[1] "2025-04-29 21:09:08 MDT" [1] "1404" "140428" "d118" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140428a.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 21:09:12 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.812, ave o2scale2 = 0.739" [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] "8 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.812, ave o2scale2 = 0.739" [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] "8 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:09:12 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:09:12 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:09:26 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:09:27 MDT" [1] "reading in recalculated plot titles" [1] "Removed 8 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1427 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:09:31 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 = -476.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [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 = 0.411 co2off = 384.88 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.01 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 223 232 0.1562084 0.1624680 0.1600339 3 8.555688 273.5546 1.228121 3 4 233 241 0.1631635 0.1687280 0.1666412 3 75.476045 127.6489 1.228140 5 3 250 258 0.1777731 0.1833372 0.1826418 3 52.507911 209.8663 1.228279 7 4 519 528 0.3649063 0.3711696 0.3687331 2 75.671727 129.4282 1.230863 8 2 529 538 0.3718650 0.3781249 0.3756902 2 8.495555 271.6757 1.231034 10 2 819 828 0.5736599 0.5799198 0.5774855 3 8.324750 273.7659 1.233036 11 4 829 838 0.5806152 0.5868750 0.5844404 3 75.693391 131.0927 1.232965 12 3 839 848 0.5875706 0.5938299 0.5927865 3 52.574602 207.0145 1.232873 14 4 1119 1128 0.7823299 0.7885891 0.7861552 2 75.651523 130.7819 1.233960 15 2 1129 1137 0.7892848 0.7948490 0.7927622 2 8.535491 268.9723 1.234114 18 2 1415 1424 0.9910054 0.9972643 0.9948303 1 8.438664 275.4039 1.234517 jfcv2 co2slp o2slp co2sd o2sd 2 1.349707 6.233041e-03 0.95919833 0.015952042 4.7664381 3 1.349728 3.218028e-03 2.19807937 0.019505799 5.2650413 5 1.349971 -4.490940e-03 0.25680589 0.010769898 0.4903287 7 1.352633 8.399973e-05 1.72377953 0.007326181 4.5185311 8 1.352815 2.522006e-03 -0.07805739 0.010022321 4.4600923 10 1.354891 -7.978592e-04 0.48292854 0.006428782 2.4561196 11 1.354789 8.200543e-04 1.39942250 0.016654303 4.6021266 12 1.354707 -6.476064e-03 -1.15586480 0.018767698 2.7424416 14 1.355869 -4.533057e-03 0.41186841 0.014299996 2.0922152 15 1.355992 -4.251434e-03 0.20178887 0.014351359 3.0426941 18 1.356491 3.002257e-03 1.12481843 0.008706200 3.6467956 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.156 co2l1 = 0.411 co2l0 = -0.194" [1] "co2l0 = -143.22 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "46 out of 105 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "59 out of 1254 1-min values rejected as stack air" [1] "59 out of 1254 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"