[1] "2025-04-29 16:54:37 MDT" [1] "1210" "120923" "d267" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120923a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84870 63 [1] 84870 [1] 84870 [1] "testing skipping spike filter" [1] 84870 [1] 84870 [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 16:54:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.761, ave o2scale2 = 0.771" [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] "488 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.761, ave o2scale2 = 0.771" [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] "488 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:54:41 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:54:41 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:54:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:54:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 488 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 923 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:54:59 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 = -449.7" [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 = -551.1" [1] "Nominal linear calibrations:" [1] "co2scl = 0.434 co2off = 377.62 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.01 minutes" [1] "Average Cal: 6.83 minutes" [1] "Shortest Cal: 3.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 132 138 0.1362524 0.1425116 0.1398690 2 42.94551 -41.70012 4 2 139 145 0.1432072 0.1494664 0.1468236 2 -27.75063 115.59930 7 2 339 346 0.3448902 0.3497586 0.3480200 2 -28.17702 108.94018 8 4 347 354 0.3525405 0.3574086 0.3556701 2 42.97996 -44.79103 14 4 704 710 0.7598642 0.7640405 0.7626467 2 43.17884 -40.34509 15 2 711 717 0.7668223 0.7709952 0.7696042 2 -28.55384 116.70547 18 2 896 900 0.9679704 0.9707532 0.9700576 3 -28.47854 109.53552 19 4 901 907 0.9749259 0.9811905 0.9785464 3 43.22923 -49.52077 20 3 908 913 0.9818879 0.9881509 0.9884986 3 18.62706 25.34112 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.306746 1.289176 -0.0014131844 0.70487239 0.006650472 3.0699738 4 1.306981 1.289372 -0.0140664671 0.90381932 0.045269098 3.0830262 7 1.312907 1.295555 -0.0066120026 -0.53099863 0.013571723 1.4338310 8 1.313043 1.295712 -0.0003459757 -0.45304262 0.007774725 1.9277514 14 1.320920 1.303887 0.0047260347 1.98254621 0.008211154 3.2613805 15 1.321249 1.304272 -0.0042619768 0.05264484 0.008313863 0.8002331 18 1.321877 1.304875 -0.0096398283 2.78248394 0.009876648 2.8538318 19 1.321890 1.304953 0.0094890603 0.06799153 0.036898246 1.1671535 20 1.321560 1.304578 0.0014981637 -5.17510304 0.005401340 3.6643821 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.611 co2l1 = 0.435 co2l0 = 0.209" [1] "co2l0 = -102.51 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "109 out of 480 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "371 out of 790 1-min values rejected as stack air" [1] "97 out of 433 Line 1 1-min values rejected as stack air" [1] "274 out of 357 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"