[1] "2025-04-30 01:29:46 MDT" [1] "1605" "160607" "d159" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160607a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 01:29:50 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.932, 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] "45 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.932, 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 0 RC FC 2 jog(s) with SP SD > 1000" [1] "45 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:29:51 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:29:51 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:30:09 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:30:11 MDT" [1] "reading in recalculated plot titles" [1] "Removed 45 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1391 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:30:14 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 = 0.947 co2off = 398.51 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: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 103 112 0.07185058 0.07811366 0.07567866 3 -18.495266 208.87732 3 4 113 122 0.07880911 0.08506910 0.08263478 3 4.221805 92.08510 4 5 123 132 0.08576444 0.09202431 0.09098092 NA -8.613156 163.88142 5 3 133 142 0.09271965 0.09897922 0.09793579 3 -9.336313 196.48938 7 4 403 412 0.28055639 0.28681597 0.28438154 2 4.197508 91.41878 8 2 413 422 0.28751143 0.29377098 0.29133649 2 -18.508117 204.67296 12 2 691 700 0.48925049 0.49551360 0.49307945 3 -18.519469 206.41226 13 4 701 710 0.49620894 0.50246875 0.50003424 3 4.180484 95.84736 14 3 711 719 0.50316429 0.50942708 0.50873148 3 -9.396478 194.76438 16 4 973 982 0.69791319 0.70417292 0.70173881 2 4.154688 96.02587 17 2 983 991 0.70486823 0.71112798 0.70884269 2 -18.549317 214.41392 20 2 1258 1267 0.90660417 0.91286331 0.91042901 3 -18.571320 206.22209 21 4 1268 1277 0.91355877 0.91981832 0.91738403 3 4.147187 90.12761 22 3 1278 1287 0.92051389 0.92677321 0.92572988 3 -9.424766 195.64100 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.074527 1.269864 -1.676943e-05 0.8273115 0.001653173 2.325066 3 1.074537 1.269876 2.755279e-03 1.5319328 0.007915601 4.112952 4 1.074432 1.269754 2.807820e-03 -0.3955394 0.001988738 2.140807 5 1.074372 1.269699 -1.396557e-03 2.3222861 0.005184541 3.235018 7 1.073598 1.269003 2.033217e-03 -1.5334918 0.006083995 4.047515 8 1.073783 1.269203 -1.624563e-03 0.3131064 0.005720171 3.160402 12 1.073418 1.268766 -1.430936e-03 -0.8370258 0.004311529 2.477355 13 1.073260 1.268580 9.404037e-04 1.7678524 0.003253046 4.456952 14 1.073097 1.268491 -1.130693e-03 3.6416298 0.006101168 3.647699 16 1.071236 1.266429 2.757581e-03 0.6382471 0.007316810 2.132483 17 1.071205 1.266434 -1.361795e-04 -0.3263447 0.003539583 2.962673 20 1.069846 1.264916 -2.235909e-04 0.4516072 0.002199949 2.111862 21 1.069532 1.264561 -4.755683e-04 -0.4879318 0.004334764 1.671733 22 1.069414 1.264431 -1.386403e-03 1.4410028 0.003815609 1.948110 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 402.215 co2l1 = 0.947 co2l0 = -0.009" [1] "co2l0 = -136.8 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "24 out of 305 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "281 out of 1205 1-min values rejected as stack air" [1] "194 out of 1042 Line 1 1-min values rejected as stack air" [1] "87 out of 163 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"