[1] "2025-04-29 22:07:27 MDT" [1] "1408" "140925" "d268" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140925a.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 22:07:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.743" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "87 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.743" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "86 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:07:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:07:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:07:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:07:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 86 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1350 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:08:01 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 = 394.1 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 = 0.478 co2off = 385.6 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.73 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 120 129 0.08371519 0.08997462 0.08754043 3 -29.102992 280.3602 3 4 130 139 0.09067023 0.09692943 0.09449536 3 28.700805 137.4840 4 3 140 149 0.09762500 0.10388999 0.10284666 3 9.076664 209.5224 6 4 412 421 0.29244239 0.29870159 0.29626765 2 28.556594 141.1172 7 2 422 431 0.29939737 0.30565642 0.30322248 2 -29.234555 278.7761 9 2 700 707 0.50113105 0.50600000 0.50426101 3 -29.390135 279.5233 10 4 708 717 0.50808602 0.51434902 0.51191337 3 28.394383 137.5207 12 3 727 736 0.52199893 0.52825810 0.52721484 3 8.796641 213.9863 14 4 972 981 0.70981678 0.71607564 0.71364165 2 28.349383 141.4980 15 2 982 991 0.71677135 0.72303030 0.72059635 2 -29.472156 281.9178 17 2 1255 1263 0.91852546 0.92409311 0.92200463 3 -29.588527 287.2691 18 4 1264 1272 0.92617940 0.93174317 0.92965693 3 28.192045 135.4153 19 3 1273 1281 0.93243927 0.93869841 0.93800301 3 8.596244 211.3277 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.211468 1.344178 0.0004807665 -1.5548598 0.006844040 11.288424 3 1.211282 1.343927 -0.0023499709 -1.6798175 0.013842483 10.889386 4 1.211270 1.343862 -0.0053372701 -2.0041428 0.014439604 5.012322 6 1.212320 1.344846 0.0024147638 0.3186750 0.009662381 3.086866 7 1.212584 1.345119 -0.0044306423 -2.8839994 0.014755804 9.364189 9 1.213843 1.346752 -0.0007968628 -2.4518137 0.006938504 7.816738 10 1.213156 1.345943 0.0013728914 0.1416856 0.008090410 4.345961 12 1.213381 1.346257 0.0016836197 4.3003595 0.010414391 6.419052 14 1.215115 1.348271 0.0019012531 0.2788043 0.007675073 2.933946 15 1.215113 1.348317 -0.0114702278 -1.5520309 0.029219917 5.014419 17 1.214819 1.347977 -0.0020852550 -0.3436435 0.007436525 6.172009 18 1.214427 1.347592 0.0007979408 -3.4759937 0.007332657 7.880255 19 1.214472 1.347734 -0.0014392889 -0.7752168 0.008052884 2.528381 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 390.671 co2l1 = 0.478 co2l0 = 0.097" [1] "co2l0 = -144.42 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "236 out of 1014 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "778 out of 1174 1-min values rejected as stack air" [1] "778 out of 1174 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"