[1] "2025-04-29 20:57:28 MDT" [1] "1403" "140330" "d089" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140330a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 68535 63 [1] 68535 [1] 68535 [1] "testing skipping spike filter" [1] 68535 [1] 68535 [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 20:57:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.745" [1] "Removing 2 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "79 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.82, ave o2scale2 = 0.745" [1] "Removing 2 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 3 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "79 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:57:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:57:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:57:38 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:57:39 MDT" [1] "reading in recalculated plot titles" [1] "Removed 79 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 1061 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:57:41 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 = -476" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.383 co2off = 358.5 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.26 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 3 [3,] 4 6 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 4 1 8 0.1322187 0.1370868 0.1353480 1 83.58489 139.7621 1.224059 4 4 276 285 0.3255584 0.3318173 0.3293834 2 84.01858 130.4269 1.218498 5 2 286 295 0.3325128 0.3387720 0.3363382 2 11.39500 271.4041 1.218429 7 2 576 585 0.5341997 0.5404588 0.5380248 3 11.51750 278.0209 1.218194 8 4 586 595 0.5411542 0.5474136 0.5449795 3 83.71825 126.3034 1.218329 9 3 596 605 0.5481090 0.5543681 0.5533249 3 58.97523 211.2715 1.218516 11 4 876 885 0.7428399 0.7490993 0.7466649 2 83.52245 131.5199 1.220246 12 2 886 895 0.7497946 0.7560534 0.7536195 2 11.48672 283.9313 1.220371 13 5 896 905 0.7567489 0.7630088 0.7619657 NA 54.16666 193.3140 1.220410 jfcv2 co2slp o2slp co2sd o2sd 1 1.348322 6.477982e-03 -6.9133903 0.012930911 24.144831 4 1.341498 5.276868e-04 0.5261866 0.010042141 3.665796 5 1.341442 6.768560e-03 2.1858105 0.017755061 5.924235 7 1.341081 -2.952399e-03 3.0403788 0.008105471 13.463370 8 1.341258 4.670116e-03 3.1213624 0.020347730 12.322354 9 1.341465 -6.892251e-03 0.2543310 0.017587497 1.432792 11 1.343227 3.904515e-03 2.0327117 0.013748610 7.862871 12 1.343400 5.342324e-05 0.4849377 0.006199528 9.839836 13 1.343451 -4.201174e-02 3.6586392 0.029742679 7.415611 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 372.303 co2l1 = 0.382 co2l0 = -0.224" [1] "co2l0 = -141.86 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "18 out of 25 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "7 out of 877 1-min values rejected as stack air" [1] "7 out of 877 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] "making html"