[1] "2025-04-29 22:06:13 MDT" [1] "1408" "140923" "d266" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140923a.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 22:06:17 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.827, ave o2scale2 = 0.746" [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] "85 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.827, ave o2scale2 = 0.746" [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] "85 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:06:17 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:06:17 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:06:36 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:06:38 MDT" [1] "reading in recalculated plot titles" [1] "Removed 85 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1351 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:06:43 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 = -477" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.7" [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 CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.477 co2off = 376.32 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.49 minutes" [1] "Shortest Cal: 3.07 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 4 0.0008529851 0.002985619 0.002637963 3 -27.579594 284.4758 2 4 5 14 0.0036810185 0.009940972 0.007506518 3 30.281961 141.0775 3 5 15 24 0.0106366030 0.016908565 0.015863440 NA 8.206750 201.4188 4 3 25 34 0.0176041956 0.023866898 0.022823365 3 10.619391 216.7978 7 4 291 299 0.2061092014 0.211672975 0.209586611 2 30.099598 135.7197 8 2 300 308 0.2123682870 0.218627720 0.216342679 2 -27.769029 280.1130 10 2 584 593 0.4141179977 0.420376852 0.417942737 3 -27.987437 282.9540 11 4 594 603 0.4210722512 0.427331944 0.424897761 3 29.872266 138.7537 12 3 604 613 0.4280272859 0.434293113 0.433248712 3 10.254977 216.0748 14 4 860 869 0.6228195891 0.629078704 0.626644672 2 29.863508 135.6686 15 2 870 879 0.6297743924 0.636033565 0.633599689 2 -28.021367 285.4736 16 5 880 889 0.6367291667 0.642988484 0.641945153 NA 7.744531 201.5709 18 2 1141 1148 0.8315301794 0.837790394 0.836051509 3 -28.187708 282.2377 19 4 1149 1157 0.8391812789 0.844746152 0.842659371 3 29.671482 140.4269 20 3 1158 1165 0.8454414641 0.851704861 0.851357060 3 10.059729 218.0649 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.206792 1.338466 -0.0025593009 0.74687718 0.001811961 0.5287821 2 1.206470 1.338113 0.0008504424 0.71608965 0.010628935 3.1458622 3 1.206435 1.338072 -0.0089857725 2.56121763 0.006363961 3.5195867 4 1.206190 1.337787 -0.0041789534 0.09692427 0.011335870 0.2673571 7 1.207706 1.339674 -0.0010118148 4.82187080 0.003995091 11.2550446 8 1.207762 1.339798 -0.0078119264 -1.97531417 0.021861098 5.8546366 10 1.206065 1.338133 -0.0021620304 -0.41726514 0.006985875 3.0300510 11 1.206040 1.338108 0.0029627738 -0.53501459 0.010324411 2.3560789 12 1.206374 1.338480 -0.0039259459 0.27327790 0.009922408 2.5856902 14 1.209895 1.342475 -0.0069613772 1.44511837 0.017428887 6.3628474 15 1.209944 1.342536 -0.0039328930 1.16178388 0.012193540 4.1024560 16 1.209654 1.342133 -0.0120454356 3.26536522 0.008529476 4.3446070 18 1.210693 1.343319 -0.0039186413 -1.41318107 0.007384916 3.3272039 19 1.211323 1.344028 0.0010116204 0.53115499 0.002648632 3.1905203 20 1.211250 1.343937 -0.0001888339 -1.92993203 0.004990094 1.3669425 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 389.963 co2l1 = 0.477 co2l0 = 0.097" [1] "co2l0 = -144.12 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "103 out of 315 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "212 out of 1157 1-min values rejected as stack air" [1] "210 out of 1099 Line 1 1-min values rejected as stack air" [1] "2 out of 58 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"