[1] "2025-04-30 03:06:20 MDT" [1] "1706" "170720" "d201" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170720a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 80760 63 [1] 80760 [1] 80760 [1] "testing skipping spike filter" [1] 80760 [1] 80760 [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 03:06:24 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.951" [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] "24 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.852, ave o2scale2 = 0.952" [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] "25 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:06:24 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:06:24 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:06:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:06:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 25 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1319 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:06:48 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 CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.472 co2off = 425.95 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.95 minutes" [1] "Average Cal: 7.87 minutes" [1] "Shortest Cal: 7.17 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 12 19 0.01408553 0.01960787 0.01763209 2 -3.401625 182.9414 3 2 20 27 0.02039546 0.02591351 0.02394148 2 -6.141344 344.4292 5 2 273 280 0.22240084 0.22791441 0.22594527 3 -5.936958 345.6758 6 4 281 284 0.22871186 0.23424161 0.23384780 3 -3.202875 177.8086 7 3 285 292 0.23502931 0.24055156 0.24015771 3 -6.725771 328.4496 9 4 527 534 0.43050440 0.43548469 0.43370577 2 -2.990677 178.2008 10 2 535 542 0.43619621 0.44118492 0.43940353 2 -5.718635 337.9561 11 5 543 550 0.44189624 0.44687439 0.44651876 NA -4.088062 221.9657 13 2 814 822 0.63842694 0.64412069 0.64198614 3 -5.579705 340.9251 14 4 823 831 0.64483212 0.65053406 0.64839344 3 -2.861625 181.9639 15 3 832 840 0.65124549 0.65693542 0.65622413 3 -6.374911 326.9645 17 4 1104 1112 0.84633759 0.85203573 0.84990030 2 -2.807241 175.6085 18 2 1113 1121 0.85274748 0.85843724 0.85630347 2 -5.509161 342.0355 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.163613 1.045858 5.307690e-04 -1.067945e+00 0.0012506248 7.252593 3 1.163887 1.045988 1.554147e-03 1.927053e+00 0.0048008381 6.967882 5 1.168364 1.047488 9.447212e-06 3.785083e+00 0.0009760144 9.093864 6 1.168795 1.047621 3.306392e-03 1.107203e-14 0.0026516504 0.000000 7 1.168969 1.047711 -1.943373e-04 -1.866663e+00 0.0014559504 1.497185 9 1.172492 1.049754 -5.768770e-04 -5.985751e-01 0.0011506905 2.677440 10 1.172683 1.049903 1.913726e-03 3.574603e+00 0.0037733475 7.604928 11 1.172917 1.050072 -3.355432e-02 3.824520e+00 0.0243067956 2.769812 13 1.176401 1.052505 -6.470755e-04 1.245083e+00 0.0027337861 3.259116 14 1.176345 1.052524 5.844430e-04 -4.534211e-01 0.0013792548 1.524540 15 1.176677 1.052694 -4.707834e-04 1.025596e+00 0.0024417317 1.267231 17 1.180181 1.055482 1.444043e-03 1.260824e+00 0.0037221935 4.159517 18 1.180423 1.055758 1.349079e-03 3.243695e+00 0.0035207453 7.338329 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 422.667 co2l1 = 4.467 co2l0 = 0.095" [1] "co2l0 = -165.1 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "43 out of 292 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "249 out of 1162 1-min values rejected as stack air" [1] "249 out of 1162 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"