[1] "2025-04-29 20:29:37 MDT" [1] "1401" "140206" "d037" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140206a.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 20:29:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.815, 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 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 = 0.815, 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 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] "2025-04-29 20:29:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:29:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:29:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:29:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1432 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:30:07 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 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 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 = 0.456 co2off = 378.67 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 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 40 49 0.02893730 0.03519769 0.03276247 2 56.278781 156.9020 3 2 50 59 0.03589288 0.04215194 0.03971794 2 -4.501656 306.0027 5 2 340 349 0.23764051 0.24390046 0.24146601 3 -4.176344 301.7047 6 4 350 359 0.24459606 0.25085929 0.24842376 3 56.196273 152.6322 7 3 360 369 0.25155469 0.25781418 0.25677109 3 35.596594 239.0197 12 4 640 649 0.44634618 0.45260532 0.45017144 2 56.303398 161.1283 13 2 650 659 0.45330093 0.45956076 0.45712649 2 -4.382852 303.5497 14 5 660 669 0.46025613 0.46651525 0.46547216 NA 31.142156 226.0837 17 2 940 949 0.65502862 0.66128770 0.65885358 3 -5.016016 298.5075 18 4 950 959 0.66198348 0.66824219 0.66580829 3 56.415500 152.0113 19 3 960 969 0.66893764 0.67519751 0.67415441 3 35.510273 238.2225 21 4 1237 1246 0.86370851 0.86996768 0.86753373 2 56.327719 156.7747 22 2 1247 1256 0.87066363 0.87692677 0.87448917 2 -4.043289 303.0324 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.228112 1.347901 0.0034798205 3.5336725 0.012151894 10.185834 3 1.228334 1.348129 0.0069642320 2.3104030 0.018514172 7.717603 5 1.227997 1.347660 -0.0007029423 1.7039657 0.007520804 5.672810 6 1.227909 1.347566 0.0088819474 4.7428724 0.024049288 11.694740 7 1.227992 1.347674 0.0074839488 2.1391303 0.019310694 2.919578 12 1.228396 1.348163 0.0026163444 1.4523377 0.013063202 15.266315 13 1.228545 1.348332 0.0020822756 3.5623780 0.008394961 13.306591 14 1.228445 1.348181 -0.0290225939 -2.8205829 0.020550291 4.925116 17 1.227794 1.347473 0.0163260638 2.1196042 0.040700668 7.410915 18 1.227794 1.347493 0.0021698358 3.5623073 0.018531194 10.652061 19 1.227911 1.347608 0.0048076646 6.9689831 0.012415111 9.018765 21 1.225942 1.345547 -0.0003789574 0.7933876 0.005133812 4.253398 22 1.225911 1.345544 0.0125193927 2.2019794 0.031297837 8.424951 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.641 co2l1 = 0.455 co2l0 = 0.012" [1] "co2l0 = -147.54 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "86 out of 320 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "234 out of 1242 1-min values rejected as stack air" [1] "143 out of 784 Line 1 1-min values rejected as stack air" [1] "91 out of 458 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"