[1] "2025-04-29 20:17:46 MDT" [1] "1401" "140118" "d018" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140118a.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 20:17:50 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.732" [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] "2 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.806, ave o2scale2 = 0.732" [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] "2 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:17:50 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:17:50 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:18:06 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:18:08 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:18:19 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.7" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.451 co2off = 379.69 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 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 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 97 106 0.06775402 0.07401736 0.07158015 3 -7.028375 303.3548 3 4 107 116 0.07471296 0.08097266 0.07853797 3 54.894227 161.1608 4 5 117 126 0.08166808 0.08792740 0.08688424 NA 28.929469 226.2558 5 3 127 136 0.08862321 0.09488258 0.09383947 3 33.701492 245.0416 7 4 397 406 0.27645072 0.28271065 0.28027606 2 54.952813 159.0172 8 2 407 416 0.28340613 0.28966528 0.28723103 2 -6.922234 304.5068 10 2 695 704 0.48513883 0.49139847 0.48896424 3 -6.503719 306.3467 11 4 705 714 0.49209381 0.49835330 0.49591911 3 54.874063 157.3803 12 3 715 724 0.49904928 0.50530845 0.50426532 3 33.844555 241.0211 14 4 995 1004 0.69381603 0.70007532 0.69764098 2 54.822703 158.9459 15 2 1005 1014 0.70077063 0.70703009 0.70459611 2 -6.184664 296.6413 16 5 1015 1024 0.70772569 0.71398510 0.71294207 NA 29.480625 222.3232 18 2 1295 1304 0.90250026 0.90876007 0.90632565 3 -6.037180 302.5758 19 4 1305 1314 0.90945544 0.91571528 0.91328056 3 54.720555 155.2254 20 3 1315 1324 0.91641076 0.92266973 0.92162658 3 33.973664 246.4921 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.243517 1.367767 -3.939120e-03 3.6210941 0.013652904 9.1625505 3 1.243290 1.367528 2.214427e-03 1.0345856 0.013279782 4.4275626 4 1.243457 1.367747 -4.012898e-02 0.3716135 0.028416854 2.3149449 5 1.243545 1.367829 1.987302e-03 1.1495725 0.006172053 1.6165564 7 1.242771 1.366991 3.109446e-03 2.1392858 0.011676919 6.7371784 8 1.242793 1.367010 2.425368e-04 1.6736963 0.023616347 5.8208506 10 1.241966 1.366151 1.040399e-03 2.6749268 0.007673586 7.5259710 11 1.241879 1.366058 3.948158e-03 0.3761294 0.017319380 1.9704504 12 1.241805 1.366011 -3.554943e-03 -0.3053583 0.010507142 0.7363425 14 1.239834 1.363792 -2.538265e-03 0.9174404 0.010135067 3.9412826 15 1.239886 1.363837 -6.024815e-05 -1.0556476 0.003312574 6.9502131 16 1.239889 1.363812 -3.245537e-02 -0.5933658 0.022980970 1.0374015 18 1.239065 1.362952 6.317912e-03 3.3962020 0.015631514 9.3348329 19 1.238984 1.362887 7.568934e-04 0.2766820 0.016009116 2.6716630 20 1.239112 1.363029 -7.748635e-04 0.3884582 0.007596840 1.1152307 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.582 co2l1 = 0.45 co2l0 = 0.038" [1] "co2l0 = -148.69 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "268 out of 427 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "159 out of 1227 1-min values rejected as stack air" [1] "159 out of 1227 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"