[1] "2025-04-29 20:11:33 MDT" [1] "1401" "140107" "d007" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140107a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:11:37 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.805, ave o2scale2 = 0.733" [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] "11 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.805, ave o2scale2 = 0.733" [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] "11 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:11:37 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:11:37 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:11:53 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:11:55 MDT" [1] "reading in recalculated plot titles" [1] "Removed 11 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1425 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:12:01 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 = -475.6" [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 = 0.447 co2off = 378.15 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 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 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 70 79 0.04943105 0.05569418 0.05325991 2 58.833148 157.2741 3 2 80 89 0.05638964 0.06264931 0.06021519 2 -2.527875 299.4998 4 5 90 99 0.06334494 0.06960683 0.06856300 NA 32.956188 214.8621 6 2 370 379 0.25813157 0.26439170 0.26195671 3 -2.820828 295.6209 7 4 380 389 0.26509051 0.27135194 0.26891752 3 58.551570 155.7097 8 3 390 399 0.27204751 0.27830671 0.27726348 3 37.559758 243.8533 10 4 667 676 0.46682483 0.47308365 0.47064962 2 58.523289 153.4188 11 2 677 686 0.47377931 0.48004060 0.47760492 2 -3.396133 299.2257 13 2 959 968 0.67551221 0.68177199 0.67933735 3 -3.485484 290.4570 14 4 969 978 0.68246730 0.68873032 0.68629384 3 58.265477 155.0598 15 5 979 988 0.68942593 0.69568527 0.69464191 NA 31.699188 221.5061 16 3 989 998 0.69638084 0.70264062 0.70159698 3 36.972219 240.5726 18 4 1259 1268 0.88420258 0.89046157 0.88802736 2 58.227391 152.6508 19 2 1269 1278 0.89115697 0.89741664 0.89498241 2 -4.084367 299.1743 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.239639 1.360654 0.0003855304 -1.1186296 0.003130698 9.036489 3 1.239877 1.360902 0.0078364125 1.1315711 0.019625967 6.627208 4 1.239782 1.360844 -0.0448003328 -5.7604146 0.031731417 7.669626 6 1.241277 1.362322 0.0008126922 -0.2313610 0.005626661 2.689670 7 1.241230 1.362290 0.0025716999 0.1454245 0.020721889 8.561535 8 1.241402 1.362443 -0.0017289473 2.3016234 0.005602478 3.085687 10 1.243078 1.364160 0.0016456952 1.6743661 0.007590226 7.338159 11 1.243310 1.364413 0.0076997595 3.9364682 0.020447953 12.610086 13 1.244395 1.365865 0.0081593769 1.9103542 0.020196710 6.359157 14 1.244351 1.365874 0.0073290125 1.6838537 0.021206808 5.966199 15 1.244203 1.365761 -0.0575243324 0.2417108 0.040747028 2.874108 16 1.244043 1.365594 -0.0124787401 2.8212727 0.031008477 3.750604 18 1.244822 1.366547 -0.0013107347 4.4011572 0.008117287 10.981906 19 1.244895 1.366627 0.0102597966 4.3056787 0.026160123 10.699961 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.097 co2l1 = 0.447 co2l0 = -0.003" [1] "co2l0 = -148.39 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "131 out of 220 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "89 out of 1233 1-min values rejected as stack air" [1] "89 out of 1233 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"