[1] "2025-04-29 20:01:43 MDT" [1] "1312" "131211" "d345" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131211a.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 20:01:47 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.739" [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] "75 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.739" [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] "75 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:01:48 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:01:48 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:01:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:01:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 75 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 230 row(s) with low FLSP" [1] "Removed 5 row(s) with high TFRIDGE" [1] "Removed 64 row(s) with variable TFCELL" [1] "TEMP: 1061 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:02:03 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 = -446.3" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.437 co2off = 392.01 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 6.68 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 206 214 0.3718058 0.3773703 0.3752837 2 29.60664 208.8587 1.234463 3 2 215 223 0.3780656 0.3836312 0.3815435 2 -18.02914 298.1319 1.234543 5 2 497 505 0.5805394 0.5861048 0.5840179 3 -17.72104 296.3454 1.231992 6 4 506 515 0.5868003 0.5930595 0.5906254 3 29.57045 215.4911 1.231522 7 3 516 524 0.5937549 0.5993192 0.5986236 3 54.37438 131.9574 1.231518 9 4 781 786 0.7902257 0.7937027 0.7926596 2 29.61711 227.5768 1.227213 10 2 787 795 0.7943982 0.7999619 0.7978757 2 -17.48582 298.3501 1.227070 13 2 1058 1061 0.9975248 0.9996121 0.9992644 1 -16.92653 297.3907 1.221621 jfcv2 co2slp o2slp co2sd o2sd 2 1.357764 -0.0032252790 -0.1145886 0.008861471 2.6599536 3 1.357765 -0.0007967118 -0.4900843 0.008187080 2.1778483 5 1.355032 -0.0039638383 -0.3902047 0.010273085 2.5943611 6 1.354466 0.0004257828 2.5627920 0.005597297 7.7603467 7 1.354459 -0.0003409447 2.4227353 0.009807020 2.4413661 9 1.350186 -0.0013544503 17.1555482 0.002803632 22.8800116 10 1.349989 -0.0108486822 3.2611044 0.023963308 7.9044979 13 1.344240 0.0080507593 1.2574748 0.005701048 0.8904657 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.971 co2l1 = 0.436 co2l0 = 0.176" [1] "co2l0 = -151.98 co2l1 = 0.254" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "9 out of 55 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "46 out of 955 1-min values rejected as stack air" [1] "46 out of 955 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"