[1] "2025-04-30 02:05:52 MDT" [1] "1612" "161213" "d348" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/161213a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 82740 63 [1] 82740 [1] 82740 [1] "testing skipping spike filter" [1] 82740 [1] 82740 [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 02:05:55 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.025, ave o2scale2 = 0.837" [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] "10 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.025, ave o2scale2 = 0.837" [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] "10 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:05:56 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:05:56 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:06:12 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:06:14 MDT" [1] "reading in recalculated plot titles" [1] "Removed 10 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1368 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:06:17 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [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 CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.964 co2off = 422.98 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.26 minutes" [1] "Average Cal: 7.77 minutes" [1] "Shortest Cal: 6.27 minutes" [1] "Longest Cal: 8.46 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 179 187 0.1296004 0.1354773 0.1332899 2 -13.06800 114.0733 3 2 188 196 0.1361934 0.1419724 0.1398090 2 -35.39879 228.9887 5 2 467 475 0.3379855 0.3438476 0.3416520 3 -35.41140 228.0885 6 4 476 483 0.3445786 0.3496866 0.3478830 3 -13.06808 114.6258 8 3 491 498 0.3583912 0.3634619 0.3631021 3 -26.42144 213.3405 10 4 749 756 0.5472213 0.5523282 0.5504982 2 -13.09440 113.5178 11 2 757 765 0.5530411 0.5588622 0.5566803 2 -35.42454 230.9160 13 2 1035 1043 0.7546484 0.7603731 0.7582174 3 -35.47774 218.9962 14 4 1044 1052 0.7610995 0.7668979 0.7647191 3 -13.16379 114.4727 15 3 1053 1061 0.7676262 0.7734801 0.7727393 3 -26.50300 212.8053 17 4 1322 1330 0.9630841 0.9688352 0.9666798 2 -13.24204 115.5457 18 2 1331 1338 0.9695671 0.9746159 0.9728013 2 -35.58305 229.7761 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9752815 1.193757 -0.0007906153 -0.94139631 0.002751183 3.3012643 3 0.9752575 1.193786 -0.0021398171 0.13036648 0.007172617 1.9782383 5 0.9756372 1.194173 0.0012574223 -0.19439210 0.007011046 2.1726178 6 0.9758969 1.194535 0.0006927247 0.07348484 0.008631851 2.8867614 8 0.9762527 1.194950 0.0001062348 -0.22941038 0.000500000 0.1680845 10 0.9766224 1.195187 0.0013134883 0.63848984 0.002631144 1.8875831 11 0.9765944 1.195107 -0.0035625536 -0.36439115 0.009213813 1.9546218 13 0.9766455 1.195211 -0.0006184856 -2.96787065 0.002171498 11.9576403 14 0.9765254 1.195108 0.0015691731 -0.47341283 0.006059370 1.8862697 15 0.9767100 1.195210 -0.0005282049 2.23959965 0.004119156 2.3919595 17 0.9755353 1.194047 0.0032889463 0.27227988 0.007546187 1.2437036 18 0.9755649 1.194080 -0.0061879562 -1.27442787 0.013245484 3.7969979 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 418.811 co2l1 = 0.963 co2l0 = 0.085" [1] "co2l0 = -141.82 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "60 out of 98 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "38 out of 1198 1-min values rejected as stack air" [1] "38 out of 1198 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"