[1] "2025-04-29 21:46:16 MDT" [1] "1406" "140807" "d219" Read 2 records [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140807a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 21:46:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.828, ave o2scale2 = 0.744" [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] "4 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.828, ave o2scale2 = 0.744" [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] "4 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:46:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:46:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:46:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:46:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "Removed 991 manually filtered row(s) from a screenline1 period" [1] "TEMP: 440 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:46:44 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 = -476.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [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 = 0.473 co2off = 374.9 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 34.97 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 299.53 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 8 10 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 4 1 10 0.1615556 0.1678183 0.1653841 2 38.32363 135.4744 1.214627 2 2 11 30 0.1685139 0.3765243 0.2840368 2 -19.75364 276.8119 1.212355 3 4 31 40 0.3772199 0.3834792 0.3810452 2 38.22728 134.5448 1.209983 4 3 41 50 0.3841748 0.3904341 0.3893912 2 18.41438 214.7556 1.209787 5 4 51 60 0.5789662 0.5852257 0.5827914 2 38.18012 134.2536 1.208480 6 2 61 70 0.5859212 0.5921805 0.5897463 2 -20.27068 284.3175 1.208563 7 5 71 80 0.5928760 0.5991388 0.5980955 NA 15.90291 195.5544 1.208200 9 2 137 146 0.7879265 0.7941856 0.7917515 3 -20.40859 278.7755 1.201636 10 4 147 156 0.7948810 0.8011408 0.7987066 3 38.02073 133.0890 1.201418 11 3 157 166 0.8018362 0.8080995 0.8070561 3 18.21769 218.0910 1.201349 13 4 436 440 0.9966161 0.9993982 0.9987026 1 38.11508 133.9323 1.201508 jfcv2 co2slp o2slp co2sd o2sd 1 1.352297 -0.0050321480 2.05329448 0.013639427 6.2431581 2 1.349804 0.0008130182 -0.02500656 0.969724137 11.9891265 3 1.347224 0.0034250211 1.94348083 0.009294476 5.0702313 4 1.347027 -0.0021685356 -0.33886876 0.005822278 0.8328919 5 1.345554 0.0002704532 1.47598005 0.001633563 3.7347231 6 1.345647 -0.0054006826 0.31286551 0.014621239 2.4225710 7 1.345250 -0.0068022966 -1.82735307 0.004817165 2.9784669 9 1.338007 -0.0023016857 1.27829306 0.007021253 3.3355654 10 1.337776 0.0044937792 0.89562923 0.015101662 2.3705858 11 1.337697 0.0033178159 -0.16111331 0.008996589 1.8624273 13 1.337957 -0.0014662452 -0.72090779 0.002425719 1.0015370 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.223 co2l1 = 0.472 co2l0 = 0.083" [1] "co2l0 = -142.98 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "10 out of 240 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "230 out of 295 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "230 out of 295 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"