[1] "2025-04-29 21:17:14 MDT" [1] "1404" "140517" "d137" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140517a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85554 63 [1] 85554 [1] 85554 [1] "testing skipping spike filter" [1] 85554 [1] 85554 [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 21:17:18 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.801, ave o2scale2 = 0.729" [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] "13 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.801, ave o2scale2 = 0.729" [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] "13 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:17:18 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:17:18 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:17:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:17:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 13 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1411 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:17:40 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 = -476.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.2" [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 = 0.41 co2off = 368.64 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.42 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 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 4 15 24 0.01072459 0.01698747 0.01455216 3 75.940758 132.4088 3 2 25 34 0.01768290 0.02394604 0.02150872 3 8.952875 278.0479 4 3 35 44 0.02464144 0.03090321 0.02985797 3 52.920570 214.7389 6 2 313 321 0.21955871 0.22512269 0.22303640 2 8.922696 274.0989 7 4 322 330 0.22651826 0.23208909 0.23000094 2 75.979634 129.2754 10 4 608 617 0.42838848 0.43465162 0.43221491 3 76.245797 133.6804 11 2 618 627 0.43534823 0.44161111 0.43917503 3 8.758344 269.5033 12 3 628 637 0.44230671 0.44856962 0.44752556 3 53.085859 210.0328 14 2 895 903 0.63677584 0.64234453 0.64025665 2 8.429348 272.3843 15 4 904 913 0.64374042 0.65000104 0.64756560 2 76.473961 128.7186 17 4 1194 1203 0.84557292 0.85183796 0.84940274 3 76.656898 130.1043 18 2 1204 1212 0.85253759 0.85810188 0.85601539 3 8.184473 274.7073 20 3 1221 1229 0.86715394 0.87272112 0.87202477 3 53.195179 208.9528 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.239663 1.362062 -0.0011717692 1.79853682 0.009673892 4.7535405 3 1.239719 1.362137 -0.0072800042 1.55765287 0.019835315 4.0302924 4 1.239726 1.362128 0.0021513946 3.55415798 0.019105278 4.9411042 6 1.242500 1.365117 -0.0038428710 0.40267255 0.008957759 0.9521669 7 1.242371 1.364961 0.0085268470 0.19667025 0.020678354 3.0006561 10 1.245964 1.368754 0.0003617277 -0.60111209 0.004510003 6.0231923 11 1.246184 1.369021 -0.0034753904 2.00933915 0.017206272 7.0976412 12 1.246307 1.369151 -0.0024213144 -0.94600782 0.011200972 2.0594216 14 1.251643 1.374761 -0.0104795001 -0.07104254 0.023246327 1.1956305 15 1.252033 1.375228 0.0080800788 0.55539332 0.021481458 4.5772358 17 1.257525 1.380869 0.0013156603 -1.28327160 0.009843130 5.8133535 18 1.257814 1.381101 -0.0079615928 -2.14097972 0.018735893 6.3472735 20 1.258580 1.382102 0.0018361934 1.31356889 0.006706498 1.4458241 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.116 co2l1 = 0.409 co2l0 = -0.198" [1] "co2l0 = -142.88 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "27 out of 30 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "3 out of 1213 1-min values rejected as stack air" [1] "3 out of 1213 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"