[1] "2025-04-29 22:18:43 MDT" [1] "1410" "141031" "d304" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141031a.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 22:18:47 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.744" [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] "119 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.744" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "121 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:18:48 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:18:48 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:19:06 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:19:08 MDT" [1] "reading in recalculated plot titles" [1] "Removed 121 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1315 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:19:12 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.946 co2off = 404.7 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 7.71 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Removed 2 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 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 80 86 0.05789763 0.06347176 0.06180106 2 4.570512 377.9778 3 2 87 95 0.06486236 0.07042705 0.06834022 2 -24.682527 529.1502 5 2 371 380 0.26667734 0.27294560 0.27051083 3 -24.674008 528.9355 6 4 381 390 0.27364115 0.27991603 0.27747758 3 4.531430 384.4870 7 3 391 399 0.28061140 0.28617911 0.28548370 3 -5.282018 464.8387 9 4 668 676 0.47621085 0.48177841 0.47969001 2 4.526357 380.1148 10 2 677 685 0.48247387 0.48804172 0.48595203 2 -24.704839 526.2229 13 2 953 961 0.68501128 0.69057870 0.68848957 2 -24.739527 527.7604 14 4 962 970 0.69127431 0.69683796 0.69475162 2 4.478920 381.7980 17 4 1210 1215 0.89585174 0.89933087 0.89828605 2 4.389406 379.4982 18 2 1216 1221 0.90002784 0.90420067 0.90280991 2 -24.840480 533.6910 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.211228 1.343894 -0.0037117959 -0.8414854 0.008705063 8.383491 3 1.211216 1.343914 -0.0057759990 0.3173011 0.013653394 3.058925 5 1.214451 1.347260 -0.0016648624 1.5994089 0.005284901 6.513764 6 1.214293 1.347087 -0.0010631626 0.3294118 0.006119936 4.493092 7 1.214331 1.347332 -0.0013057257 -1.2638928 0.003226420 2.041639 9 1.215293 1.348142 0.0009413028 1.3422840 0.004338346 3.601639 10 1.215264 1.348295 -0.0042699338 -0.2402233 0.011690611 1.964135 13 1.213641 1.346129 -0.0032856348 -0.9251253 0.007915723 3.576367 14 1.213063 1.345689 0.0029579191 -0.6788627 0.006753155 3.078447 17 1.209289 1.341335 -0.0001367234 4.3943129 0.001217815 5.834774 18 1.208912 1.340908 -0.0049432298 -0.4929892 0.010057785 1.052387 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 399.986 co2l1 = 0.945 co2l0 = 0.007" [1] "co2l0 = -195.58 co2l1 = 0.215" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "61 out of 230 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "169 out of 1154 1-min values rejected as stack air" [1] "169 out of 1154 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"