[1] "2025-04-29 22:13:17 MDT" [1] "1409" "141015" "d288" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141015a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84966 63 [1] 84966 [1] 84966 [1] "testing skipping spike filter" [1] 84966 [1] 84966 [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 22:13:21 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.837, ave o2scale2 = 0.754" [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] "38 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.837, ave o2scale2 = 0.754" [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] "38 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:13:22 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:13:22 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:13:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:13:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 38 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 7 row(s) with variable TFCELL" [1] "TEMP: 1369 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:13:37 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [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 = 0.48 co2off = 398.03 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.27 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.06 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 4 [3,] 5 6 [4,] 7 8 [5,] 10 11 [6,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 3 12 0.002871528 0.009146991 0.006703244 1 -33.384930 282.8484 4 2 293 302 0.204764236 0.211024306 0.208589623 3 -33.554195 284.1396 5 4 303 312 0.211719907 0.217979109 0.215544777 3 24.021055 141.5543 6 3 313 322 0.218674769 0.224934115 0.223890748 3 4.506672 217.7083 9 4 579 587 0.414388947 0.419994155 0.417890621 2 23.934116 143.4242 10 2 588 597 0.420694387 0.426988021 0.424541602 2 -33.612367 281.9465 13 2 720 724 0.542087963 0.546956771 0.546261265 2 -33.653688 285.8538 14 4 725 734 0.547652054 0.553910937 0.551477072 2 23.868172 141.2405 15 5 735 744 0.554610185 0.560873003 0.559827076 NA 1.949469 205.3131 18 4 1004 1013 0.742478993 0.748738426 0.746304055 2 23.814562 138.8030 19 2 1014 1023 0.749433970 0.755693316 0.753258941 2 -33.738969 286.0292 22 2 1299 1308 0.950914063 0.957177257 0.954739674 3 -33.740789 283.7653 23 4 1309 1318 0.957872685 0.964132089 0.961697946 3 23.823398 136.4285 24 3 1319 1328 0.964827575 0.971090422 0.970044792 3 4.315852 224.8062 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.199700 1.330426 -0.0040276894 -1.5691839 0.013694060 4.9947127 4 1.196660 1.326779 -0.0011625280 -0.1363124 0.004310550 5.7124094 5 1.196379 1.326550 0.0016291392 -0.1738246 0.008540570 2.7023891 6 1.196081 1.326230 -0.0039883871 -3.0538390 0.010378106 4.3094388 9 1.194776 1.324798 -0.0009576095 -2.5643807 0.004087651 6.2568990 10 1.194945 1.324878 0.0007399581 0.4223054 0.006122306 6.8366782 13 1.193436 1.324057 -0.0028066667 -0.1162310 0.002844237 0.1164223 14 1.193687 1.324234 0.0004832050 0.6616573 0.008517494 10.2539884 15 1.194050 1.324498 -0.0054008194 -0.1378846 0.003844893 11.7017481 18 1.194009 1.324155 0.0004323086 2.0302685 0.007104529 6.0682265 19 1.194178 1.324379 -0.0084526350 0.6577869 0.022662484 5.2768708 22 1.196610 1.327128 -0.0029507504 -2.0744382 0.007800808 9.9813027 23 1.196615 1.327092 0.0007526642 -2.0280714 0.006775904 6.6477257 24 1.196805 1.327240 -0.0011618280 -4.3164428 0.003327533 6.2537004 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.763 co2l1 = 0.48 co2l0 = 0.086" [1] "co2l0 = -144.83 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "95 out of 205 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "110 out of 1149 1-min values rejected as stack air" [1] "110 out of 493 Line 1 1-min values rejected as stack air" [1] "0 out of 656 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"