[1] "2025-04-29 17:24:58 MDT" [1] "1213" "121201" "d336" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121201a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 79157 63 [1] 79157 [1] 79157 [1] "testing skipping spike filter" [1] 79157 [1] 79157 [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 17:25:02 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.775, ave o2scale2 = 0.784" [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] "173 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.775, ave o2scale2 = 0.784" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "173 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:25:02 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:25:02 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:25:12 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:25:13 MDT" [1] "reading in recalculated plot titles" [1] "Removed 173 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 217 row(s) with low FLSP" [1] "TEMP: 918 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:25:17 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 = -449.2" [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] "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 = 0.27 co2off = 369.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 15.73 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 73.2 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 3 4 [3,] 5 5 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 8 0.1670822 0.1719503 0.1702120 1 74.00269 46.76876 2 5 9 18 0.1726458 0.1789062 0.1778629 NA 24.48928 97.99201 5 4 271 280 0.3605729 0.3668322 0.3643980 2 74.23614 47.94859 6 2 281 290 0.3675277 0.3737865 0.3713524 2 -40.98804 206.34500 11 4 494 497 0.5829005 0.5856828 0.5853350 1 74.12336 49.55688 14 5 611 643 0.6696875 0.6940016 0.6842489 NA 26.36630 97.63946 16 2 667 671 0.8116984 0.8165668 0.8151757 2 -39.47387 203.95151 17 4 672 677 0.8193566 0.8236447 0.8223992 2 74.82515 48.49918 20 5 787 813 0.9051161 0.9231979 0.9162433 NA 27.46745 95.77763 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.296984 1.281999 0.0071797118 3.850043e-01 0.015383331 3.053505 2 1.297021 1.282030 0.0770590682 4.229487e+00 0.054579805 5.877103 5 1.294830 1.279719 0.0008178491 -2.859972e-01 0.021911825 2.904597 6 1.294708 1.279570 0.0234914209 6.616092e-01 0.062656945 4.798292 11 1.289164 1.273541 0.0037647157 1.751204e-15 0.002666382 0.000000 14 1.284724 1.268850 0.1194760111 2.132249e-01 0.917048177 4.461431 16 1.283202 1.265805 0.0303172608 2.024741e+00 0.081035139 5.463798 17 1.284071 1.267038 0.0282060784 4.052912e-01 0.050220467 4.114059 20 1.284588 1.267730 0.1389303136 1.003749e-01 0.794568147 3.342860 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.267 co2l1 = 0.27 co2l0 = 0" [1] "co2l0 = -123.39 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "24 out of 92 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "68 out of 627 1-min values rejected as stack air" [1] "29 out of 588 Line 1 1-min values rejected as stack air" [1] "39 out of 39 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"