[1] "2025-04-29 21:30:08 MDT" [1] "1406" "140709" "d190" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140709a.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 21:30:12 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.742" [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 1 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 = 0.825, ave o2scale2 = 0.742" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "2 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:30:12 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:30:12 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:30:31 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:30:32 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "Removed 21 row(s) with low FLSP" [1] "TEMP: 1412 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:30:37 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.4" [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 = 0.471 co2off = 384.17 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 3 4 171 180 0.1361551 0.1424186 0.1399824 2 42.92859 131.9791 1.221183 4 2 181 190 0.1431140 0.1493738 0.1469393 2 -15.72607 283.1069 1.220964 6 2 471 480 0.3449109 0.3511738 0.3487375 3 -15.87147 280.6098 1.214625 7 4 481 490 0.3518692 0.3581322 0.3556962 3 42.78831 131.9525 1.214221 8 3 491 500 0.3588277 0.3650946 0.3640514 3 22.89232 212.4247 1.214185 10 4 771 780 0.5536689 0.5599315 0.5574973 2 42.68821 136.4419 1.210164 11 2 781 790 0.5606280 0.5668922 0.5644559 2 -15.95795 280.1861 1.210088 12 5 791 800 0.5675890 0.5738519 0.5728067 NA 20.76222 203.2777 1.209818 14 2 1071 1080 0.7624256 0.7686885 0.7662533 3 -16.03822 277.0423 1.207375 15 4 1081 1090 0.7693839 0.7756470 0.7732110 3 42.62096 134.0170 1.207643 16 3 1091 1100 0.7763426 0.7826142 0.7815668 3 22.76107 217.4650 1.208084 18 4 1371 1380 0.9711817 0.9774414 0.9750069 2 42.47655 133.3401 1.209124 19 2 1381 1390 0.9781386 0.9844087 0.9819729 2 -16.17818 277.1131 1.209241 jfcv2 co2slp o2slp co2sd o2sd 3 1.356306 2.836244e-03 -4.48510443 0.008877134 17.8976270 4 1.356512 -6.190054e-03 0.52207092 0.016474190 5.9552824 6 1.348858 -6.716834e-04 2.00827125 0.006402688 5.5921805 7 1.348419 8.162267e-03 -0.06567559 0.025638694 4.5585663 8 1.348348 -4.864267e-03 0.65672630 0.012405556 0.8536454 10 1.344118 6.481017e-03 -0.52358926 0.016372408 4.0513011 11 1.344034 -6.182838e-03 0.29088335 0.017564097 2.6806590 12 1.343718 -5.678037e-03 1.04438449 0.004021670 2.5609791 14 1.341317 -3.321493e-03 1.20594846 0.008274585 4.0917482 15 1.341613 6.068570e-03 -0.20111496 0.017302454 3.3715004 16 1.342110 -9.534014e-05 3.85596572 0.005161935 6.1996137 18 1.343301 2.541145e-04 -0.53706801 0.005100305 4.4558787 19 1.343361 -5.884310e-03 2.81639986 0.017216208 9.1327370 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 384.143 co2l1 = 0.471 co2l0 = 0.07" [1] "co2l0 = -142.84 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "102 out of 275 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "173 out of 1228 1-min values rejected as stack air" [1] "6 out of 6 Line 1 1-min values rejected as stack air" [1] "167 out of 1222 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"