[1] "2025-04-29 21:13:33 MDT" [1] "1404" "140509" "d129" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140509a.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] "2025-04-29 21:13:37 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.74" [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] "283 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.74" [1] "Removing 1 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] "285 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 21:13:38 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:13:38 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:13:50 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:13:52 MDT" [1] "reading in recalculated plot titles" [1] "Removed 285 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1151 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:13:55 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 = 0.417 co2off = 362.04 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 6.75 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 3 [3,] 4 6 [4,] 7 8 [5,] 9 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 87 92 0.08666782 0.09014902 0.08910582 2 75.616125 131.0956 5 3 101 109 0.09920197 0.10476609 0.10407055 2 52.648063 208.0062 7 4 293 296 0.28639612 0.29267480 0.29232616 1 75.388344 137.0566 10 2 509 514 0.49521186 0.50147917 0.49904191 3 9.198922 268.7936 11 4 515 524 0.50217477 0.50843773 0.50600116 3 75.280164 129.6390 12 3 525 534 0.50913316 0.51539340 0.51434954 3 52.593516 214.3432 14 4 748 753 0.70680466 0.71028220 0.70923898 2 75.196234 133.6214 15 2 754 762 0.71097749 0.71654167 0.71445519 2 9.219313 271.6574 18 2 1026 1035 0.91278513 0.91904823 0.91661064 3 9.208547 269.9749 19 4 1036 1045 0.91974363 0.92600353 0.92356872 3 75.299383 133.0908 20 3 1046 1055 0.92670220 0.93296100 0.93191803 3 52.625719 215.5944 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.236275 1.358143 -2.420897e-03 2.425675e+00 0.008109280 3.4962875 5 1.235221 1.356870 1.716357e-04 1.976750e+00 0.004661595 1.9801967 7 1.231301 1.352760 1.525023e-02 1.249982e-14 0.010827573 0.0000000 10 1.228698 1.350070 -3.333763e-03 -1.463148e-01 0.011985383 0.8132262 11 1.228061 1.349361 3.866085e-03 1.119295e+00 0.013347892 4.3878493 12 1.228243 1.349593 1.349264e-03 -8.222077e-01 0.005138565 3.1708021 14 1.226962 1.348086 -2.714668e-03 -2.608517e+00 0.005651414 3.4449145 15 1.227217 1.348421 -1.411222e-02 1.662772e+00 0.034194679 4.3173366 18 1.229875 1.351278 7.280051e-03 -7.631438e-01 0.018249014 4.3229330 19 1.229532 1.350897 3.793023e-05 3.399425e-01 0.010184977 3.0337563 20 1.229597 1.350980 -4.902114e-03 3.669857e+00 0.012941705 5.0576737 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 373.104 co2l1 = 0.413 co2l0 = -0.212" [1] "co2l0 = -143.85 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "115 out of 465 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "350 out of 988 1-min values rejected as stack air" [1] "350 out of 988 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"