[1] "2025-04-30 03:26:16 MDT" [1] "1707" "170827" "d239" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170827a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83465 63 [1] 83465 [1] 83465 [1] "testing skipping spike filter" [1] 83465 [1] 83465 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 03:26:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 1.039" [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] "351 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 1.039" [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] "351 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:26:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:26:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:26:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:26:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 351 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 44 row(s) with low FLSP" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 994 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:26:36 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.456 co2off = 424.83 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.18 minutes" [1] "Average Cal: 6.71 minutes" [1] "Shortest Cal: 2.27 minutes" [1] "Longest Cal: 8.22 minutes" [1] "Removed 9 calibration row(s) with high SD" [1] "Removed 1 anomalous calibration row(s)" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 4 [3,] 5 5 [4,] 6 6 [5,] 7 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 24 29 0.03841771 0.04410790 0.04304137 3 -4.934845 321.4381 3 4 30 34 0.04624054 0.05051322 0.04980232 3 -2.168083 187.1365 4 3 35 42 0.05122422 0.05691065 0.05655524 3 -5.729032 326.5362 7 2 235 242 0.25330344 0.25899974 0.25721545 1 -5.005876 341.6623 10 4 447 454 0.46118834 0.46687920 0.46510091 1 -2.260719 162.6929 15 2 653 661 0.66907046 0.67475961 0.67262619 1 -4.973188 318.5603 22 2 987 991 0.94857109 0.95172497 0.95093756 1 -5.061646 319.7866 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.135710 0.9391582 0.0024551205 -12.5346709 0.0033330369 16.9510154 3 1.136169 0.9395328 0.0001220769 -1.7311363 0.0007324332 1.7721065 4 1.136773 0.9400785 0.0011571537 -0.1933524 0.0023619610 0.1399452 7 1.147026 0.9488597 0.0035559164 -10.4645245 0.0070017717 20.5082785 10 1.154849 0.9573120 -0.0011026321 -11.2706773 0.0027273128 23.4425330 15 1.156605 0.9853028 -0.0005536454 -9.3344464 0.0015159740 22.3236415 22 1.155549 0.9778116 0.0005787574 -12.8888484 0.0006564980 17.9883537 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 418.919 co2l1 = 4.413 co2l0 = -0.356" [1] "co2l0 = -170.59 co2l1 = 0.248" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "21 out of 65 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "44 out of 841 1-min values rejected as stack air" [1] "44 out of 841 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"