[1] "2025-04-30 01:26:44 MDT" [1] "1605" "160531" "d152" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160531a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 56021 63 [1] 56021 [1] 56021 [1] "testing skipping spike filter" [1] 56021 [1] 56021 [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 01:26:47 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.929, ave o2scale2 = 0.789" [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] "42 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.929, ave o2scale2 = 0.789" [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] "44 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:26:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:26:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:26:52 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:26:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 44 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 4 row(s) with low FLWTA" [1] "Removed 17 row(s) with variable TFCELL" [1] "Removed 1 row(s) with LiCO2A spikes in them" [1] "TEMP: 866 0 TRUE" [1] "Removed 144 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:26:55 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 = -522.7" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.944 co2off = 396.92 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.01 minutes" [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 4 2 251 260 0.1804595 0.1867187 0.1842846 3 -12.932773 260.2710 5 4 261 270 0.1874144 0.1936736 0.1912393 3 9.887055 142.3859 6 3 271 280 0.1943689 0.2006285 0.1995851 3 -3.721352 231.6529 10 4 551 560 0.3891204 0.3953797 0.3929458 2 9.875273 132.9999 11 2 561 570 0.3960753 0.4023345 0.3999003 2 -12.954430 250.3357 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 4 1.075804 1.266615 -0.0003039987 2.2285772 0.004904323 12.508247 5 1.075697 1.266487 0.0007302174 -1.9672747 0.003330801 10.336310 6 1.075748 1.266519 0.0004852011 6.9125869 0.002232806 9.225735 10 1.074277 1.265067 0.0014049280 0.5992731 0.005431076 6.200127 11 1.074612 1.265398 -0.0038597070 -0.1093449 0.010570894 1.015254 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 396.861 co2l1 = 0.942 co2l0 = -0.036" [1] "co2l0 = -146.36 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "69 out of 225 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "156 out of 647 1-min values rejected as stack air" [1] "138 out of 476 Line 1 1-min values rejected as stack air" [1] "18 out of 171 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"