[1] "2025-04-29 21:45:27 MDT" [1] "1406" "140805" "d217" Read 2 records [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140805a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 57103 63 [1] 57103 [1] 57103 [1] "testing skipping spike filter" [1] 57103 [1] 57103 [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 21:45:30 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.742" [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] "5 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.824, ave o2scale2 = 0.742" [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] "5 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:45:30 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:45:30 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:45:37 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:45:38 MDT" [1] "reading in recalculated plot titles" [1] "Removed 5 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "Removed 263 manually filtered row(s) from a screenline1 period" [1] "TEMP: 681 0 TRUE" [1] "Removed 510 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:45:40 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.473 co2off = 386.29 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.08 minutes" [1] "Average Cal: 9.38 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 10.79 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 5 6 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 3 1 10 0.7002937 0.7065955 0.7055463 3 18.38384 214.1495 1.215889 2 2 11 20 0.7072932 0.7136019 0.7111482 3 -20.14712 281.1896 1.216179 3 4 21 30 0.7142972 0.7217923 0.7184787 3 38.31498 140.9114 1.216386 4 5 31 40 0.7226801 0.7291281 0.7280826 NA 16.11950 195.2605 1.216379 5 4 41 50 0.9092512 0.9155105 0.9130761 2 38.22595 135.4692 1.214900 6 2 51 60 0.9162061 0.9224653 0.9200311 2 -20.19592 280.7661 1.215066 jfcv2 co2slp o2slp co2sd o2sd 1 1.353786 0.0046173252 -6.3703793 0.013028083 8.586556 2 1.354115 0.0049217586 -3.1050001 0.013834400 9.292875 3 1.354358 0.0094711126 -3.7988081 0.033076088 13.011659 4 1.354349 -0.0039945076 -6.1224619 0.002828427 8.802506 5 1.352580 -0.0056461525 -0.3416014 0.016601983 1.519981 6 1.352743 0.0004474165 0.6105646 0.008097946 2.098247 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.176 co2l1 = 0.473 co2l0 = 0.123" [1] "co2l0 = -144.42 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "0 out of 0 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 106 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 106 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"