[1] "2025-04-29 20:15:21 MDT" [1] "1401" "140114" "d014" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140114a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:15:25 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, 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] "304 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.825, 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] "305 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:15:26 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:15:26 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:15:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:15:45 MDT" [1] "reading in recalculated plot titles" [1] "Removed 305 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1131 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:15:52 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 = -475.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.463 co2off = 378.87 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.15 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 100 109 0.1023553 0.1086147 0.1061804 2 55.166117 161.2839 1.214028 3 2 110 119 0.1093110 0.1155740 0.1131369 2 -4.907203 303.6746 1.214122 5 2 310 314 0.3110550 0.3138368 0.3131413 2 -4.513708 289.3679 1.213844 6 4 315 319 0.3200961 0.3242696 0.3231103 2 54.969750 171.0399 1.213410 10 4 492 497 0.5211474 0.5246249 0.5235816 2 54.996734 148.7305 1.211608 11 2 498 503 0.5281026 0.5329710 0.5319277 2 -4.242766 315.5966 1.210533 13 2 763 772 0.7284176 0.7346806 0.7322439 3 -4.468703 299.5185 1.209428 14 4 773 782 0.7353762 0.7416360 0.7392013 3 54.963062 164.3505 1.209460 15 3 783 792 0.7423310 0.7485904 0.7475471 3 34.690812 240.8907 1.209496 17 4 1045 1054 0.9370891 0.9433484 0.9409145 2 55.030344 162.8783 1.218129 18 2 1055 1064 0.9440440 0.9503075 0.9478720 2 -4.855352 303.2759 1.218408 jfcv2 co2slp o2slp co2sd o2sd 2 1.336278 -0.0043101744 2.3848308 0.013407855 9.389143 3 1.336384 0.0006589933 4.2769519 0.013838988 12.839275 5 1.335955 -0.0009361945 4.9792820 0.001252082 5.204492 6 1.335651 -0.0048309357 -1.0829681 0.010153317 2.326189 10 1.333670 -0.0028765035 -4.0934899 0.004878838 6.452364 11 1.332506 -0.0032259064 -4.8350099 0.005217253 6.326972 13 1.331368 -0.0042445757 1.0345213 0.017798655 9.468438 14 1.331393 0.0071017705 1.9297246 0.017726248 5.014160 15 1.331447 -0.0020612093 -2.9596839 0.013365985 4.039452 17 1.340664 0.0072040370 0.5221403 0.018956041 4.089279 18 1.340962 -0.0054520209 -1.6906605 0.015779201 4.529929 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.752 co2l1 = 0.463 co2l0 = 0.013" [1] "co2l0 = -150.84 co2l1 = 0.23" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "77 out of 376 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "299 out of 971 1-min values rejected as stack air" [1] "299 out of 971 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] "LOXY data found" [1] "making html"