[1] "2025-04-29 21:34:13 MDT" [1] "1406" "140716" "d197" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140716a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 21:34:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.817, ave o2scale2 = 0.735" [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 = 0.817, ave o2scale2 = 0.735" [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 21:34:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:34:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:34:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:34:36 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1431 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:34:39 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.4" [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 = 0.474 co2off = 381.08 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.95 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 36 45 0.02556684 0.03185095 0.02940961 3 -18.63941 276.7908 3 4 46 55 0.03254905 0.03881435 0.03638018 3 39.83027 137.9486 4 3 56 65 0.03950972 0.04577315 0.04472976 3 19.99561 219.1979 6 4 336 345 0.23435990 0.24062269 0.23818700 2 39.68075 133.2448 7 2 346 354 0.24201372 0.24757755 0.24549107 2 -18.78381 272.1846 9 2 634 643 0.44323148 0.44949436 0.44705997 3 -19.01793 278.8815 10 4 644 653 0.45018987 0.45645263 0.45401765 3 39.44805 130.8796 11 5 654 663 0.45714815 0.46341111 0.46236805 NA 17.13675 195.9069 12 3 664 672 0.46410651 0.47036930 0.46967406 3 19.59552 216.0776 14 4 933 942 0.65200790 0.65826751 0.65583305 2 39.27004 135.8457 15 2 943 952 0.65896661 0.66523032 0.66279620 2 -19.22898 277.6265 17 2 1233 1242 0.86079042 0.86706039 0.86461701 3 -19.35049 280.3345 18 4 1243 1252 0.86775582 0.87401933 0.87158288 3 39.10090 135.7736 19 3 1253 1262 0.87471464 0.88097801 0.87993461 3 19.26237 211.0814 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.234550 1.370121 -0.0014472506 0.86796808 0.0047769443 5.066809 3 1.234629 1.370175 0.0035110639 0.39233069 0.0208493146 3.392250 4 1.234932 1.370542 -0.0010652085 -4.70983175 0.0074056378 6.495440 6 1.231307 1.367495 -0.0031893934 0.04606776 0.0105245780 3.020593 7 1.231850 1.368161 -0.0034722986 1.30408354 0.0082747419 6.031454 9 1.225872 1.361426 -0.0051280919 0.63277340 0.0131325844 2.412675 10 1.225683 1.361230 0.0065115357 -1.38204357 0.0184504570 8.524978 11 1.225116 1.360598 -0.0012481797 3.39122176 0.0008838835 5.201907 12 1.224576 1.360128 -0.0028315569 1.02237596 0.0090823259 1.054220 14 1.219927 1.354487 -0.0037004282 0.07470729 0.0121368654 1.979776 15 1.219499 1.354028 -0.0106120219 0.90283502 0.0266901646 3.770094 17 1.215996 1.350483 -0.0029607545 2.37150437 0.0096648316 6.450889 18 1.215858 1.350372 0.0006985787 -1.45995924 0.0103179335 5.837928 19 1.215560 1.349941 -0.0007357307 0.74823472 0.0070282434 1.392146 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.617 co2l1 = 0.472 co2l0 = 0.087" [1] "co2l0 = -143.87 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "123 out of 981 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "858 out of 1251 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "858 out of 1251 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"