[1] "2025-04-29 19:03:10 MDT" [1] "1306" "130620" "d171" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130620a.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 19:03:14 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.787, ave o2scale2 = 0.729" [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] "188 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.787, ave o2scale2 = 0.729" [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] "188 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:03:14 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:03:14 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:03:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:03:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 188 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1248 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:03:50 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.31 co2off = 388.69 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.23 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 7 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 135 144 0.1092535 0.1155162 0.1130819 3 -18.74880 246.01904 4 4 145 151 0.1162118 0.1224746 0.1198306 3 47.63544 159.65287 5 3 152 161 0.1231701 0.1294305 0.1283867 3 82.44486 94.89207 8 4 391 397 0.3200867 0.3242600 0.3228688 2 47.65089 158.15095 9 2 398 407 0.3249552 0.3312179 0.3287822 2 -19.16031 244.07867 12 2 641 650 0.5267549 0.5330181 0.5305820 2 -19.24461 233.99640 13 4 651 657 0.5357998 0.5399763 0.5385855 2 47.68797 156.63741 14 5 658 667 0.5406716 0.5469346 0.5458896 NA 37.76925 135.45947 17 4 898 907 0.7355012 0.7417639 0.7393297 2 47.90917 157.57373 18 2 908 917 0.7424627 0.7487257 0.7462889 2 -18.74815 247.61272 20 2 1172 1181 0.9442720 0.9505347 0.9481006 3 -18.98128 245.34342 21 4 1182 1191 0.9512304 0.9574900 0.9550559 3 47.81388 157.22532 22 3 1192 1200 0.9581855 0.9637531 0.9630577 3 82.81321 84.45687 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.272952 1.374456 -0.025813121 0.2985453 0.064826248 3.0230559 4 1.272783 1.374224 -0.004778188 0.1876615 0.016931333 0.5896373 5 1.272743 1.374244 0.005872163 2.6233429 0.017464273 3.4762997 8 1.272895 1.374344 0.002196188 1.0971749 0.004738143 2.3629135 9 1.272969 1.374368 0.023653964 -0.6447171 0.059334037 3.3279770 12 1.270765 1.372323 -0.022327592 3.7891937 0.054977996 19.1929820 13 1.270652 1.372266 0.001791139 -1.7541812 0.004134601 4.1338142 14 1.271022 1.372564 -0.084918620 0.3239598 0.060104076 1.1828918 17 1.268954 1.370246 0.009889446 0.6080610 0.025368000 3.6093835 18 1.269018 1.370346 0.005676505 2.0886933 0.019245794 5.5727667 20 1.267712 1.368901 -0.015143915 0.2257089 0.037953537 2.3495069 21 1.267708 1.368907 0.003026103 0.1137594 0.011209921 2.3840572 22 1.267635 1.368797 0.010695393 -0.2344541 0.024765827 0.6296862 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.186 co2l1 = 0.308 co2l0 = 0.127" [1] "co2l0 = -133.55 co2l1 = 0.235" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "134 out of 687 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "553 out of 1072 1-min values rejected as stack air" [1] "436 out of 725 Line 1 1-min values rejected as stack air" [1] "117 out of 347 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"