[1] "2025-04-29 17:27:49 MDT" [1] "1213A" "121212" "d347" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121212a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 17:27:53 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.786" [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] "21 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.777, ave o2scale2 = 0.786" [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] "21 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:27:53 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:27:53 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:28:09 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:28:10 MDT" [1] "reading in recalculated plot titles" [1] "Removed 21 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 217 row(s) with high TFRIDGE" [1] "Removed 36 row(s) with variable TFCELL" [1] "TEMP: 1160 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:28:22 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 = -449.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.9" [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 = 0.378 co2off = 385.51 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.82 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 8 0.001248843 0.006117998 0.004378525 2 68.28306 33.96199 2 2 9 18 0.006816262 0.013075347 0.010641352 2 -14.16869 200.73491 3 5 19 28 0.013770920 0.020031742 0.018987862 NA 30.96800 89.07819 5 2 297 306 0.208593634 0.214854543 0.212418656 3 -14.46675 199.31529 6 4 307 316 0.215551852 0.221810706 0.219376660 3 67.63172 42.66929 7 3 317 326 0.222506047 0.228768721 0.227725731 3 39.42462 106.66607 9 4 596 604 0.416942188 0.423201389 0.420816985 2 67.22094 46.43167 10 2 605 614 0.423896991 0.430159722 0.427725647 2 -14.87180 204.53356 12 4 923 932 0.834675434 0.840938108 0.838503161 2 68.25875 42.40650 13 2 933 942 0.841633478 0.847896123 0.845461816 2 -14.14395 202.25395 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.279926 1.264601 -0.008282448 -2.98141698 0.01768399 9.353884 2 1.279971 1.264628 -0.016332863 2.39729889 0.04277759 7.226106 3 1.280004 1.264688 0.069051477 3.80258952 0.04896714 4.926443 5 1.281088 1.266057 0.014991151 -0.29753952 0.03764850 2.948193 6 1.280954 1.265906 0.002618168 -0.54395678 0.01228444 2.183763 7 1.280700 1.265631 0.003386400 0.33773495 0.01290742 2.529750 9 1.283489 1.268532 0.001434626 0.08880746 0.00891783 5.693889 10 1.283617 1.268699 -0.010905969 0.47799674 0.02994530 5.915929 12 1.293853 1.278773 -0.013571543 -0.18941976 0.03416439 3.285315 13 1.294156 1.279034 -0.004750085 -0.61673133 0.01553440 4.552520 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.766 co2l1 = 0.377 co2l0 = 0.113" [1] "co2l0 = -121.55 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "88 out of 170 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "82 out of 1023 1-min values rejected as stack air" [1] "82 out of 1023 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"