[1] "2025-04-29 19:33:25 MDT" [1] "1310" "131013" "d286" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131013a.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 19:33:29 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.745" [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 = 0.82, ave o2scale2 = 0.745" [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] "59 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:33:30 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:33:30 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:33:48 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:33:50 MDT" [1] "reading in recalculated plot titles" [1] "Removed 59 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1377 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:33:55 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 = -446.8" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.4" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.3" [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 = 0.445 co2off = 377.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.95 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 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 9 18 0.006381453 0.01264068 0.01020649 3 -18.33359 297.3202 3 4 19 28 0.013336661 0.01959951 0.01716235 3 29.63118 204.6112 4 5 29 38 0.020294821 0.02655443 0.02551105 NA 22.78841 188.8817 5 3 39 47 0.027250029 0.03281369 0.03211821 3 54.66797 134.5991 7 4 281 290 0.215083854 0.22134308 0.21890897 2 29.73325 203.7819 8 2 291 300 0.222038513 0.22829803 0.22586391 2 -17.83812 297.9635 11 2 570 579 0.423789844 0.43004945 0.42761504 3 -16.59952 296.1684 12 4 580 589 0.430744878 0.43700810 0.43457175 3 29.98420 210.9281 13 3 590 599 0.437703501 0.44396296 0.44291960 3 54.53432 138.1942 15 4 870 879 0.632475029 0.63873394 0.63630000 2 30.32162 210.6177 16 2 880 889 0.639430527 0.64568947 0.64325525 2 -15.91588 296.3692 17 5 890 899 0.646384751 0.65264410 0.65160106 NA 23.73391 191.7565 21 2 1157 1163 0.841193258 0.84745260 0.84508781 3 -15.58272 295.6296 22 4 1164 1173 0.848148206 0.85440741 0.85197348 3 30.33770 205.3022 23 3 1174 1182 0.855103009 0.86136626 0.86067081 3 54.30167 134.0060 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.241987 1.367174 0.0090292211 -1.7747047 0.022248520 6.770830 3 1.241862 1.366989 0.0039416342 0.4162684 0.013841757 5.595283 4 1.241669 1.366786 -0.0409992928 -6.4437681 0.029035572 8.389279 5 1.241467 1.366621 -0.0072824618 2.9346862 0.017394244 3.927232 7 1.234762 1.359216 -0.0028350906 -2.4125511 0.010867300 11.179384 8 1.234410 1.358853 -0.0024100048 -0.4103868 0.010747404 3.199955 11 1.221457 1.344935 -0.0131509675 0.1555773 0.032945198 1.868347 12 1.220886 1.344326 -0.0062776314 0.1075383 0.015809815 3.042560 13 1.220405 1.343767 0.0024298323 1.5414117 0.007170161 2.232926 15 1.211816 1.334779 -0.0060236403 0.5144469 0.016848373 4.419781 16 1.211533 1.334500 -0.0136898831 -0.6735085 0.034735101 3.020145 17 1.210981 1.333920 -0.0649839777 -2.2199575 0.046006135 3.497896 21 1.205232 1.328164 0.0069331541 1.8739477 0.020839799 6.435709 22 1.205336 1.328195 0.0011399029 0.2611146 0.008909312 1.048375 23 1.205277 1.328096 -0.0001143402 -1.5925995 0.013775469 1.984986 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.722 co2l1 = 0.438 co2l0 = 0.165" [1] "co2l0 = -142.7 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "91 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "189 out of 1169 1-min values rejected as stack air" [1] "74 out of 623 Line 1 1-min values rejected as stack air" [1] "115 out of 546 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"