cal: 2.12 minutes" [1] "Longest Cal: 8.56 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 139 146 0.1040545 0.1091744 0.1073440 3 -33.37682 58.36372 3 4 147 155 0.1099028 0.1157929 0.1135921 3 -10.99545 -55.45477 5 3 165 173 0.1230924 0.1289140 0.1281685 3 -24.36364 45.38513 7 4 422 430 0.3115952 0.3174586 0.3152562 2 -10.95315 -56.71924 8 2 431 439 0.3181973 0.3240391 0.3218366 2 -33.34137 63.59678 10 2 705 713 0.5198146 0.5256728 0.5234418 3 -33.42788 62.98979 11 4 714 722 0.5264165 0.5323335 0.5301149 3 -11.04966 -55.87892 12 3 723 731 0.5330777 0.5389840 0.5382408 3 -24.42873 43.91549 14 4 986 994 0.7286677 0.7345963 0.7323561 2 -11.12267 -53.68843 15 2 995 1002 0.7353321 0.7412763 0.7389234 2 -33.51429 61.55078 18 4 1246 1249 0.9439373 0.9468818 0.9465149 1 -11.39041 -77.48448 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9887823 1.206486 -0.0024334966 3.574937e+00 0.0052402315 7.4585758 3 0.9886957 1.206365 0.0027255866 1.467670e-01 0.0073085307 2.3279516 5 0.9890882 1.206870 -0.0002129958 -1.539894e+00 0.0030398213 1.6466115 7 0.9895708 1.207545 0.0025515847 2.348580e+00 0.0060369799 5.9915698 8 0.9896875 1.207687 -0.0032351493 1.612187e+00 0.0077634292 4.5420428 10 0.9886970 1.206604 -0.0010390344 6.677714e-01 0.0027916889 2.8984632 11 0.9885786 1.206477 0.0020941364 9.653733e-02 0.0068624751 1.3749654 12 0.9884960 1.206374 -0.0008372966 7.524746e-03 0.0026035118 0.2537789 14 0.9864755 1.204227 -0.0002880918 -4.992474e-01 0.0008025953 1.9352558 15 0.9864322 1.204170 -0.0020392621 -1.049872e+00 0.0053508471 3.3593286 18 0.9802381 1.197178 0.0066880300 -1.895996e-14 0.0049961514 0.0000000 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 416.837 co2l1 = 0.961 co2l0 = 0.07" [1] "co2l0 = -104.22 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "151 out of 333 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "182 out of 1118 1-min values rejected as stack air" [1] "182 out of 1118 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] "making html"