[1] "2025-04-29 22:10:26 MDT" [1] "1409" "141010" "d283" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141010a.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 22:10:30 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.846, ave o2scale2 = 0.761" [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] "6 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.846, ave o2scale2 = 0.761" [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] "6 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:10:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:10:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:10:49 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:10:51 MDT" [1] "reading in recalculated plot titles" [1] "Removed 6 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1429 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:10:56 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 = -541.5" [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 = 397.98 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.92 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 279 288 0.1959236 0.2021865 0.1997497 3 -33.559648 284.2560 3 4 289 298 0.2028820 0.2091421 0.2067073 3 23.989125 138.4142 4 3 299 308 0.2098375 0.2160967 0.2150536 3 4.485047 211.8310 7 4 576 584 0.4054041 0.4109689 0.4088816 2 23.995920 137.1634 8 2 585 594 0.4116656 0.4179294 0.4154930 2 -33.596352 280.1619 9 5 595 604 0.4186251 0.4248843 0.4238410 NA 2.532562 196.7856 11 2 875 884 0.6134462 0.6197106 0.6172747 3 -33.520023 284.5975 12 4 885 894 0.6204063 0.6266673 0.6242324 3 24.047516 139.2300 13 3 895 904 0.6273671 0.6336264 0.6325833 3 4.527469 219.0947 15 4 1174 1183 0.8220432 0.8283041 0.8258690 2 24.043539 137.1072 16 2 1184 1193 0.8290000 0.8352614 0.8328264 2 -33.533734 283.9651 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.181323 1.312719 -0.0034630718 1.1973611 0.011199786 6.305928 3 1.181091 1.312476 -0.0012346122 -1.9972425 0.007349229 5.332970 4 1.181279 1.312654 0.0027652334 2.1021574 0.009117460 3.734870 7 1.180186 1.311349 -0.0011991045 2.3023710 0.007820472 6.713149 8 1.179919 1.311013 -0.0069114126 -1.2216014 0.017894406 3.593847 9 1.179745 1.310820 -0.0073639541 1.2869616 0.005214913 2.468613 11 1.183363 1.314978 -0.0016326153 -0.2169268 0.005814366 4.564420 12 1.183504 1.314997 -0.0040999267 0.7027249 0.014259855 5.831949 13 1.183596 1.315082 -0.0002511397 3.7148898 0.004008501 5.075043 15 1.184346 1.316033 -0.0011147938 -1.0608939 0.004381747 4.051274 16 1.184367 1.316081 -0.0037322258 1.1579033 0.012706102 5.507796 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.734 co2l1 = 0.48 co2l0 = 0.088" [1] "co2l0 = -143.86 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "41 out of 140 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "99 out of 1271 1-min values rejected as stack air" [1] "99 out of 1214 Line 1 1-min values rejected as stack air" [1] "0 out of 57 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"