[1] "2025-04-30 00:10:23 MDT" [1] "1505" "150609" "d160" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150609a.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] "2025-04-30 00:10:27 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.868, ave o2scale2 = 0.78" [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] "102 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.868, ave o2scale2 = 0.78" [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] "102 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:10:28 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:10:28 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:10:44 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:10:46 MDT" [1] "reading in recalculated plot titles" [1] "Removed 102 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1333 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:10:50 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 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 1.014 co2off = 474.15 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.09 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.09 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 7 0.001233796 0.005406279 0.004015365 3 -88.14665 483.8633 2 4 8 17 0.006101852 0.012412703 0.009951284 3 -66.92334 363.2999 3 5 18 27 0.013108102 0.019371528 0.018328190 NA -78.98397 440.9206 4 3 28 37 0.020067130 0.026329890 0.025286617 3 -79.60902 473.0676 6 4 289 298 0.207964294 0.214228009 0.211791891 2 -66.90331 366.7271 7 2 299 307 0.214923582 0.221186343 0.218702108 2 -88.12521 478.7411 9 2 569 578 0.416719936 0.422982870 0.420548003 3 -88.10520 477.2673 10 4 579 588 0.423678299 0.429941233 0.427506876 3 -66.88477 367.2035 11 3 589 598 0.430636603 0.436903443 0.435857444 3 -79.55150 468.6154 14 2 846 852 0.634602575 0.638775463 0.637384381 1 -88.22498 479.0924 17 2 1103 1112 0.834342593 0.840608189 0.838170421 3 -88.21987 474.6951 18 4 1113 1122 0.841306076 0.847565249 0.845131203 3 -67.01595 364.2924 19 3 1123 1132 0.848260590 0.854527199 0.853481626 3 -79.69036 468.9574 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.152865 1.282595 1.441729e-03 -0.3176428 0.002362054 0.5419458 2 1.152889 1.282512 4.870949e-03 1.5321015 0.013620737 4.0718906 3 1.152872 1.282486 -1.809861e-03 2.5081205 0.001281631 3.5893546 4 1.152754 1.282366 -1.798194e-04 1.6955709 0.003160998 2.3410872 6 1.156405 1.286964 1.689118e-03 1.1703520 0.004528678 3.8714026 7 1.156453 1.287116 -1.827525e-03 2.9525864 0.005381646 8.4466994 9 1.157591 1.288427 -1.302533e-03 1.9220554 0.004667211 5.4594654 10 1.157622 1.288416 2.996231e-03 1.0965241 0.008623119 7.8919584 11 1.157683 1.288493 1.328638e-06 -0.6035624 0.002385316 1.9615224 14 1.149017 1.277928 -2.995683e-04 -1.8000998 0.001083073 3.3148117 17 1.147661 1.276515 -8.095130e-04 -0.3480607 0.002239170 6.2920150 18 1.147655 1.276513 2.985830e-04 1.5894671 0.004232863 5.7152111 19 1.147823 1.276665 1.523494e-03 -3.1506588 0.004412309 4.1860231 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 474.072 co2l1 = 1.014 co2l0 = 1.916" [1] "co2l0 = -198.32 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "93 out of 345 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "252 out of 1143 1-min values rejected as stack air" [1] "252 out of 1143 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"