[1] "2025-04-29 18:44:47 MDT" [1] "1305" "130520" "d140" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130520a.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 18:44:51 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.773, ave o2scale2 = 0.775" [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] "402 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.773, ave o2scale2 = 0.775" [1] "Removing 0 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "402 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:44:51 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:44:51 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:45:10 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:45:12 MDT" [1] "reading in recalculated plot titles" [1] "Removed 402 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1034 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:45:23 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 = -447.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.6" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.348 co2off = 398.27 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 7.35 minutes" [1] "Shortest Cal: 2.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 8 [4,] 9 10 [5,] 11 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 67 74 0.06198579 0.06685767 0.06511633 3 -25.29235 239.92021 3 4 75 78 0.07172975 0.07451157 0.07416382 3 64.00842 84.61372 4 3 79 87 0.07590278 0.08216800 0.08147093 3 33.43958 150.29259 6 4 268 274 0.27077512 0.27494907 0.27355785 2 63.98516 82.48808 7 2 275 283 0.27773608 0.28400032 0.28171153 2 -25.13747 242.11923 8 5 284 293 0.28469598 0.29095660 0.28991313 NA 22.98344 135.73422 10 2 541 548 0.47955463 0.48512228 0.48326707 2 -25.00681 246.30899 12 3 552 559 0.49347164 0.49903935 0.49869155 2 33.62020 156.01859 14 4 724 729 0.68987303 0.69474152 0.69335058 2 64.08302 81.34325 15 2 730 739 0.69543683 0.70169673 0.69926224 2 -25.25891 241.77366 17 2 891 900 0.89722520 0.90348495 0.90105059 3 -24.35907 245.85249 18 4 901 906 0.90696594 0.91044329 0.90939992 3 64.03786 84.19969 19 5 907 916 0.91113877 0.91740188 0.91635828 NA 26.08694 135.86611 20 3 917 926 0.91811241 0.92437616 0.92333192 3 33.49765 155.52158 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.296714 1.293646 -0.004720740 8.922380e-01 0.010463379 3.5497011 3 1.297098 1.294057 -0.008070891 2.056586e-14 0.005715780 0.0000000 4 1.297396 1.294429 0.014036049 1.205588e-01 0.035351838 0.5060058 6 1.297278 1.294191 -0.002907492 1.950098e-02 0.007430879 1.6190348 7 1.297711 1.294739 -0.023383752 -1.069558e+00 0.061873071 3.3292231 8 1.297636 1.294617 -0.101697030 -1.526621e+00 0.072036503 2.1358316 10 1.294824 1.291551 0.013575548 -7.499616e-01 0.029913737 2.9918923 12 1.293597 1.290326 0.003513187 7.469620e-01 0.008869156 0.5290622 14 1.289525 1.286074 0.001319423 -8.386339e-01 0.003400894 2.7489949 15 1.289906 1.286486 0.004660658 -2.163219e-01 0.021999594 2.2346511 17 1.287455 1.283768 -0.006751867 7.403354e-01 0.020559567 2.2643915 18 1.287746 1.284081 0.008991702 -7.624272e-01 0.012230466 1.1728429 19 1.288094 1.284462 0.032059545 5.717993e-01 0.022715805 2.6678039 20 1.288198 1.284584 0.008365533 4.933327e-01 0.021673973 1.4523997 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 383.079 co2l1 = 0.349 co2l0 = 0.189" [1] "co2l0 = -130.97 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "34 out of 165 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "131 out of 859 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "131 out of 859 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"