[1] "2025-04-30 00:47:28 MDT" [1] "1510" "151208" "d342" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/151208a.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] "2025-04-30 00:47:32 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.89, ave o2scale2 = 0.79" [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] "3 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.89, ave o2scale2 = 0.79" [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] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:47:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:47:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:47:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:47:52 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1433 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:47:55 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.1" [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 = 0.949 co2off = 407.29 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.85 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 96 103 0.06780020 0.07266898 0.07093003 2 3.162437 376.0240 3 2 104 113 0.07475579 0.08101505 0.07858094 2 -19.555859 491.2496 5 2 394 403 0.27647410 0.28273359 0.28029933 3 -19.567922 491.6329 6 4 404 413 0.28342896 0.28968857 0.28725397 3 3.134227 378.4365 7 3 414 423 0.29038417 0.29664291 0.29559987 3 -10.441125 482.0316 9 4 694 703 0.48517245 0.49143180 0.48899750 2 3.134937 378.1622 10 2 704 713 0.49212714 0.49838657 0.49595237 2 -19.577414 497.3041 14 2 994 1003 0.69390877 0.70016806 0.69773404 3 -19.606945 493.7214 15 4 1004 1013 0.70086438 0.70712691 0.70468960 3 3.101758 375.8163 16 3 1014 1023 0.70782269 0.71408200 0.71303872 3 -10.468719 483.6262 18 4 1294 1303 0.90259146 0.90885422 0.90641933 2 3.102609 376.7542 19 2 1304 1313 0.90954977 0.91580955 0.91337532 2 -19.607172 493.4087 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.125329 1.267788 3.451373e-03 -0.14115514 0.006725883 0.9132388 3 1.125341 1.267812 -8.166546e-05 0.08309630 0.006026796 3.2086631 5 1.124187 1.266536 1.331240e-03 0.98137087 0.004772591 2.5357026 6 1.124178 1.266528 -9.055867e-04 0.05624267 0.002921583 3.5256980 7 1.124219 1.266573 -8.915595e-04 1.19879130 0.002983399 1.6076152 9 1.124473 1.266885 3.022498e-03 1.63616444 0.007821673 4.4651570 10 1.124354 1.266751 -1.531291e-03 0.72905626 0.004312557 2.3676871 14 1.123503 1.265880 -2.922051e-03 0.42664761 0.007483869 2.3035983 15 1.123545 1.265925 1.947413e-03 0.19561549 0.006875928 2.8120306 16 1.123455 1.265832 1.754748e-03 0.54627538 0.005069385 1.8321263 18 1.123671 1.266112 8.700482e-04 1.25261166 0.002415018 4.9664486 19 1.123699 1.266142 8.767281e-05 1.55670657 0.002401578 4.6259270 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 403.219 co2l1 = 0.947 co2l0 = -0.005" [1] "co2l0 = -198.36 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "73 out of 245 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "172 out of 1274 1-min values rejected as stack air" [1] "150 out of 1216 Line 1 1-min values rejected as stack air" [1] "22 out of 58 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"