[1] "2025-04-29 17:22:43 MDT" [1] "1212" "121122" "d327" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121122a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 67582 63 [1] 67582 [1] 67582 [1] "testing skipping spike filter" [1] 67582 [1] 67582 [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 17:22:47 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.78" [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] "180 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.78" [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] "180 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:22:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:22:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:23:07 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:23:08 MDT" [1] "reading in recalculated plot titles" [1] "Removed 181 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 945 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:23:17 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 = -449.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.409 co2off = 371.89 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.48 minutes" [1] "Shortest Cal: 7.01 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 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 128 134 0.1360093 0.1422723 0.1404615 2 69.275971 41.18636 4 2 135 143 0.1436632 0.1492304 0.1471422 2 -6.179821 205.55385 7 2 386 393 0.3454588 0.3510274 0.3492858 3 -6.400897 205.33899 8 4 394 403 0.3517227 0.3579861 0.3555502 3 69.512922 43.80109 10 3 413 417 0.3670342 0.3719023 0.3730637 3 43.449327 125.23741 13 4 644 653 0.5535301 0.5597929 0.5573562 2 69.649789 41.49363 14 2 654 663 0.5604884 0.5667512 0.5643140 2 -6.427172 200.18967 17 2 916 924 0.7629719 0.7685726 0.7664693 3 -6.580741 198.72748 18 4 925 934 0.7692716 0.7755315 0.7730971 3 69.865187 44.42638 19 3 935 944 0.7762273 0.7824907 0.7814474 3 43.612648 114.26612 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.293382 1.276308 -6.480709e-03 -0.8053371 0.018466771 2.853290 4 1.293807 1.276858 9.770911e-05 -0.5148104 0.004283178 4.682489 7 1.299410 1.282770 -9.667304e-04 3.0151097 0.011975703 7.455577 8 1.299588 1.283001 4.058291e-03 0.6744441 0.013597275 2.359352 10 1.299933 1.283405 2.265666e-03 11.1083614 0.006482517 19.557059 13 1.305047 1.288894 1.625958e-03 0.4539836 0.006215075 7.865422 14 1.305318 1.289235 9.778891e-05 1.3155238 0.007331116 5.818217 17 1.305325 1.289170 3.372197e-03 -2.1556240 0.008408471 5.268006 18 1.305204 1.289025 -8.127279e-04 -0.7117995 0.013532946 2.074255 19 1.305157 1.288989 6.808209e-03 2.9392274 0.017108665 4.759733 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 376.958 co2l1 = 0.409 co2l0 = 0.03" [1] "co2l0 = -122.24 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "46 out of 102 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "56 out of 817 1-min values rejected as stack air" [1] "0 out of 719 Line 1 1-min values rejected as stack air" [1] "56 out of 98 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"