[1] "2025-04-30 00:37:12 MDT" [1] "1509" "151112" "d316" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/151112a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 72486 63 [1] 72486 [1] 72486 [1] "testing skipping spike filter" [1] 72486 [1] 72486 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 00:37:15 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.874, ave o2scale2 = 0.777" [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] "3 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.874, ave o2scale2 = 0.777" [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] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:37:16 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:37:16 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:37:30 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:37:31 MDT" [1] "reading in recalculated plot titles" [1] "Removed 4 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1204 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:37:33 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.3" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.1" [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 = 0.944 co2off = 399.28 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 83 92 0.05809297 0.06435260 0.06191808 3 -15.398258 489.1216 3 4 93 102 0.06504795 0.07130680 0.06887290 3 7.380570 372.3863 4 3 103 112 0.07200278 0.07826192 0.07721892 3 -6.219750 474.2714 6 4 382 391 0.26681722 0.27307668 0.27064255 2 7.316297 371.7232 7 2 392 401 0.27377199 0.28003197 0.27759767 2 -15.457484 487.6598 9 2 682 691 0.47550747 0.48176736 0.47933287 3 -15.525422 484.9366 10 4 692 701 0.48246285 0.48872242 0.48628803 3 7.273289 372.0417 11 5 702 711 0.48941785 0.49568128 0.49463812 NA -5.528188 442.8892 12 3 712 721 0.49637659 0.50263631 0.50159306 3 -6.293719 476.8428 14 4 982 991 0.68418984 0.69044936 0.68801535 2 7.268883 371.0686 15 2 992 1001 0.69114482 0.69740813 0.69497342 2 -15.540172 486.3285 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.152193 1.296063 0.0001983005 0.4022560 0.0035083506 3.179617 3 1.152061 1.295954 0.0014674661 0.3372873 0.0051525216 3.861714 4 1.152072 1.295998 -0.0013863902 -2.2325083 0.0037783157 3.211664 6 1.147400 1.291215 -0.0004546317 1.6477889 0.0047976638 4.219046 7 1.147567 1.291395 -0.0022271036 1.6737863 0.0061798519 4.672246 9 1.141864 1.285193 -0.0011142763 -0.2138767 0.0038917768 2.460459 10 1.141899 1.285247 0.0035307746 1.0890002 0.0093745796 2.839913 11 1.141772 1.285101 0.0011234552 3.7293300 0.0007954951 5.073520 12 1.141891 1.285213 0.0008944099 0.9567497 0.0038813312 1.240805 14 1.139318 1.282345 -0.0007555474 1.2651059 0.0025220982 5.221285 15 1.139423 1.282458 -0.0014254843 2.0725118 0.0070801967 5.461765 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 399.276 co2l1 = 0.944 co2l0 = -0.04" [1] "co2l0 = -198.28 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "39 out of 50 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "11 out of 1062 1-min values rejected as stack air" [1] "11 out of 1062 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"