[1] "2025-04-29 18:22:24 MDT" [1] "1303" "130331" "d090" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130331a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 18:22:29 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.75, ave o2scale2 = 0.762" [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] "169 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.75, ave o2scale2 = 0.762" [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] "168 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:22:29 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:22:29 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:22:39 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:22:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 168 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 7 row(s) with LiCO2A spikes in them" [1] "TEMP: 1260 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:22:48 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 = -448.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.447 co2off = 388.86 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.29 minutes" [1] "Shortest Cal: 6.01 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,] 6 8 [4,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 226 235 0.1632862 0.1695463 0.1671116 3 -1.058227 209.65091 3 4 236 242 0.1709371 0.1751139 0.1737196 3 68.064062 42.86227 4 3 243 248 0.1772002 0.1834630 0.1838108 3 44.480422 132.76301 6 4 493 499 0.3720786 0.3783375 0.3765294 2 67.544241 48.13794 7 2 500 507 0.3804247 0.3852974 0.3835555 2 -1.857437 206.33126 10 2 768 776 0.5808310 0.5870937 0.5848058 3 -2.379181 207.18181 11 4 777 786 0.5877893 0.5940521 0.5916159 3 67.312164 48.28313 12 3 787 796 0.5947477 0.6010070 0.5999637 3 43.489117 115.19433 14 4 1037 1043 0.7910387 0.7959108 0.7941023 2 66.635353 46.25185 15 2 1044 1052 0.7966062 0.8028687 0.8005817 2 -2.978467 209.78323 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.343885 1.323219 -0.0053979609 1.10506852 0.018640841 4.412399 3 1.343675 1.323032 -0.0047311857 -1.86592960 0.009974773 3.695751 4 1.343954 1.323363 0.0094101817 22.76644871 0.034130775 16.125812 6 1.341042 1.319886 0.0044514627 0.31346189 0.012122973 2.110273 7 1.340835 1.319673 -0.0004360793 1.76917702 0.003833854 3.764434 10 1.333604 1.311680 -0.0032341462 -0.05388782 0.017872704 2.191061 11 1.333248 1.311248 0.0078570161 0.74018843 0.023764116 3.659372 12 1.332875 1.310848 -0.0062332619 -0.93157556 0.022824628 1.268067 14 1.322603 1.298859 -0.0029134740 1.52838368 0.007323837 4.087225 15 1.322532 1.298954 -0.0144590014 1.00490212 0.041840039 3.000033 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 375.264 co2l1 = 0.447 co2l0 = -0.024" [1] "co2l0 = -122.8 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "155 out of 606 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "451 out of 1121 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "451 out of 1121 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"