[1] "2025-04-29 19:13:28 MDT" [1] "1306" "130705" "d186" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130705a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 81848 63 [1] 81848 [1] 81848 [1] "testing skipping spike filter" [1] 81848 [1] 81848 [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 19:13:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.758, ave o2scale2 = 0.702" [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] "7 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.758, ave o2scale2 = 0.702" [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] "7 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:13:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:13:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:13:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:13:54 MDT" [1] "reading in recalculated plot titles" [1] "Removed 8 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1356 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:14:10 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 = -447.5" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.9" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.302 co2off = 379.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 115 124 0.08042031 0.08668050 0.08424613 2 50.72215 158.43150 3 2 125 134 0.08737581 0.09363889 0.09120463 2 -17.44674 244.32959 4 5 135 144 0.09433432 0.10059375 0.09955057 NA 43.66141 135.06129 6 2 411 420 0.28915156 0.29541435 0.29297975 3 -17.22730 237.76000 7 4 421 430 0.29610995 0.30237436 0.29993910 3 50.79137 159.34808 8 3 431 440 0.30307245 0.30933151 0.30828842 3 86.33005 68.18960 10 4 710 719 0.49790162 0.50416435 0.50172815 2 50.58816 158.86425 11 2 720 729 0.50485998 0.51112321 0.50868770 2 -18.04281 248.11843 13 2 1009 1018 0.70666898 0.71293171 0.71049630 3 -18.45416 247.03236 14 4 1019 1028 0.71362731 0.71989005 0.71745539 3 50.44801 157.22084 15 5 1029 1038 0.72058565 0.72684499 0.72580179 NA 43.98444 141.47864 16 3 1039 1048 0.72754051 0.73380324 0.73276026 3 86.45952 88.60821 18 4 1308 1317 0.91542361 0.92169939 0.91925609 2 50.37824 154.76232 19 2 1318 1327 0.92239485 0.92865810 0.92622255 2 -18.56760 247.08015 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.309859 1.415182 -0.004088090 -1.3530150 0.013106319 3.964171 3 1.310115 1.415428 0.006411256 0.6570230 0.025378352 4.202134 4 1.310253 1.415539 -0.173772879 -0.8624319 0.123080774 1.146687 6 1.315250 1.420827 0.003854289 -1.2614313 0.010453257 7.279295 7 1.315237 1.420810 -0.003212628 1.0581211 0.021497545 4.164015 8 1.315263 1.420941 0.003377311 -4.9423176 0.010321654 11.503165 10 1.321574 1.427565 -0.010104206 1.4802256 0.025909074 4.092938 11 1.321685 1.427670 -0.014910725 -0.4459127 0.041454068 2.516137 13 1.324645 1.430931 -0.002011503 1.0226651 0.018067394 3.002027 14 1.324602 1.430936 0.010349621 0.7854206 0.027793532 2.818740 15 1.324775 1.431121 0.012853577 -4.5755210 0.009104000 6.235482 16 1.324594 1.430912 0.002072825 -3.8435741 0.006395619 5.147295 18 1.327272 1.433561 -0.002763780 0.5971880 0.009318846 4.748091 19 1.327181 1.433483 -0.008290576 0.1547668 0.022672650 1.808075 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.723 co2l1 = 0.3 co2l0 = 0.107" [1] "co2l0 = -131.08 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "56 out of 70 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "14 out of 1164 1-min values rejected as stack air" [1] "14 out of 1164 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"