[1] "2025-04-29 22:15:34 MDT" [1] "1409" "141019" "d292" Read 2 records [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141019a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85187 63 [1] 85187 [1] 85187 [1] "testing skipping spike filter" [1] 85187 [1] 85187 [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 22:15:38 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.811, ave o2scale2 = 0.732" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "26 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.811, ave o2scale2 = 0.732" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "26 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:15:38 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:15:38 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:15:49 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:15:50 MDT" [1] "reading in recalculated plot titles" [1] "Removed 26 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 210 manually filtered row(s) from a calbreak period" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 1181 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:15:54 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.479 co2off = 389.94 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.86 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 10 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 116 125 0.08143756 0.08769748 0.08526321 2 24.667141 148.2954 3 2 126 134 0.08839285 0.09465275 0.09216849 2 -32.979012 290.4009 5 2 415 424 0.29016551 0.29642581 0.29399085 3 -32.970094 289.2056 6 4 425 434 0.29712118 0.30338426 0.30094726 3 24.658953 146.6578 7 5 435 444 0.30407980 0.31034262 0.30929945 NA 2.771344 184.5959 8 3 445 454 0.31103819 0.31730113 0.31625808 3 5.206289 218.2236 10 4 712 721 0.49884401 0.50510680 0.50267235 2 24.712406 137.1144 11 2 722 731 0.50580214 0.51206155 0.50962741 2 -32.918375 285.0733 13 2 743 749 0.69083458 0.69570260 0.69431200 2 -53.984398 535.4736 14 4 750 759 0.69639818 0.70265767 0.70022337 2 2.283375 408.1111 15 5 760 769 0.70335313 0.70961227 0.70856904 NA -19.799438 440.2303 17 4 1030 1039 0.89118539 0.89744528 0.89501098 2 2.172469 377.7407 18 2 1040 1049 0.89814074 0.90440012 0.90196582 2 -54.127180 529.1491 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.232295 1.366757 -0.0023117738 2.769417016 0.007318774 11.803835 3 1.232451 1.367099 -0.0116370474 0.289165319 0.031670558 13.700567 5 1.234641 1.368806 -0.0021960228 4.491496802 0.010731504 12.144503 6 1.234678 1.368828 0.0068270942 0.789792037 0.016917498 2.375022 7 1.235004 1.369301 -0.0089233713 -4.094819031 0.006319767 5.464113 8 1.234985 1.369384 0.0012884904 -0.227528580 0.006225034 4.671815 10 1.237103 1.369892 0.0017432840 1.943480903 0.008267230 12.442475 11 1.237004 1.369892 -0.0043388925 0.008778968 0.013389970 7.394043 13 1.232038 1.366509 0.0015018974 9.188563185 0.003795787 19.933065 14 1.232467 1.366732 -0.0002081385 4.903775360 0.006836173 25.514111 15 1.232772 1.366859 -0.0141020841 -2.814331834 0.009987883 8.839304 17 1.229478 1.363605 -0.0016016181 -2.060404267 0.005015489 7.398532 18 1.229542 1.363630 -0.0061427108 -0.469311430 0.016225787 4.192580 [1] "Broke calibration interpolation before 0.52 and after 0.69" [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 396.992 co2l1 = 0.484 co2l0 = 0.059" [1] "co2l0 = -171.45 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "5 out of 5 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1008 1-min values rejected as stack air" [1] "0 out of 1008 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"