[1] "2025-04-29 17:39:13 MDT" [1] "1301" "130109" "d009" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130109a.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 17:39:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.787" [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] "2 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.787" [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] "2 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:39:18 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:39:18 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:39:31 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:39:32 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1304 row(s) with high PFRIDGE" [1] "TEMP: 130 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:39:46 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 = -448.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.409 co2off = 378.31 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 61.84 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 299.56 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 7 [4,] 8 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 10 0.07948611 0.08574699 0.08331213 3 -9.082969 206.57899 2 4 11 20 0.08644253 0.09270903 0.09027100 3 66.280609 44.61527 3 3 21 30 0.09340454 0.09966811 0.09862192 3 40.563766 117.30545 4 4 31 40 0.28820582 0.29446531 0.29203077 2 66.366680 43.08074 5 2 41 60 0.29516088 0.50315856 0.41067705 2 -9.071392 203.07592 6 4 61 70 0.50385431 0.51011348 0.50767935 2 66.494070 44.96745 7 3 71 80 0.51080903 0.51706832 0.51602499 2 40.315102 114.49682 8 4 81 90 0.70558151 0.71184242 0.70940815 2 66.885188 41.24028 9 2 91 110 0.71253770 0.92056403 0.82806928 2 -10.166118 204.07390 10 4 111 120 0.92126079 0.92752063 0.92508604 2 66.860914 47.09291 11 3 121 130 0.93517025 0.94142972 0.94038671 2 40.420930 112.22640 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.279104 1.266635 0.0305089294 0.373697925 0.075190925 1.529949 2 1.279363 1.266873 -0.0140588153 0.226466727 0.035359928 4.009093 3 1.279503 1.266988 0.0010228484 2.202888767 0.010097281 3.849162 4 1.281654 1.269205 -0.0023349601 -0.094858433 0.011280635 2.234050 5 1.283195 1.270848 0.0016822023 -0.010323903 0.669776834 3.482422 6 1.284025 1.271756 0.0083750524 0.902355138 0.022382916 3.956028 7 1.283858 1.271605 0.0001537276 1.673319854 0.005533072 3.252209 8 1.285184 1.273183 0.0019108814 0.465790653 0.005253082 4.001143 9 1.286269 1.274311 0.0019001786 -0.008693407 0.707049287 6.198797 10 1.286964 1.275045 0.0026987852 0.136456609 0.010772865 2.042489 11 1.286987 1.275058 0.0059338901 -0.879677779 0.015749732 1.744426 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.526 co2l1 = 0.403 co2l0 = 0.05" [1] "co2l0 = -122.59 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"