[1] "2025-04-29 16:59:48 MDT" [1] "1210" "121002" "d276" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121002a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 16:59:52 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.782" [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] "59 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.782" [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] "60 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:59:53 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:59:53 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:00:18 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:00:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 60 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1299 row(s) with low FLSP" [1] "TEMP: 76 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:00:32 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -449.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.2" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.43 O2 = -582.3" [1] "position 6 cylinder CC339495 description: WT2 CO2 = 394.29 O2 = -551.2" [1] "Nominal linear calibrations:" [1] "co2scl = 0.44 co2off = 378.71 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 91.05 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 299.67 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 2 1 9 0.1848461 0.1904098 0.1883233 2 -22.26573 118.82941 1.293297 2 4 10 27 0.1911061 0.3991685 0.3080968 2 48.21046 -39.20428 1.295654 3 2 28 45 0.3998637 0.6079650 0.5168774 3 -22.38796 119.22342 1.299170 4 4 46 55 0.6086609 0.6149239 0.6124867 3 48.30127 -36.10422 1.300166 5 3 56 64 0.6156193 0.6211870 0.6204903 3 24.10137 27.33723 1.300142 6 4 65 70 0.8132336 0.8167106 0.8156675 2 48.45598 -37.11967 1.300586 7 2 71 76 0.8174062 0.8229735 0.8214079 2 -21.90704 122.90627 1.301295 jfcv2 co2slp o2slp co2sd o2sd 1 1.274621 0.0020663276 2.1398942992 0.007499541 4.880524 2 1.277106 0.0003847107 -0.0004519091 0.058786663 3.265413 3 1.280773 0.0022151607 -0.0033127625 0.334836932 3.800129 4 1.281823 -0.0037201892 1.0140413790 0.018096897 3.340205 5 1.281798 0.0146409111 5.6148258905 0.032891710 5.883232 6 1.282240 -0.0041130025 -1.9266975010 0.005468036 2.648149 7 1.283052 -0.0096559290 1.7603171948 0.025671576 5.027957 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 384.088 co2l1 = 0.44 co2l0 = 0.179" [1] "co2l0 = -103.83 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"