[1] "2025-04-29 17:14:42 MDT" [1] "1212" "121110" "d315" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121110a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 78054 63 [1] 78054 [1] 78054 [1] "testing skipping spike filter" [1] 78054 [1] 78054 [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 17:14:46 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.769, 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] "358 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.769, 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] "360 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:14:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:14:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:14:54 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:14:56 MDT" [1] "reading in recalculated plot titles" [1] "Removed 361 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with variable TFCELL" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 936 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:14:59 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 = -449.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.419 co2off = 393.37 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 7.42 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.03 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,] 4 5 [3,] 6 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 215 224 0.1878197 0.1940826 0.1916462 2 -9.013930 200.46372 4 4 225 231 0.1947779 0.2010408 0.1992320 2 65.240646 39.00174 5 5 232 241 0.2017361 0.2079977 0.2069544 NA 32.677688 89.33054 9 4 449 455 0.3966343 0.4008102 0.3994165 2 65.362962 44.46791 10 2 456 465 0.4035924 0.4098549 0.4074197 2 -8.723484 198.63898 13 2 675 681 0.6074615 0.6116366 0.6102455 3 -8.631250 197.64655 14 4 682 688 0.6123321 0.6186019 0.6159547 3 65.352008 39.51330 15 3 689 698 0.6192975 0.6255601 0.6245168 3 39.951102 109.27112 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.301315 1.283214 -0.001415832 0.3948761 0.004074972 3.1571676 4 1.301267 1.283134 0.005813317 -0.4151902 0.015788153 1.8268317 5 1.301302 1.283190 0.050790349 -0.2172992 0.035974057 0.7043178 9 1.301530 1.283424 0.007508395 -2.7562290 0.012438332 5.4519087 10 1.301627 1.283553 -0.002255738 0.4856675 0.014005928 4.2762521 13 1.300154 1.282083 -0.007095615 1.7265565 0.011566469 2.7970087 14 1.299996 1.281881 -0.000438634 -0.2909111 0.011636460 1.6073710 15 1.299767 1.281662 0.009526582 2.5152889 0.024402936 3.3522508 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.014 co2l1 = 0.419 co2l0 = 0.06" [1] "co2l0 = -121.72 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "72 out of 325 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "253 out of 805 1-min values rejected as stack air" [1] "209 out of 744 Line 1 1-min values rejected as stack air" [1] "44 out of 61 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"