[1] "2025-04-30 01:25:50 MDT" [1] "1605" "160529" "d150" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160529a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83017 63 [1] 83017 [1] 83017 [1] "testing skipping spike filter" [1] 83017 [1] 83017 [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 01:25:54 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.917, ave o2scale2 = 0.78" [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] "40 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.917, ave o2scale2 = 0.78" [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] "40 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:25:54 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:25:54 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:26:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:26:04 MDT" [1] "reading in recalculated plot titles" [1] "Removed 40 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 5 row(s) with variable TFCELL" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 1336 256 TRUE" [1] "Removed 256 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:26:06 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.7" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.944 co2off = 385.87 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 19.1 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 101.69 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 6 [4,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 60 68 0.04276047 0.04832416 0.04623806 2 10.211920 134.9853 3 2 69 77 0.04901976 0.05458449 0.05249785 2 -12.628170 251.2067 6 2 357 366 0.25144505 0.25770391 0.25526999 3 -12.616062 250.0976 7 4 367 376 0.25839962 0.26465862 0.26222480 3 10.203523 138.4173 8 3 377 386 0.26535417 0.27161693 0.27057289 3 -3.427984 236.5238 10 4 657 667 0.46011655 0.53073435 0.48551503 1 10.148125 132.1635 11 5 668 677 0.53144517 0.53776889 0.53672583 NA -2.726219 200.5443 13 4 938 947 0.71928692 0.72554569 0.72311170 2 10.213141 133.8700 14 2 948 957 0.72624115 0.73250041 0.73006637 2 -12.622625 252.1060 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.092400 1.283054 -3.461700e-03 1.08906443 0.007855773 2.627957 3 1.092240 1.282975 -8.303571e-03 -0.02804888 0.018113995 3.320768 6 1.091589 1.282512 -2.512854e-03 0.23561936 0.007943017 2.120718 7 1.091539 1.282442 -1.850420e-03 0.22195965 0.008336930 1.580814 8 1.091503 1.282405 -5.971241e-06 -1.04083166 0.002698327 1.629663 10 1.090676 1.281681 -6.517258e-04 -0.17057003 0.032213745 13.958487 11 1.091169 1.282393 -5.055969e-03 3.25356586 0.003579728 7.197872 13 1.089547 1.280995 -5.513116e-04 -0.46373823 0.002483596 3.911790 14 1.089729 1.281167 -5.034075e-03 0.18149933 0.012398337 2.461065 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 396.574 co2l1 = 0.942 co2l0 = -0.021" [1] "co2l0 = -146.26 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "55 out of 200 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "145 out of 947 1-min values rejected as stack air" [1] "124 out of 911 Line 1 1-min values rejected as stack air" [1] "21 out of 36 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"