[1] "2025-04-29 22:12:43 MDT" [1] "1409" "141014" "d287" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141014a.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 22:12:47 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.834, ave o2scale2 = 0.753" [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] "17 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.834, ave o2scale2 = 0.753" [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] "17 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:12:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:12:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:13:06 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:13:07 MDT" [1] "reading in recalculated plot titles" [1] "Removed 17 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1418 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:13:13 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.48 co2off = 381.66 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.71 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 230 239 0.1611538 0.1674132 0.1649787 2 24.150922 140.6457 3 2 240 249 0.1681088 0.1743715 0.1719354 2 -33.385547 285.7156 4 5 250 259 0.1750671 0.1813265 0.1802832 NA 2.765156 199.5971 6 2 513 522 0.3698670 0.3761271 0.3736927 3 -33.310508 278.0816 7 4 523 532 0.3768224 0.3830817 0.3806475 3 24.259594 140.8459 8 3 533 542 0.3837772 0.3900371 0.3889937 3 4.791781 222.4216 10 4 813 822 0.5785463 0.5848056 0.5823713 2 24.293406 147.1921 11 2 823 832 0.5855012 0.5917604 0.5893262 2 -33.253922 286.4495 13 2 1113 1122 0.7872256 0.7934880 0.7910529 3 -33.287766 278.5408 14 4 1123 1132 0.7941833 0.8004431 0.7980085 3 24.296797 147.8897 15 5 1133 1142 0.8011385 0.8073972 0.8063542 NA 2.778187 192.6203 16 3 1143 1152 0.8080927 0.8143554 0.8133125 3 4.762055 207.3884 18 4 1413 1418 0.9959163 0.9993942 0.9983505 1 24.181375 139.1331 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.192566 1.324653 4.664606e-04 -3.1240675 0.004125778 10.986029 3 1.192886 1.325036 1.471261e-06 -1.2834048 0.008876242 9.631234 4 1.193179 1.325349 -9.548178e-03 5.1069333 0.006761709 7.230200 6 1.200942 1.329671 2.547962e-04 0.9475099 0.005245048 3.930747 7 1.200878 1.329652 6.605676e-03 -0.5285956 0.019813584 10.778059 8 1.201104 1.329939 5.170293e-04 4.6881435 0.002921403 8.126314 10 1.201452 1.331219 -3.834902e-03 -1.0113197 0.010986751 12.482966 11 1.201453 1.331274 -3.876225e-03 0.9920605 0.014579705 6.958415 13 1.202114 1.332111 -7.418141e-05 4.5932468 0.001664275 15.769829 14 1.202077 1.332104 3.308894e-03 -2.5530780 0.010998973 8.835071 15 1.202020 1.332093 -9.862672e-03 -0.2176986 0.006982679 2.315290 16 1.201940 1.331981 4.333637e-03 -3.2005708 0.015234713 5.439592 18 1.199622 1.330350 5.165232e-03 -1.0779798 0.007560175 3.294351 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.621 co2l1 = 0.48 co2l0 = 0.082" [1] "co2l0 = -147.11 co2l1 = 0.233" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "99 out of 135 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "36 out of 1245 1-min values rejected as stack air" [1] "36 out of 1245 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] "making html"