[1] "2025-04-29 21:52:20 MDT" [1] "1406" "140818" "d230" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140818a.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 21:52:24 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.83, ave o2scale2 = 0.748" [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] "1 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.83, ave o2scale2 = 0.748" [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] "1 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:52:24 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:52:24 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:52:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:52:45 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:52:48 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 = -476.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.6" [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 = 0.473 co2off = 386.14 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 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 250 259 0.1744399 0.1806998 0.1782656 3 -20.27603 278.2055 1.200700 3 4 260 269 0.1813953 0.1876562 0.1852226 3 38.13023 136.1655 1.200635 4 3 270 279 0.1883519 0.1946111 0.1935677 3 18.33573 214.2061 1.200698 6 4 550 559 0.3831304 0.3893896 0.3869554 2 38.25588 138.0229 1.202002 7 2 560 569 0.3900849 0.3963504 0.3939124 2 -20.15490 282.4973 1.201729 8 5 570 579 0.3970458 0.4033045 0.4022615 NA 16.08781 201.3166 1.201859 10 2 850 859 0.5918067 0.5980694 0.5956332 3 -20.08399 280.6605 1.206244 11 4 860 869 0.5987739 0.6050328 0.6025988 3 38.35541 136.5759 1.206358 12 3 870 879 0.6057285 0.6119875 0.6109445 3 18.55302 217.9855 1.206176 14 4 1150 1159 0.8005544 0.8068140 0.8043799 2 38.43524 137.6398 1.210397 15 2 1160 1169 0.8075095 0.8137737 0.8113382 2 -19.99270 280.6178 1.210730 jfcv2 co2slp o2slp co2sd o2sd 2 1.331401 -0.0041199799 0.79051655 0.010318856 2.338153 3 1.331330 0.0021303238 0.26080101 0.008410954 2.280747 4 1.331400 0.0046101917 -1.42861846 0.012522878 2.149446 6 1.332784 -0.0024032935 0.24106694 0.006861142 1.778600 7 1.332483 -0.0065612754 -0.07181033 0.017910801 3.329538 8 1.332616 -0.0141067787 -0.80222906 0.009987883 1.554625 10 1.337563 0.0007606387 1.26904490 0.006537447 5.202843 11 1.337741 0.0114726014 0.98112112 0.028371243 3.484453 12 1.337547 0.0018627341 1.80708358 0.006750326 2.551828 14 1.342163 0.0008699655 0.44630452 0.004945059 1.960611 15 1.342544 -0.0056813955 0.35738209 0.015223035 2.857640 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.15 co2l1 = 0.473 co2l0 = 0.084" [1] "co2l0 = -144.17 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "249 out of 470 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "221 out of 1278 1-min values rejected as stack air" [1] "221 out of 1278 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"