[1] "2025-04-29 16:41:43 MDT" [1] "1207" "120628" "d180" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120628a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 53440 63 [1] 53440 [1] 53440 [1] "testing skipping spike filter" [1] 53440 [1] 53440 [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 16:41:46 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.788" [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] "330 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.788" [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] "329 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:41:46 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:41:46 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:41:49 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:41:51 MDT" [1] "reading in recalculated plot titles" [1] "Removed 329 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 20 row(s) with low FLSP" [1] "TEMP: 540 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:41:53 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 = -450.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.4" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339495 description: WT1 CO2 = 394.28 O2 = -550.7" [1] "position 6 cylinder CC339490 description: WT2 CO2 = 396.42 O2 = -582.4" [1] "Nominal linear calibrations:" [1] "co2scl = 0.955 co2off = 397.92 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 6.01 minutes" [1] "Average Cal: 6.41 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 3 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 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 25 28 0.1273900 0.1294762 0.1291285 2 7.358844 -68.534074 3 2 29 33 0.1329536 0.1357350 0.1350396 2 -25.201208 88.406481 5 2 146 155 0.2484005 0.2546598 0.2522257 3 -24.876125 90.755561 6 4 156 162 0.2574420 0.2616146 0.2602235 3 7.624250 -68.364817 7 3 163 168 0.2623101 0.2657873 0.2675261 3 -3.250984 -1.088622 9 4 290 295 0.3735852 0.3798472 0.3774109 2 7.735031 -63.541195 10 2 296 305 0.3805451 0.3868131 0.3843785 2 -24.715367 87.193962 13 2 436 441 0.4987847 0.5022616 0.5012187 3 -24.639000 88.371436 14 4 442 451 0.5057393 0.5119985 0.5095643 3 7.782828 -69.152056 15 3 452 459 0.5126939 0.5175621 0.5172144 3 -3.072875 -10.874577 18 2 474 478 0.5976818 0.6011590 0.6004637 2 -24.549393 80.774942 19 4 479 487 0.6046365 0.6102000 0.6081135 2 7.832875 -68.937454 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.288661 1.273854 -1.185869e-03 5.33687041 0.0008396893 3.778926 3 1.288546 1.273676 5.835980e-03 5.50991867 0.0058611317 5.518477 5 1.288307 1.273179 8.009058e-04 2.55567793 0.0025284100 7.410443 6 1.288000 1.272856 5.554480e-04 2.97100529 0.0009343698 5.615510 7 1.287940 1.272870 1.566971e-02 7.31752342 0.0207078120 25.910590 9 1.285817 1.270517 5.445526e-04 0.57637241 0.0022199967 2.061122 10 1.285609 1.270375 -1.563451e-03 0.03248815 0.0041908219 3.990651 13 1.280732 1.265423 -3.607962e-03 -2.58401871 0.0046678756 4.542846 14 1.280183 1.264831 1.812752e-03 -0.28227904 0.0067205666 3.514771 15 1.279842 1.264443 4.892512e-03 -9.98262168 0.0100381304 7.068485 18 1.276257 1.260718 8.900735e-05 6.73931353 0.0016109256 6.747878 19 1.275719 1.260163 1.511077e-03 -3.04932037 0.0041028445 6.912187 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 398 co2l1 = 0.955 co2l0 = 0.008" [1] "co2l0 = -96.69 co2l1 = 0.23" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "70 out of 355 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "285 out of 370 1-min values rejected as stack air" [1] "285 out of 370 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "untarring JGOFS directory for this cruise" [1] "making html"