[1] "2025-04-29 17:26:55 MDT" [1] "1213" "121206" "d341" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121206a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 60196 63 [1] 60196 [1] 60196 [1] "testing skipping spike filter" [1] 60196 [1] 60196 [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 17:26:58 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.773, ave o2scale2 = 0.783" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "224 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.773, ave o2scale2 = 0.783" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 4 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 6 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "220 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:26:59 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:26:59 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:27:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:27:04 MDT" [1] "reading in recalculated plot titles" [1] "Removed 220 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 13 row(s) with low FLWTA" [1] "Removed 4 row(s) with variable TFCELL" [1] "TEMP: 736 0 TRUE" [1] "Removed 66 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:27:08 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 = -626" [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 = 0.334 co2off = 364.73 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.63 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 21.14 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 2 3 [2,] 4 6 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 5 5 12 0.02506597 0.03132523 0.03097745 NA 31.02025 105.59825 9 4 272 281 0.37123148 0.37749086 0.37505694 2 75.24755 43.75916 10 2 282 290 0.37818634 0.38444578 0.38206130 2 -17.48236 201.77861 12 2 548 557 0.58005211 0.58631134 0.58387726 3 -17.40305 201.04279 13 4 558 567 0.58700694 0.59328819 0.59085312 3 75.41260 44.34118 14 3 568 586 0.59403843 0.60872222 0.60352330 3 43.42033 114.95000 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.289354 1.273125 0.611256708 -0.8951745 0.43292613 0.6340125 9 1.293367 1.277412 0.003048045 0.2134900 0.01311044 2.7097297 10 1.293768 1.277838 0.001439887 1.5940795 0.02691236 5.6159567 12 1.295015 1.279784 0.028264517 0.3554196 0.06955448 2.9182857 13 1.295389 1.280148 -0.010737768 0.6004197 0.02963875 2.5257572 14 1.294553 1.279250 0.002709905 -0.2540257 0.03223860 3.1530775 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.186 co2l1 = 0.335 co2l0 = 0.136" [1] "co2l0 = -122.49 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "157 out of 184 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "27 out of 539 1-min values rejected as stack air" [1] "27 out of 539 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"