[1] "2025-04-29 20:46:10 MDT" [1] "1402" "140307" "d066" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140307a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86100 63 [1] 86100 [1] 86100 [1] "testing skipping spike filter" [1] 86100 [1] 86100 [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 20:46:14 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.826, ave o2scale2 = 0.752" [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] "78 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.826, ave o2scale2 = 0.752" [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] "78 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:46:15 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:46:15 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:46:33 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:46:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 78 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1355 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:46:38 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 = -475.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 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 = 0.444 co2off = 373.92 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.71 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 1 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 7 [4,] 8 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 7 0.001496528 0.005673264 0.004281887 2 57.357350 163.6332 2 3 8 17 0.006368605 0.012633102 0.011585851 2 36.348641 248.2900 4 4 279 288 0.200838571 0.207101794 0.204667354 2 57.426539 160.3864 5 2 289 298 0.207797251 0.214060185 0.211625228 2 -4.164859 304.8673 7 2 563 572 0.409779080 0.416038889 0.413604626 3 -4.472797 296.5219 8 4 573 576 0.416734230 0.423002228 0.422654051 3 57.510375 191.3694 10 3 586 593 0.430662037 0.436927517 0.436579514 3 36.272615 241.7996 12 4 808 817 0.618761227 0.625027691 0.622590422 2 57.686266 163.2245 13 2 818 827 0.625724248 0.631991956 0.629556178 2 -5.190320 303.2334 15 2 1108 1117 0.827686372 0.833952054 0.831515321 3 -5.205781 308.3587 16 4 1118 1127 0.834648524 0.840915885 0.838477962 3 57.656742 160.8981 17 3 1128 1137 0.841615278 0.847880295 0.846836321 3 36.054312 244.8591 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.197030 1.315493 -0.002306694 9.644927e-01 0.004190903 1.741816 2 1.196992 1.315415 -0.004087244 -2.731878e+00 0.011842943 3.927801 4 1.199832 1.318541 -0.003836666 1.219319e+00 0.009613858 3.501716 5 1.200154 1.318903 -0.000729875 2.540808e+00 0.003406557 8.626416 7 1.206963 1.326228 -0.003763296 1.284598e+00 0.014039197 10.752709 8 1.206736 1.325972 0.032161556 2.467912e-14 0.022804194 0.000000 10 1.207587 1.326874 0.001361745 -1.728671e-14 0.007372607 0.000000 12 1.217548 1.337590 0.001949915 1.951530e+00 0.008867876 9.584831 13 1.217938 1.338019 -0.002569150 5.705263e-01 0.010827196 7.164418 15 1.222329 1.342763 -0.009554460 -1.539233e+00 0.023867356 5.253718 16 1.222226 1.342641 0.002367471 5.731620e-01 0.016198009 3.240239 17 1.222271 1.342694 -0.002413792 -6.278878e+00 0.015293447 8.396154 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.803 co2l1 = 0.442 co2l0 = 0.017" [1] "co2l0 = -153.14 co2l1 = 0.234" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "62 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "218 out of 1197 1-min values rejected as stack air" [1] "218 out of 1197 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"