[1] "2025-04-29 16:34:28 MDT" [1] "1206" "120613" "d165" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120613a.hr" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120613d.hr" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120613e.hr" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120613f.hr" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120613g.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 81411 63 [1] 77847 [1] 77847 [1] "testing skipping spike filter" [1] 77847 [1] 77847 [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 16:34:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.772, ave o2scale2 = 0.778" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "437 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.772, ave o2scale2 = 0.778" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 3 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] "435 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:34:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:34:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:34:41 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:34:43 MDT" [1] "reading in recalculated plot titles" [1] "Removed 435 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 4 row(s) with variable TFCELL" [1] "TEMP: 913 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:34:47 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 = -450.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.95 O2 = -543.5" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339495 description: WT1 CO2 = 394.28 O2 = -550.6" [1] "position 6 cylinder CC339490 description: WT2 CO2 = 396.41 O2 = -582.4" [1] "Nominal linear calibrations:" [1] "co2scl = 0.992 co2off = 400.66 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.02 minutes" [1] "Average Cal: 8.81 minutes" [1] "Shortest Cal: 3.01 minutes" [1] "Longest Cal: 32.11 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 8 [5,] 9 10 [6,] 11 12 [7,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 142 171 0.1106704 0.1329655 0.1231863 2 19.12933 -68.48500 3 2 172 199 0.1357526 0.1545601 0.1458535 2 -12.16940 92.77874 5 2 295 304 0.2360733 0.2423458 0.2399058 2 -12.11753 92.79301 6 4 305 309 0.2451335 0.2479194 0.2472229 2 19.16990 -63.22000 9 4 433 439 0.3635961 0.3677759 0.3663821 2 19.19323 -63.81602 10 2 440 446 0.3684721 0.3747429 0.3725128 2 -12.06622 90.50021 13 2 563 570 0.4869227 0.4917999 0.4900578 2 -12.01359 78.38914 14 4 571 574 0.4966764 0.5001584 0.4998101 2 19.23484 -60.36300 17 4 680 684 0.6123062 0.6150941 0.6143969 2 19.29904 -72.54876 18 2 685 688 0.6206712 0.6227612 0.6224129 2 -11.94841 94.11012 20 2 773 780 0.7391054 0.7439832 0.7422414 2 -11.92090 94.59151 21 4 781 785 0.7474666 0.7502546 0.7495575 2 19.32385 -87.43896 24 4 896 901 0.8631385 0.8694191 0.8683711 2 19.33012 -75.53280 25 2 902 905 0.8701190 0.8722110 0.8718623 2 -11.89941 84.36165 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.287551 1.278481 -0.0004286314 4.909486e-01 0.007287412 7.8418527 3 1.287874 1.278855 0.0010841163 -2.120222e-01 0.009809338 4.4926855 5 1.288783 1.279778 0.0012421674 3.872195e-01 0.003719369 3.7866990 6 1.288667 1.279575 0.0036141548 -5.613405e+00 0.003689265 7.0931257 9 1.290815 1.281885 -0.0005046407 -2.455469e-01 0.001285891 3.6566910 10 1.291162 1.282282 -0.0024069005 -2.228312e+00 0.007906406 8.1766315 13 1.293889 1.285039 0.0017208877 -1.259153e-01 0.003619554 8.3081913 14 1.294077 1.285280 -0.0021804137 -9.853462e-15 0.001546796 0.0000000 17 1.297400 1.288499 0.0028638935 -8.986580e-02 0.003024208 0.7906893 18 1.298082 1.289295 -0.0019317851 -1.274242e+01 0.001370019 9.0369048 20 1.302157 1.293408 0.0019219288 1.292091e+00 0.003672675 7.6563797 21 1.302267 1.293451 0.0016191325 -4.009633e+00 0.001672775 5.3822096 24 1.306031 1.297489 0.0004481775 -5.986318e+00 0.002015564 7.8821705 25 1.306114 1.297606 -0.0079052204 -7.342564e+00 0.005612660 5.2131774 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.235 co2l1 = 0.992 co2l0 = 0" [1] "co2l0 = -96.94 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "107 out of 335 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "228 out of 678 1-min values rejected as stack air" [1] "228 out of 678 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"