[1] "2025-04-29 17:22:00 MDT" [1] "1212" "121121" "d326" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121121a.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 17:22:04 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.78, ave o2scale2 = 0.791" [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] "286 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.78, ave o2scale2 = 0.791" [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] "285 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:22:04 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:22:04 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:22:28 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:22:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 285 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1150 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:22:39 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" [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 = 0.417 co2off = 361.33 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.44 minutes" [1] "Shortest Cal: 1 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 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 125 133 0.09300810 0.09927086 0.09698596 3 -6.576399 204.61215 4 4 134 143 0.09996927 0.10623611 0.10379868 3 69.017047 42.59849 5 5 144 153 0.10693171 0.11319146 0.11214813 NA 32.527906 96.30810 6 3 154 163 0.11388683 0.12014951 0.11910645 3 43.101836 112.72960 9 4 417 426 0.30138579 0.30764583 0.30521119 2 68.837305 44.20730 10 2 427 436 0.30834141 0.31460072 0.31216623 2 -5.974344 197.58034 13 2 700 709 0.51013588 0.51639876 0.51396203 3 -5.179398 203.67556 14 4 710 719 0.51709404 0.52335715 0.52092118 3 68.469555 40.23705 15 3 720 729 0.52405243 0.53031510 0.52927215 3 43.194805 113.12281 18 4 961 969 0.71849262 0.72475148 0.72246651 2 68.478021 43.57500 19 2 970 973 0.72545046 0.72753704 0.72718925 2 -4.966750 199.95114 23 4 1092 1099 0.93420382 0.93907593 0.93733573 2 69.030167 38.52229 24 3 1100 1103 0.94116207 0.94325231 0.94742631 2 43.293781 134.83197 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.295359 1.278882 -0.0074609234 0.47900057 0.019619214 3.5092065 4 1.295128 1.278574 -0.0022582725 0.70200899 0.012106980 2.1488793 5 1.294952 1.278403 -0.0759612184 0.51326283 0.053784310 0.7495536 6 1.294919 1.278374 0.0063776940 -0.96992370 0.024273942 1.5467132 9 1.288010 1.270965 -0.0012664731 -0.50788625 0.005439238 3.0292149 10 1.287956 1.270906 -0.0026873428 0.09177519 0.017318414 6.2481876 13 1.275295 1.257603 -0.0149171511 -0.86197759 0.037583893 7.0038211 14 1.274528 1.256760 0.0056746725 -0.19730010 0.019207119 3.5141606 15 1.273944 1.256249 0.0009285596 -4.45840469 0.006160469 8.5637480 18 1.271705 1.253807 -0.0015637153 0.90866025 0.005480302 4.9269801 19 1.271911 1.253998 -0.0284537626 1.32256144 0.020152543 0.9367119 23 1.283774 1.266238 -0.0058469074 1.17693112 0.018878297 3.0346950 24 1.284567 1.267032 0.0073888567 4.79047027 0.005259107 20.0809400 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 376.871 co2l1 = 0.414 co2l0 = 0.02" [1] "co2l0 = -121.39 co2l1 = 0.213" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "29 out of 120 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "91 out of 982 1-min values rejected as stack air" [1] "0 out of 875 Line 1 1-min values rejected as stack air" [1] "91 out of 107 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"