[1] "2025-04-29 17:45:50 MDT" [1] "1301" "130118" "d018" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130118a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84600 63 [1] 84600 [1] 84600 [1] "testing skipping spike filter" [1] 84600 [1] 84600 [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 17:45:54 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, 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] "16 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.777" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "19 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:45:55 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:45:55 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:46:14 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:46:15 MDT" [1] "reading in recalculated plot titles" [1] "Removed 19 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1389 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:46:29 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -448.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.394 co2off = 375.4 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.81 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.07 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 75 84 0.05231143 0.05860946 0.05617347 2 62.55712 -64.728827 3 2 85 94 0.05930486 0.06556542 0.06313070 2 -16.03546 94.749081 4 5 95 104 0.06626082 0.07252433 0.07148106 NA 28.94703 -10.454905 6 2 343 350 0.26119216 0.26606502 0.26432592 3 -15.94631 96.416554 7 4 351 360 0.26817083 0.27444291 0.27200835 3 62.59941 -66.072467 8 3 361 370 0.27513828 0.28139815 0.28035501 3 35.54037 2.246263 10 4 641 650 0.46993371 0.47619274 0.47375864 2 62.70547 -65.168130 11 2 651 660 0.47688814 0.48315142 0.48071513 2 -16.29080 94.459864 13 2 941 950 0.67863657 0.68489580 0.68246149 3 -16.08215 93.253908 14 4 951 960 0.68559106 0.69185061 0.68941639 3 62.68640 -66.443379 16 3 970 979 0.69950116 0.70576247 0.70471752 3 35.58893 3.883861 18 4 1228 1237 0.88733333 0.89359259 0.89115858 2 62.69122 -64.002725 19 2 1238 1247 0.89428819 0.90054745 0.89811323 2 -16.19879 94.434606 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.294609 1.283448 -5.459981e-03 -0.48849019 0.013874294 2.997104 3 1.294683 1.283534 -1.639412e-02 -0.84073083 0.042712598 2.383879 4 1.294668 1.283535 2.814411e-02 0.59533163 0.019931572 1.165743 6 1.299064 1.285777 -1.491835e-02 3.28601286 0.028283774 7.264168 7 1.298729 1.285696 1.253206e-02 2.16638827 0.032479749 6.702842 8 1.298732 1.285867 3.144622e-03 2.52297707 0.012869754 3.274256 10 1.298492 1.287748 -1.860667e-03 -0.21174614 0.018297364 1.389712 11 1.298592 1.287850 -1.898800e-03 0.24433688 0.025988975 3.050086 13 1.298954 1.288319 -2.008826e-05 0.10476177 0.002658153 2.694970 14 1.298782 1.288174 3.257740e-03 0.85155189 0.012929105 3.784065 16 1.298621 1.288004 9.108032e-03 0.89118591 0.022667690 1.644204 18 1.299293 1.288431 -1.967460e-03 0.02079604 0.006054717 1.845063 19 1.299195 1.288396 -6.687475e-03 0.54139096 0.018166607 3.418625 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.69 co2l1 = 0.394 co2l0 = 0.143" [1] "co2l0 = -97.72 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "202 out of 520 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "318 out of 1200 1-min values rejected as stack air" [1] "318 out of 1200 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"