[1] "2025-04-29 18:14:12 MDT" [1] "1303" "130313" "d072" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130313a.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 18:14:16 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.75, ave o2scale2 = 0.755" [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] "251 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.75, ave o2scale2 = 0.755" [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 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "252 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:14:16 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:14:16 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:14:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:14:36 MDT" [1] "reading in recalculated plot titles" [1] "Removed 252 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1184 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:14:49 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 = -448.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.386 co2off = 383.26 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 7.87 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.02 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 4 [3,] 5 6 [4,] 7 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 31 37 0.02545822 0.02963079 0.02823975 2 69.59474 47.08912 3 2 38 46 0.03032639 0.03658912 0.03430387 2 -12.38495 201.86523 5 2 270 273 0.23417827 0.23626510 0.23591727 2 -11.62881 206.95949 6 4 274 277 0.23974598 0.24183226 0.24148451 2 69.28866 44.83161 10 4 440 444 0.44084838 0.44711117 0.44641575 2 69.30944 50.39133 11 2 445 450 0.44780671 0.45407023 0.45302704 2 -10.97687 205.76300 13 2 717 726 0.64961244 0.65587543 0.65343897 3 -10.56070 205.07096 14 4 727 736 0.65657089 0.66283084 0.66039610 3 69.33485 46.72310 15 3 737 746 0.66352619 0.66979019 0.66874417 3 41.86657 112.71335 17 4 994 1002 0.85834609 0.86460932 0.86202409 2 69.57572 47.35860 18 2 1003 1012 0.86530472 0.87156756 0.86913175 2 -10.78026 207.96869 19 5 1013 1020 0.87296580 0.87852928 0.87818161 NA 31.96331 100.62232 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.336050 1.327235 0.009822959 1.875123e+00 0.016132472 3.532204 3 1.336207 1.327440 -0.006822477 5.478371e-01 0.020823449 3.970245 5 1.332548 1.323479 -0.008110806 3.955571e+00 0.005745243 2.801906 6 1.332129 1.323089 0.009173358 1.521855e+00 0.006496544 1.077773 10 1.332376 1.323346 0.009325097 3.015858e+00 0.009357069 3.020005 11 1.332531 1.323487 -0.021106279 -1.851858e+00 0.029167396 3.382739 13 1.332615 1.322619 -0.006530074 -2.123789e-01 0.016320398 2.504490 14 1.332477 1.322521 0.011334413 -2.470017e-01 0.031793645 2.381850 15 1.332520 1.322576 0.005403113 -2.740231e+00 0.015714083 3.998756 17 1.334686 1.324930 -0.001687721 1.247290e+00 0.006404843 4.011063 18 1.334648 1.324901 -0.008933469 3.483775e-02 0.025579761 3.564990 19 1.334124 1.324343 -0.116900940 2.020310e-14 0.082819882 0.000000 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.657 co2l1 = 0.385 co2l0 = 0.079" [1] "co2l0 = -122.98 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "10 out of 10 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1026 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "0 out of 1026 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"