[1] "2025-04-29 18:55:10 MDT" [1] "1306" "130608" "d159" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130608a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86100 63 [1] 86100 [1] 86100 [1] "testing skipping spike filter" [1] 86100 [1] 86100 [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 18:55:14 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.787, ave o2scale2 = 0.732" [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] "148 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.787, ave o2scale2 = 0.732" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "153 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:55:15 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:55:15 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:55:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:55:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 153 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1281 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:55:41 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 = -447.7" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 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 = 0.292 co2off = 379.32 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.59 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 10.01 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 4 106 115 0.08131808 0.08757755 0.08514325 2 41.07588 153.53565 3 2 116 125 0.08827303 0.09453241 0.09209793 2 -30.67370 244.28759 4 5 126 135 0.09522801 0.10148721 0.10044385 NA 29.11031 137.97670 6 2 402 411 0.29006713 0.29632645 0.29389224 3 -29.65390 246.64427 7 4 412 421 0.29702199 0.30328125 0.30084711 3 41.29401 158.45025 8 3 422 431 0.30397688 0.31023611 0.30919286 3 78.52738 84.41181 10 4 699 708 0.49891169 0.50518171 0.50274276 2 41.87451 156.07314 11 2 709 718 0.50587847 0.51214815 0.50970966 2 -28.95399 246.70961 14 2 931 934 0.70791024 0.71139265 0.71104434 3 -27.80856 249.09458 15 4 935 941 0.71696641 0.72114468 0.71975182 3 42.32431 155.59470 17 3 947 956 0.72880848 0.73507639 0.73403162 3 78.79648 85.47955 19 4 1188 1193 0.91706531 0.92401432 0.92143234 2 42.74742 153.99455 20 2 1194 1201 0.92471114 0.93098032 0.92877444 2 -26.64952 243.34533 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.284269 1.378823 -0.011757161 2.078858e+00 0.03040683 7.597754 3 1.284316 1.378874 -0.020178531 7.196498e-01 0.05499607 1.983544 4 1.284207 1.378751 -0.066769282 -1.315090e+00 0.04728777 2.596141 6 1.281599 1.376051 -0.036211262 8.723314e-01 0.09071866 2.343200 7 1.281418 1.375864 -0.007527411 -4.237846e-01 0.02303233 2.134347 8 1.281127 1.375588 0.009029951 1.056352e+00 0.02662544 1.376882 10 1.274656 1.368818 -0.008998315 -7.613809e-02 0.02228154 2.199769 11 1.274245 1.368408 -0.013793646 -7.048715e-02 0.04244967 2.863805 14 1.263838 1.357500 -0.016323988 3.105350e-14 0.01157887 0.000000 15 1.263231 1.356803 -0.009161141 -5.437474e-01 0.01468770 1.165585 17 1.262209 1.355805 -0.010565515 -3.316310e+00 0.03011117 4.432137 19 1.252944 1.345974 0.011220867 6.968610e-01 0.04311544 3.200272 20 1.253240 1.346268 0.012761777 -2.629936e-01 0.03699131 1.400769 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.702 co2l1 = 0.291 co2l0 = 0.171" [1] "co2l0 = -130.86 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "92 out of 360 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "268 out of 1107 1-min values rejected as stack air" [1] "230 out of 835 Line 1 1-min values rejected as stack air" [1] "38 out of 272 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"