[1] "2025-04-30 00:08:59 MDT" [1] "1505" "150606" "d157" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150606a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85759 63 [1] 85759 [1] 85759 [1] "testing skipping spike filter" [1] 85759 [1] 85759 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 00:09:03 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.856, ave o2scale2 = 0.769" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "203 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.856, ave o2scale2 = 0.769" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "203 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:09:03 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:09:03 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:09:13 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:09:14 MDT" [1] "reading in recalculated plot titles" [1] "Removed 203 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1 row(s) with variable TFCELL" [1] "TEMP: 1223 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:09:17 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 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 = 1.017 co2off = 477.96 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 7.67 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Removed 2 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 9 [5,] 10 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 167 176 0.1169767 0.1232361 0.1208020 2 -66.19112 363.5073 1.184506 3 2 177 186 0.1239317 0.1301916 0.1277571 2 -87.41766 479.8304 1.184437 5 2 462 471 0.3256991 0.3319619 0.3295277 3 -87.50995 478.2626 1.178675 6 4 472 481 0.3326574 0.3389363 0.3364942 3 -66.29605 368.6193 1.178280 7 3 482 491 0.3396316 0.3458943 0.3448501 3 -78.97076 471.9813 1.177980 10 2 683 691 0.5024894 0.5080721 0.5059785 2 -87.67747 478.3128 1.167237 11 4 692 700 0.5087718 0.5150506 0.5126574 2 -66.46868 366.3942 1.166548 16 4 825 829 0.7070422 0.7098356 0.7091384 2 -66.58229 375.0409 1.159109 17 2 830 837 0.7105336 0.7154144 0.7136713 2 -87.82305 477.5703 1.159000 19 2 1098 1107 0.9121786 0.9184620 0.9160178 3 -87.89625 478.4565 1.155091 20 4 1108 1117 0.9191598 0.9254374 0.9229954 3 -66.66826 365.8487 1.154897 21 3 1118 1127 0.9261357 0.9324185 0.9313703 3 -79.35430 469.3926 1.154938 jfcv2 co2slp o2slp co2sd o2sd 2 1.319801 0.0023646657 0.9541402 0.005916404 2.6120409 3 1.319726 -0.0007502974 0.1275499 0.002414382 3.8932238 5 1.312997 -0.0017026354 1.4991684 0.005465745 5.3685840 6 1.312545 0.0016388483 1.8124362 0.008209073 5.7117574 7 1.312208 0.0002673361 -1.0980363 0.003722884 1.5088906 10 1.299579 -0.0026854369 -0.3052010 0.006573588 2.4617686 11 1.298625 0.0007365096 0.3298973 0.002730081 5.2602815 16 1.289019 -0.0046058435 10.5730375 0.004634000 10.6212360 17 1.289017 -0.0012786636 1.0507337 0.003164109 2.9001942 19 1.284467 0.0010784025 1.9170251 0.005753396 5.2412582 20 1.284263 0.0021439410 1.7047323 0.007579374 5.4539438 21 1.284322 -0.0009049570 -0.1826551 0.002778414 0.9267692 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 473.529 co2l1 = 1.014 co2l0 = 1.952" [1] "co2l0 = -200.77 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "126 out of 420 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "294 out of 1058 1-min values rejected as stack air" [1] "293 out of 1038 Line 1 1-min values rejected as stack air" [1] "1 out of 20 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"