[1] "2025-04-29 19:01:41 MDT" [1] "1306" "130618" "d169" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130618a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85440 63 [1] 85440 [1] 85440 [1] "testing skipping spike filter" [1] 85440 [1] 85440 [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 19:01:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.775, ave o2scale2 = 0.718" [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] "3 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.775, ave o2scale2 = 0.718" [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] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:01:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:01:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:02:07 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:02:08 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1420 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:02:24 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -447.7" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.301 co2off = 381.22 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.13 minutes" [1] "Average Cal: 9.09 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.15 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,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 31 40 0.02183168 0.02809144 0.02565714 3 -22.61484 249.12394 3 4 41 50 0.02878704 0.03504977 0.03261370 3 45.87227 158.10496 4 5 51 60 0.03574537 0.04200816 0.04096306 NA 35.00025 136.11835 5 3 61 70 0.04270373 0.04896693 0.04792084 3 81.61039 84.10665 8 4 331 340 0.23083218 0.23712465 0.23467830 2 45.87437 157.20652 9 2 341 350 0.23782402 0.24411348 0.24166687 2 -22.66240 245.94655 12 2 627 636 0.43924945 0.44560341 0.44313417 3 -22.99146 250.57327 13 4 637 646 0.44631366 0.45265041 0.45018826 3 45.70532 161.38221 14 3 647 656 0.45335307 0.45970174 0.45864599 3 81.69552 88.07010 16 4 923 932 0.64797975 0.65432176 0.65185533 2 45.82601 159.16127 17 2 933 942 0.65502668 0.66137269 0.65890654 2 -23.11521 249.36510 18 5 943 952 0.66207755 0.66841785 0.66736122 NA 35.70466 138.02971 22 2 1219 1228 0.85674751 0.86309251 0.86062294 3 -22.29127 246.43871 23 4 1229 1238 0.86379829 0.87014120 0.86767472 3 46.22880 160.77670 24 3 1239 1248 0.87084635 0.87719106 0.87613367 3 81.97654 85.03278 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.284750 1.386654 0.0084957996 -1.103041965 0.023815393 3.2023660 3 1.284883 1.386795 0.0090108703 0.327825976 0.026504038 1.5158681 4 1.285078 1.387003 -0.0676626025 0.879024543 0.047906484 1.5411943 5 1.285055 1.387103 0.0063097286 -2.920138971 0.015709157 3.9674533 8 1.287798 1.390085 -0.0068600028 0.611380204 0.025379649 3.8507940 9 1.287724 1.390019 0.0102093496 0.230279734 0.027790650 1.6004556 12 1.290503 1.392871 -0.0088180406 -0.007849471 0.026678809 2.3907180 13 1.290484 1.392854 -0.0008352574 -0.055270259 0.007682485 4.6174014 14 1.290503 1.392870 0.0092742452 3.061354323 0.024025186 4.2258614 16 1.292221 1.394737 -0.0154678409 0.189615626 0.042368329 1.6152129 17 1.292427 1.394945 -0.0139861068 -0.597827972 0.043349853 2.1023734 18 1.292332 1.394903 -0.0831176833 -1.057988743 0.059617940 1.5909754 22 1.292390 1.394915 -0.0001694421 -1.172894165 0.010955661 6.5928041 23 1.292263 1.394871 0.0073171557 1.478618278 0.023571070 4.2113150 24 1.292019 1.394610 -0.0030355114 -0.377437007 0.015480004 0.9519418 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.145 co2l1 = 0.299 co2l0 = 0.141" [1] "co2l0 = -131.58 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "122 out of 590 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "468 out of 1205 1-min values rejected as stack air" [1] "220 out of 428 Line 1 1-min values rejected as stack air" [1] "248 out of 777 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"