[1] "2025-04-29 21:13:08 MDT" [1] "1404" "140508" "d128" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140508a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86040 63 [1] 86040 [1] 86040 [1] "testing skipping spike filter" [1] 86040 [1] 86040 [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 21:13:12 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.801, ave o2scale2 = 0.729" [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] "135 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.801, ave o2scale2 = 0.729" [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] "134 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:13:12 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:13:12 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:13:24 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:13:25 MDT" [1] "reading in recalculated plot titles" [1] "Removed 134 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1298 4 TRUE" [1] "Removed 4 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:13:29 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 = -476.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.8" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634.2" [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 = 0.407 co2off = 377.73 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.32 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 47 56 0.03363035 0.03989308 0.03745635 2 76.210898 124.9449 3 2 57 66 0.04058854 0.04685185 0.04441582 2 8.089492 268.9230 5 2 340 349 0.24262457 0.24888773 0.24645241 3 8.089695 273.0841 6 4 350 359 0.24958325 0.25584262 0.25340842 3 76.165672 128.7746 7 3 360 369 0.25653819 0.26280136 0.26175830 3 52.866703 212.1661 9 4 640 649 0.45135749 0.45762040 0.45518403 2 76.124609 127.5566 10 2 650 658 0.45831597 0.46388319 0.46179542 2 8.226205 271.3277 11 5 659 666 0.46596991 0.47084181 0.47049411 NA 54.368000 228.0401 13 2 898 906 0.66009852 0.66636212 0.66427279 3 8.378288 269.7395 14 4 907 913 0.66705752 0.67332060 0.67192866 3 75.871565 131.1878 15 3 914 921 0.67540671 0.68027943 0.67993177 3 52.751573 211.3756 17 4 1132 1136 0.86886143 0.87234262 0.87164721 2 75.787338 129.4661 18 2 1137 1145 0.87582031 0.88207986 0.87979456 2 8.593629 270.5160 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.252991 1.376330 -0.0021906940 1.66967775 0.010791755 4.40003935 3 1.253017 1.376374 -0.0025887589 0.78819257 0.010187990 3.53413130 5 1.253381 1.376645 0.0044577526 -0.09388561 0.012927961 4.26702332 6 1.253329 1.376602 0.0064644285 1.27867319 0.022606833 4.16609136 7 1.253350 1.376620 0.0054462947 -1.69830720 0.015106126 2.35343135 9 1.251108 1.374124 0.0012002338 0.78336410 0.006191309 3.51057565 10 1.251181 1.374246 0.0009039257 1.70647997 0.009341030 4.44298165 11 1.252358 1.375430 -0.5449029631 4.71021720 1.158948014 3.33520613 13 1.246340 1.368882 0.0032533143 0.88699497 0.007230469 3.35328668 14 1.245820 1.368345 0.0016916053 0.76955358 0.009839431 5.37304885 15 1.245406 1.367963 -0.0013499562 -2.83817740 0.005175576 2.00940310 17 1.242853 1.365113 0.0031755419 -0.09316047 0.005054628 0.09328663 18 1.241833 1.364026 0.0032098226 0.57682442 0.012734204 2.23814690 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.264 co2l1 = 0.408 co2l0 = -0.172" [1] "co2l0 = -142.47 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "208 out of 772 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "564 out of 1127 1-min values rejected as stack air" [1] "564 out of 1127 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] "making html"