[1] "2025-04-29 20:25:53 MDT" [1] "1401" "140131" "d031" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140131a.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 20:25:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.733" [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] "3 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.733" [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] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:25:58 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:25:58 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:26:15 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:26:16 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1431 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:26:32 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.8" [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 = 0.457 co2off = 378.93 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.8 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 61 69 0.04445116 0.05001505 0.04792837 3 -4.668232 298.1272 3 4 70 78 0.05071042 0.05629630 0.05420835 3 55.354723 154.7586 4 3 79 87 0.05699190 0.06255564 0.06186001 3 34.802321 241.6783 6 4 361 370 0.25319213 0.25945611 0.25701913 2 55.471609 159.9822 7 2 371 380 0.26015165 0.26641936 0.26397960 2 -5.313000 300.1465 9 2 658 667 0.46188889 0.46814818 0.46571378 3 -5.377562 303.4841 10 4 668 677 0.46884349 0.47510304 0.47266899 3 55.529234 159.0557 11 5 678 687 0.47579861 0.48206534 0.48102048 NA 30.198406 225.3609 12 3 688 697 0.48276062 0.48901988 0.48797687 3 34.728016 240.5550 14 4 958 967 0.67058657 0.67684954 0.67441281 2 55.542961 158.5152 15 2 968 977 0.67754514 0.68380443 0.68137018 2 -4.964219 307.9356 17 2 1258 1267 0.87926733 0.88553125 0.88309620 3 -4.706758 305.0683 18 4 1268 1277 0.88622685 0.89248970 0.89005468 3 55.539852 159.7722 19 3 1278 1287 0.89318565 0.89944864 0.89840553 3 34.926258 241.6987 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.239056 1.362011 0.003594470 2.8846514 0.015733238 9.532312 3 1.238911 1.361761 0.007216964 1.8653764 0.021425557 4.449294 4 1.238784 1.361777 -0.007290063 -1.8071531 0.018899798 2.023147 6 1.240273 1.363471 0.001439850 3.7123346 0.007440669 11.004469 7 1.240338 1.363531 0.004564933 3.7791102 0.018200551 10.271151 9 1.241584 1.364775 0.004919768 2.2684525 0.013141019 6.156036 10 1.241613 1.364822 0.009763111 2.6149001 0.026127451 7.655095 11 1.241710 1.364912 -0.035515146 3.0171309 0.025146485 4.017753 12 1.241780 1.364977 -0.002609667 5.4153317 0.013167819 7.310624 14 1.242338 1.365441 -0.001039154 0.1867825 0.005130761 5.885261 15 1.242485 1.365593 0.005569430 2.0349961 0.016963788 6.520337 17 1.243278 1.366558 0.002661884 3.0294510 0.015218954 9.548207 18 1.243072 1.366297 0.004033308 3.2854775 0.011941774 9.751331 19 1.243065 1.366288 -0.004905727 2.9806360 0.013376604 5.992586 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.928 co2l1 = 0.457 co2l0 = 0.02" [1] "co2l0 = -148.63 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "112 out of 200 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "88 out of 1252 1-min values rejected as stack air" [1] "88 out of 1252 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"