[1] "2025-04-29 19:57:27 MDT" [1] "1312" "131203" "d337" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131203a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 19:57:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.812, ave o2scale2 = 0.738" [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] "90 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.812, ave o2scale2 = 0.738" [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] "90 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:57:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:57:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:57:47 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:57:49 MDT" [1] "reading in recalculated plot titles" [1] "Removed 90 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1346 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:57:57 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 = -446.4" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.2" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.443 co2off = 381.87 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 8.01 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 40 48 0.02975787 0.03532176 0.03323512 2 29.51142 211.1003 3 2 49 58 0.03601736 0.04227650 0.03984229 2 -17.27717 301.3316 6 2 336 344 0.23844534 0.24400929 0.24192291 3 -16.78719 297.9265 7 4 345 354 0.24470483 0.25096435 0.24852980 3 29.59865 206.7196 8 3 355 363 0.25165978 0.25722384 0.25652825 3 53.86629 134.5263 10 4 632 640 0.44713108 0.45269902 0.45061039 2 29.59829 209.8167 11 2 641 649 0.45339433 0.45896169 0.45687356 2 -16.77133 298.5833 13 2 903 909 0.65585518 0.66072338 0.65905418 3 -17.63417 301.7984 14 4 910 918 0.66281033 0.66837393 0.66628782 3 29.21728 213.5912 16 3 927 935 0.67602532 0.68159265 0.68089717 3 53.87374 131.8334 18 4 1160 1166 0.86455573 0.87011988 0.86817259 2 28.78610 212.7636 19 2 1167 1175 0.87081551 0.87637963 0.87429288 2 -19.10007 299.4679 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.230705 1.354352 -0.0063002777 -0.7658762 0.014342659 5.6788499 3 1.230644 1.354249 -0.0035316861 0.4304724 0.015923637 1.6067593 6 1.229586 1.353267 -0.0025968645 0.1275601 0.005818993 2.9927647 7 1.229455 1.353079 0.0050771361 -0.9091703 0.014341418 2.3539002 8 1.229336 1.352856 0.0039384318 -2.8494551 0.009025417 3.2434000 10 1.230318 1.354114 0.0068120219 1.7056474 0.016494188 4.7914368 11 1.230460 1.354177 -0.0107172138 -0.4303305 0.024144981 1.5612505 13 1.231847 1.355431 -0.0076659763 0.6414947 0.018104845 2.1846862 14 1.231998 1.355731 -0.0091122335 -1.6624874 0.019883576 10.2916456 16 1.231988 1.355635 0.0009931709 -0.1542755 0.006189649 0.8794417 18 1.235041 1.359100 -0.0056200857 0.2583006 0.014929365 1.3936266 19 1.235116 1.359036 0.0029326054 0.2376385 0.014574496 1.5476126 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.025 co2l1 = 0.439 co2l0 = 0.173" [1] "co2l0 = -143.21 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "120 out of 200 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "80 out of 1171 1-min values rejected as stack air" [1] "80 out of 1171 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"