[1] "2025-04-30 03:13:06 MDT" [1] "1706" "170802" "d214" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170802a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84240 63 [1] 84240 [1] 84240 [1] "testing skipping spike filter" [1] 84240 [1] 84240 [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 03:13:10 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.887, ave o2scale2 = 0.959" [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] "374 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.887, ave o2scale2 = 0.959" [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] "374 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:13:10 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:13:10 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:13:25 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:13:27 MDT" [1] "reading in recalculated plot titles" [1] "Removed 374 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1029 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:13:29 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.409 co2off = 421.63 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.17 minutes" [1] "Average Cal: 6.59 minutes" [1] "Shortest Cal: 1.03 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 5 [4,] 6 8 [5,] 9 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 15 23 0.01376863 0.01946024 0.01732565 2 -2.724571 172.7328 3 2 24 32 0.02017173 0.02587465 0.02373455 2 -5.491036 324.3554 5 2 239 244 0.22382908 0.22738588 0.22631896 2 -5.518469 354.8147 6 4 245 251 0.22809731 0.23378979 0.23208024 2 -2.745275 190.7520 11 2 401 408 0.43601030 0.44099013 0.43921166 1 -5.488667 315.5644 13 2 618 622 0.64047483 0.64332410 0.64261115 3 -5.394271 353.9319 14 4 623 628 0.64546672 0.64973817 0.64867004 3 -2.641328 176.6012 15 3 629 637 0.65045014 0.65615249 0.65544085 3 -6.201312 310.1120 18 2 834 842 0.85206172 0.85776357 0.85562774 1 -5.028455 327.3689 19 5 843 850 0.85847535 0.86345781 0.86310203 NA -3.378000 219.6001 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.118817 1.035036 5.795377e-04 -0.07718604 0.0016159317 6.865407 3 1.118938 1.035087 1.826106e-04 4.58411239 0.0007636408 16.824299 5 1.119626 1.036041 3.539217e-04 14.45923450 0.0005141234 19.487773 6 1.119577 1.036041 -6.338089e-05 -5.76200578 0.0010706078 16.477342 11 1.124948 1.040691 -1.812697e-04 1.54736532 0.0012372264 7.871513 13 1.133413 1.048114 -5.784064e-04 -25.62967476 0.0006260408 26.308204 14 1.133778 1.048279 -1.567054e-03 -1.41423670 0.0021951160 2.769101 15 1.133922 1.048489 -5.215105e-05 0.55219745 0.0010557383 1.382100 18 1.137486 1.051169 1.236148e-03 2.60030355 0.0028040879 7.220720 19 1.137537 1.051327 -1.020181e-02 -1.65690838 0.0148492424 1.200511 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 420.601 co2l1 = 4.409 co2l0 = 0.374" [1] "co2l0 = -162.63 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "69 out of 255 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "186 out of 878 1-min values rejected as stack air" [1] "186 out of 878 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"