[1] "2025-04-29 19:07:41 MDT" [1] "1306" "130627" "d178" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130627a.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 19:07:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.782, ave o2scale2 = 0.724" [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] "74 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.782, ave o2scale2 = 0.724" [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] "74 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:07:45 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:07:45 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:08:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:08:05 MDT" [1] "reading in recalculated plot titles" [1] "Removed 74 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1360 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:08:16 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 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [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 = 0.309 co2off = 379.91 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: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 31 40 0.02315972 0.02942254 0.02698614 3 -17.64259 242.64570 3 4 41 50 0.03011806 0.03637737 0.03394323 3 49.36698 156.27129 4 3 51 58 0.03707292 0.04333218 0.04298442 3 84.27052 62.20304 7 4 285 294 0.23188811 0.23814792 0.23571330 2 49.37762 157.17167 8 2 295 303 0.23884647 0.24510558 0.24262191 2 -17.58905 244.47536 9 5 304 313 0.24580191 0.25206386 0.25102074 NA 39.81462 137.97978 11 2 579 588 0.44064352 0.44690880 0.44447252 3 -16.51184 251.67631 12 4 589 598 0.44760541 0.45386910 0.45143168 3 49.65473 156.46657 13 3 599 608 0.45456427 0.46082870 0.45978533 3 84.31730 87.51602 15 4 872 880 0.64941531 0.65567402 0.65338909 2 49.46248 163.55454 16 2 881 890 0.65637020 0.66262899 0.66019497 2 -17.34125 249.84634 18 2 1169 1178 0.85814959 0.86441299 0.86197727 3 -17.95475 246.56561 19 4 1179 1188 0.86510848 0.87137245 0.86893754 3 49.24971 159.83200 20 5 1189 1198 0.87206808 0.87833189 0.87728856 NA 39.22281 134.85823 21 3 1199 1208 0.87903125 0.88529497 0.88424886 3 84.46884 86.23616 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.272639 1.374644 0.0021029749 3.962814e-02 0.009966178 4.7666869 3 1.272643 1.374674 0.0111941180 -4.304051e-02 0.030520846 2.5110542 4 1.271970 1.374137 -0.0066254056 1.898124e-14 0.018705809 0.0000000 7 1.273252 1.375417 -0.0028210499 8.101833e-01 0.011740186 2.6672667 8 1.273770 1.375991 0.0068454677 -2.978571e-03 0.023177205 0.9740452 9 1.274033 1.376246 -0.0664003994 1.406933e+00 0.047022601 2.2674590 11 1.277081 1.379335 -0.0399448837 3.049545e+00 0.099601292 10.2589795 12 1.277043 1.379364 -0.0072390967 1.597666e-01 0.021768592 2.0084849 13 1.277053 1.379370 -0.0032412733 -7.767640e-02 0.011788332 0.1497298 15 1.283445 1.385829 0.0182579162 1.728048e+00 0.048284103 5.7307031 16 1.283876 1.386253 0.0475037157 1.634660e+00 0.116829775 5.5997662 18 1.288395 1.391068 -0.0094557997 1.286849e+00 0.026088620 4.9893704 19 1.288008 1.390658 -0.0005282362 1.435540e-01 0.005719927 1.0973359 20 1.287870 1.390543 -0.0814891847 -4.111582e+00 0.057717591 5.3520327 21 1.287867 1.390531 0.0047583606 -1.331842e+00 0.012526932 3.1982238 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.694 co2l1 = 0.307 co2l0 = 0.108" [1] "co2l0 = -131.05 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "10 out of 45 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "35 out of 1155 1-min values rejected as stack air" [1] "35 out of 1155 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] "making html"