[1] "2025-04-29 18:18:53 MDT" [1] "1303" "130324" "d083" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130324a.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 18:18:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.765, ave o2scale2 = 0.769" [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] "112 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.765, ave o2scale2 = 0.769" [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] "114 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:18:58 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:18:58 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:19:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:19:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 114 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1322 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:19:32 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 = -448.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.392 co2off = 365.58 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.88 minutes" [1] "Shortest Cal: 8.02 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 171 180 0.1293322 0.1355953 0.1331586 2 71.804719 46.23478 3 2 181 184 0.1362906 0.1425569 0.1422092 2 -7.491500 207.83154 6 2 442 451 0.3382859 0.3445487 0.3421136 3 -7.568281 206.13578 7 4 452 461 0.3452442 0.3515070 0.3490724 3 71.975578 44.90753 8 3 462 471 0.3522026 0.3584657 0.3574227 3 44.636906 115.90204 10 4 718 726 0.5470093 0.5532726 0.5506881 2 71.910181 44.18401 11 2 727 736 0.5539679 0.5602307 0.5577948 2 -7.395242 207.62322 13 2 988 996 0.7557652 0.7620282 0.7599397 3 -7.255269 203.35177 14 4 997 1005 0.7634190 0.7689867 0.7668991 3 71.950518 42.69628 15 5 1006 1015 0.7696821 0.7759450 0.7749020 NA 35.894094 99.62396 16 3 1016 1024 0.7773357 0.7829031 0.7822077 3 44.726188 111.38818 18 4 1276 1282 0.9645706 0.9708322 0.9694411 2 72.015636 40.29739 19 2 1283 1291 0.9715278 0.9777928 0.9756049 2 -7.065721 202.09893 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.307484 1.299449 -0.0005637818 -5.138818e-01 0.005779331 1.7316041 3 1.307447 1.299431 -0.0484394507 1.166711e-14 0.034294679 0.0000000 6 1.308241 1.300319 -0.0165459658 1.594647e-01 0.043815716 0.8574092 7 1.308068 1.300143 0.0137724513 -3.970650e-01 0.039159854 3.5345685 8 1.308335 1.300424 0.0046762057 -1.658997e+00 0.014042784 2.4306779 10 1.308538 1.300564 0.0065269650 -1.446768e+00 0.017914273 4.2293517 11 1.308730 1.300747 -0.0001333137 -5.727529e-01 0.014563647 3.3343001 13 1.309185 1.301166 -0.0077051962 -1.173233e+00 0.018557911 2.8757657 14 1.308803 1.300810 0.0055518951 -9.350079e-01 0.013379220 3.1873747 15 1.308716 1.300715 0.0642322097 4.909505e+00 0.045475805 6.8041757 16 1.308207 1.300167 0.0022021685 -9.285432e+00 0.005508753 9.3016812 18 1.306090 1.298006 0.0027846089 -1.320658e+00 0.006888099 3.2379109 19 1.306122 1.298089 -0.0081055262 5.954611e-01 0.025200692 2.5673628 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.218 co2l1 = 0.391 co2l0 = 0.041" [1] "co2l0 = -121.96 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "204 out of 495 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "291 out of 1145 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "291 out of 1145 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"