[1] "2025-04-29 21:14:27 MDT" [1] "1404" "140511" "d131" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140511a.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 21:14:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.739" [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] "186 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.739" [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] "185 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:14:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:14:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:14:44 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:14:46 MDT" [1] "reading in recalculated plot titles" [1] "Removed 185 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1250 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:14:51 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 = -476.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.2" [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 = 0.413 co2off = 368.42 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.2 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 233 242 0.1651629 0.1714273 0.1689921 3 75.821313 124.5582 1.238332 3 2 243 252 0.1721254 0.1783845 0.1759505 3 8.717836 276.1787 1.238462 4 3 253 262 0.1790799 0.1853400 0.1842968 3 52.725750 211.2093 1.238253 6 2 529 538 0.3739202 0.3801832 0.3777484 2 8.684109 274.7253 1.234436 7 4 539 548 0.3808786 0.3871419 0.3847063 2 75.739141 132.5234 1.234446 9 4 804 809 0.5848831 0.5883608 0.5873176 3 75.654391 133.0467 1.227163 10 2 810 814 0.5904469 0.5953160 0.5939248 3 8.900509 277.3966 1.227548 12 3 823 828 0.6043609 0.6099284 0.6102761 3 52.688333 210.8945 1.227683 14 2 1033 1042 0.7915617 0.7978322 0.7953978 2 8.971258 272.2118 1.225962 15 4 1043 1052 0.7985274 0.8047902 0.8023561 2 75.345313 130.9135 1.225706 jfcv2 co2slp o2slp co2sd o2sd 2 1.360450 -7.607037e-03 -2.3332456 0.019335357 11.457924 3 1.360635 -9.122783e-05 1.1927002 0.007629605 3.377932 4 1.360389 1.038426e-03 1.0382236 0.008621959 3.302051 6 1.356330 8.999007e-03 1.8265198 0.024751640 4.913359 7 1.356346 -5.242543e-03 1.2500343 0.018390535 4.347232 9 1.348784 -8.193886e-03 -2.3809929 0.010682367 3.088586 10 1.349083 2.566430e-04 -0.4773229 0.001872496 1.288173 12 1.349330 -8.408462e-03 3.6856815 0.020224467 2.609754 14 1.347452 -1.058607e-02 0.2354319 0.027879353 1.820691 15 1.347187 7.014764e-03 0.5400647 0.021451747 1.964243 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.002 co2l1 = 0.413 co2l0 = -0.221" [1] "co2l0 = -142.36 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "65 out of 373 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "308 out of 1123 1-min values rejected as stack air" [1] "308 out of 1123 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"