[1] "2025-04-30 02:15:27 MDT" [1] "1701" "170116" "d016" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170116a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 74838 63 [1] 74838 [1] 74838 [1] "testing skipping spike filter" [1] 74838 [1] 74838 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 02:15:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.052, ave o2scale2 = 0.855" [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] "30 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.052, ave o2scale2 = 0.855" [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] "30 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:15:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:15:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:15:37 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:15:38 MDT" [1] "reading in recalculated plot titles" [1] "Removed 30 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 1215 183 TRUE" [1] "Removed 183 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:15:40 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.975 co2off = 427.87 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.33 minutes" [1] "Average Cal: 8.25 minutes" [1] "Shortest Cal: 5.2 minutes" [1] "Longest Cal: 9.43 minutes" [1] "Removed 2 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 8 [4,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 191 199 0.1374358 0.1431340 0.1409989 3 -39.79531 225.6099 3 4 200 208 0.1438449 0.1495730 0.1474298 3 -17.47934 110.5807 4 3 209 217 0.1502825 0.1559797 0.1552610 3 -30.83833 217.8538 6 4 480 488 0.3453360 0.3511212 0.3489574 2 -17.47672 129.6307 7 2 489 497 0.3518418 0.3576665 0.3554730 2 -39.79202 227.7325 10 2 767 775 0.5532954 0.5591139 0.5569263 3 -39.45198 226.3658 11 4 776 783 0.5598370 0.5656330 0.5634580 3 -17.13284 110.2439 12 3 784 791 0.5663515 0.5714992 0.5711265 3 -30.46592 207.6708 14 3 960 963 0.9110162 0.9146288 0.9157139 3 -30.44185 232.9687 15 2 964 973 0.9153476 0.9218727 0.9193462 3 -39.35982 232.8127 16 4 974 983 0.9225827 0.9290994 0.9265417 3 -16.91905 107.1369 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9509906 1.170618 -0.0015136688 -0.004577836 0.005202914 12.296360 3 0.9508907 1.170470 0.0024682807 -2.735393216 0.007344912 7.879956 4 0.9509228 1.170568 -0.0019321037 4.177219274 0.005267915 4.599287 6 0.9505595 1.170041 0.0026993642 1.369639160 0.006506893 21.903167 7 0.9506282 1.170067 -0.0015960244 0.084765711 0.004064697 2.460558 10 0.9507452 1.170212 -0.0006521852 -0.269624635 0.003372436 3.810479 11 0.9506022 1.170147 0.0038600607 -2.951113383 0.010174776 9.631285 12 0.9507096 1.170226 -0.0022964723 -5.958208618 0.005071622 4.522050 14 0.9509266 1.169907 0.0067291801 -5.184379339 0.004918443 9.114659 15 0.9510060 1.170232 0.0066192188 1.361811511 0.017433433 7.682156 16 0.9509492 1.170425 0.0112068802 -4.016097002 0.030447562 11.455244 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 422.773 co2l1 = 0.962 co2l0 = -0.085" [1] "co2l0 = -141.73 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "30 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "115 out of 858 1-min values rejected as stack air" [1] "115 out of 858 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"