[1] "2025-04-30 02:29:17 MDT" [1] "1702" "170311" "d070" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170311a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83855 63 [1] 83855 [1] 83855 [1] "testing skipping spike filter" [1] 83855 [1] 83855 [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 02:29:21 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.065, ave o2scale2 = 0.856" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "8 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.065, ave o2scale2 = 0.856" [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] "9 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:29:22 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:29:22 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:29:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:29:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1387 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:29:35 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" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -647.9" [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 = 0.98 co2off = 365.64 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.21 minutes" [1] "Average Cal: 8.47 minutes" [1] "Shortest Cal: 8.18 minutes" [1] "Longest Cal: 9.23 minutes" [1] "Removed 1 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,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 115 123 0.08181591 0.08750182 0.08536629 3 19.55567 318.3222 3 4 124 132 0.08821181 0.09389008 0.09176038 3 41.48474 206.6740 4 3 133 141 0.09460017 0.10028212 0.09957248 3 28.38261 302.4699 6 4 408 416 0.29004395 0.29572373 0.29359325 2 41.50838 201.8556 7 2 417 425 0.29643406 0.30212283 0.29999297 2 19.56073 321.0793 10 3 645 654 0.46977043 0.47617931 0.47510879 3 28.31217 302.9716 11 2 655 664 0.47689089 0.48329485 0.48080432 3 19.46518 316.2630 12 4 665 674 0.48400642 0.49040804 0.48791859 3 41.43045 202.4193 13 5 675 684 0.49111956 0.49752355 0.49645518 NA 39.20300 198.5722 15 4 937 945 0.67761516 0.68330697 0.68117234 2 41.50621 201.7691 16 2 946 954 0.68401832 0.68971704 0.68758169 2 19.55018 318.6171 18 2 1228 1236 0.88585758 0.89156282 0.88942295 3 19.52096 313.6486 19 4 1237 1245 0.89227590 0.89798105 0.89584141 3 41.46894 205.7618 20 3 1246 1254 0.89869424 0.90439922 0.90368614 3 28.32096 311.1717 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9427091 1.170973 -0.0048603319 0.0665045 0.014867764 3.3317231 3 0.9425248 1.170884 0.0065534293 1.3908781 0.015634973 4.4117834 4 0.9425277 1.170751 0.0008562834 -0.4257548 0.005287529 0.4506431 6 0.9406381 1.169035 0.0008077529 0.5478641 0.003016016 2.0037310 7 0.9407391 1.169097 -0.0026200809 0.7297695 0.012943070 2.5564003 10 0.9398622 1.168430 -0.0019476203 -4.2318288 0.007934142 6.2159906 11 0.9398891 1.168505 0.0041035035 1.4480690 0.010848512 5.5879159 12 0.9398029 1.168440 0.0010322414 0.0870619 0.004495464 2.8058572 13 0.9397760 1.168438 -0.0056140922 1.7180407 0.004065864 2.6163016 15 0.9380324 1.166615 0.0004639252 0.2870536 0.004801646 2.0641161 16 0.9380773 1.166750 0.0013759100 -0.6250399 0.006049753 3.6131549 18 0.9375871 1.166461 -0.0036514856 -3.0277978 0.009904943 13.0586107 19 0.9374008 1.166297 -0.0051182067 0.9219360 0.012609520 2.5469001 20 0.9374116 1.166205 -0.0023171875 11.1156307 0.005683361 11.6943467 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 365.538 co2l1 = 0.98 co2l0 = 0.107" [1] "co2l0 = -161.26 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "190 out of 305 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "115 out of 1181 1-min values rejected as stack air" [1] "115 out of 1181 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"