[1] "2025-04-30 01:08:58 MDT" [1] "1601" "160127" "d027" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160127a.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] "2025-04-30 01:09:02 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.893, 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 1 MR FC 2 jog(s) with SP SD > 1000" [1] "35 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.893, ave o2scale2 = 0.789" [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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "35 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:09:02 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:09:02 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:09:20 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:09:21 MDT" [1] "reading in recalculated plot titles" [1] "Removed 35 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1398 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:09:24 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 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [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 = 0.947 co2off = 404.81 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.03 minutes" [1] "Average Cal: 9.03 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 124 133 0.1024699 0.1087293 0.1062950 2 1.359883 380.3274 3 2 134 143 0.1094248 0.1156859 0.1132501 2 -21.342625 503.0956 5 2 419 428 0.3109959 0.3172733 0.3148333 3 -21.235797 496.8192 6 4 429 438 0.3179711 0.3242454 0.3218054 3 1.479695 381.1998 7 3 439 448 0.3249433 0.3312165 0.3301709 3 -12.083563 490.3321 9 4 717 726 0.5195116 0.5257852 0.5233449 2 1.519000 380.5865 10 2 727 736 0.5264826 0.5327615 0.5303205 2 -21.197883 495.4199 12 2 1009 1018 0.7280232 0.7342975 0.7318576 3 -21.208352 496.1840 13 4 1019 1028 0.7349954 0.7412686 0.7388292 3 1.513086 382.2103 14 5 1029 1038 0.7419664 0.7482396 0.7471941 NA -11.441281 458.6373 15 3 1039 1048 0.7489375 0.7552106 0.7541653 3 -12.046023 467.2473 17 4 1308 1317 0.9365694 0.9428461 0.9404048 2 1.475664 378.0204 18 2 1318 1327 0.9435433 0.9498174 0.9473775 2 -21.218469 501.1288 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.111920 1.257986 0.0020557248 3.36718628 0.005631686 9.3571248 3 1.112073 1.258168 -0.0014783159 0.37605703 0.004221676 2.3549825 5 1.118957 1.266192 0.0001851627 -0.22494277 0.002580349 2.5919371 6 1.119029 1.266247 0.0034532170 1.48086695 0.009447838 3.9646791 7 1.119266 1.266489 0.0007679453 -0.04631936 0.003181981 0.6243884 9 1.121441 1.269076 0.0002874712 0.74547446 0.002732901 3.6605038 10 1.121646 1.269310 -0.0007012332 1.68968936 0.004218692 4.2658931 12 1.124265 1.272141 0.0007240236 -0.47891637 0.003191950 2.5766990 13 1.124164 1.272066 0.0040575561 2.10461499 0.010985326 5.3321211 14 1.124213 1.272102 -0.0034259375 1.66910709 0.002430680 2.1745612 15 1.124314 1.272090 -0.0009688726 -11.81201052 0.003714255 16.6580973 17 1.124799 1.273094 0.0022271140 2.35667111 0.005838597 7.2943631 18 1.124869 1.273194 -0.0003705934 2.14963994 0.004423456 8.6283807 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 404.786 co2l1 = 0.947 co2l0 = 0.001" [1] "co2l0 = -198.45 co2l1 = 0.216" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "35 out of 115 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "80 out of 1231 1-min values rejected as stack air" [1] "80 out of 1231 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"