[1] "2025-04-29 17:53:24 MDT" [1] "1301" "130129" "d029" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130129a.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 17:53:28 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.798" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "182 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.789, ave o2scale2 = 0.798" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "182 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:53:28 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:53:28 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:53:47 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:53:48 MDT" [1] "reading in recalculated plot titles" [1] "Removed 182 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1253 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:53:59 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 = -448.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.7" [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 = 0.407 co2off = 367.47 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.73 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 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 6 [3,] 7 8 [4,] 9 11 [5,] 12 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 7 0.001755469 0.005928241 0.004537355 2 63.58044 -56.877893 2 2 8 17 0.006623872 0.012886603 0.010450854 2 -11.90376 95.355695 3 5 18 27 0.013582176 0.019841956 0.018798655 NA 30.98647 -11.138548 5 2 295 300 0.210800029 0.214277691 0.213234353 3 -12.71220 90.520980 6 4 301 310 0.214973032 0.221235938 0.218801186 3 63.82644 -68.457495 7 3 311 320 0.221931192 0.228190538 0.227147367 3 37.66462 -4.852846 9 4 586 594 0.416700318 0.422959549 0.420475893 2 63.76460 -63.303706 10 2 595 604 0.423655093 0.429919416 0.427482982 2 -12.67608 95.017432 12 2 858 867 0.625378704 0.631638426 0.629204214 3 -12.67499 93.616514 13 4 868 877 0.632333681 0.638593258 0.636159053 3 63.81523 -63.966189 15 3 887 896 0.646243113 0.652502402 0.651459086 3 37.53627 7.099451 17 4 1093 1099 0.834070804 0.838243895 0.836852841 1 63.71464 -63.931457 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.270097 1.255038 -0.0023466338 4.12347260 0.007379236 10.264316 2 1.269967 1.255269 0.0044091317 0.98881830 0.020590324 5.334430 3 1.269483 1.255119 0.0432566269 0.80017884 0.030626562 3.061937 5 1.275612 1.258166 0.0220328928 -10.17597417 0.028629520 15.753633 6 1.275267 1.258301 -0.0026616920 -2.54335750 0.013526470 10.739084 7 1.274685 1.258594 0.0056021646 -6.11829522 0.017167649 12.863328 9 1.272004 1.259678 0.0043160757 -1.85530971 0.016113888 5.444818 10 1.271851 1.259518 -0.0251203719 -0.60673559 0.065210029 3.124655 12 1.267298 1.254910 0.0184598550 0.08836543 0.045511729 1.401393 13 1.266865 1.254511 -0.0103911781 1.18191012 0.029395448 3.235801 15 1.266068 1.253759 0.0006105598 2.20686160 0.009219287 3.802268 17 1.259226 1.246490 0.0007363902 -2.79195815 0.001920490 4.723074 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.43 co2l1 = 0.407 co2l0 = 0.096" [1] "co2l0 = -97.87 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "49 out of 90 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "41 out of 1083 1-min values rejected as stack air" [1] "41 out of 1083 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"