[1] "2025-04-30 02:01:42 MDT" [1] "1612" "161204" "d339" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/161204a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 57360 63 [1] 57360 [1] 57360 [1] "testing skipping spike filter" [1] 57360 [1] 57360 [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 02:01:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.02, ave o2scale2 = 0.83" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "52 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.02, ave o2scale2 = 0.83" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "52 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:01:45 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:01:45 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:01:50 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:01:51 MDT" [1] "reading in recalculated plot titles" [1] "Removed 53 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 902 273 TRUE" [1] "Removed 273 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:01:53 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 = 1.051 co2off = 420.55 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.34 minutes" [1] "Average Cal: 8.18 minutes" [1] "Shortest Cal: 7.31 minutes" [1] "Longest Cal: 8.4 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 97 105 0.6086019 0.6143854 0.6122164 3 -37.31735 229.5137 0.9805194 3 4 106 114 0.6151321 0.6209660 0.6187809 3 -14.79977 111.7344 0.9804912 4 3 115 122 0.6216896 0.6267646 0.6264063 3 -27.92792 212.8736 0.9804153 6 4 379 387 0.8166717 0.8224670 0.8202845 2 -11.01146 111.3143 0.9823631 7 2 388 396 0.8231896 0.8290250 0.8268429 2 -33.26101 226.9432 0.9824103 jfcv2 co2slp o2slp co2sd o2sd 2 1.205053 0.022493081 -0.85586449 0.05081297 3.7583677 3 1.204903 0.025156673 0.96851771 0.05741562 5.9953125 4 1.204790 0.017144775 0.45617907 0.03384724 0.3328088 6 1.205886 0.006422316 1.01824961 0.01511147 5.0186592 7 1.205987 0.004276939 -0.04112338 0.01070110 1.2229044 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 418.556 co2l1 = 0.963 co2l0 = 1.224" [1] "co2l0 = -140.54 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "124 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "21 out of 544 1-min values rejected as stack air" [1] "21 out of 544 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"