[1] "2025-04-29 22:25:00 MDT" [1] "1410" "141111" "d315" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141111a.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 22:25:04 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.853, ave o2scale2 = 0.768" [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] "273 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.853, ave o2scale2 = 0.768" [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] "271 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:25:04 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:25:04 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:25:25 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:25:26 MDT" [1] "reading in recalculated plot titles" [1] "Removed 271 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1164 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:25:32 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 = -477.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.4" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.946 co2off = 390.05 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.02 minutes" [1] "Average Cal: 7.38 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 2 [3,] 3 4 [4,] 6 8 [5,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 4 0.001321528 0.003407552 0.003059997 1 -26.092344 529.8416 3 4 209 215 0.208670081 0.212846065 0.211454728 1 3.160813 376.1564 6 4 437 446 0.410556655 0.416843981 0.414404496 2 3.190156 384.4151 7 2 447 454 0.417539554 0.422411892 0.420672975 2 -26.040823 528.5488 8 5 455 464 0.424500029 0.430761516 0.429718164 NA -7.835812 438.3073 10 2 703 712 0.618950955 0.625214034 0.622779253 3 -26.076648 530.2645 11 4 713 722 0.625909693 0.632172512 0.629736368 3 3.176492 380.8593 12 3 723 730 0.634259259 0.639131047 0.638783391 3 -6.616448 457.3496 14 4 949 956 0.827731366 0.833997685 0.831559934 2 3.170219 393.5580 15 2 957 964 0.834693287 0.839561574 0.837823018 2 -26.070979 532.8128 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.169429 1.299232 -1.311243e-03 2.2746291 0.0009280777 1.6099471 3 1.170197 1.299799 1.610677e-03 1.8377546 0.0039091239 3.5248830 6 1.173677 1.303800 1.587133e-03 -0.9133948 0.0053208443 4.3004364 7 1.173840 1.304001 -2.751008e-03 -0.3517867 0.0076014407 3.3613876 8 1.174020 1.304195 -6.240120e-04 7.0202661 0.0004419417 9.5137660 10 1.174304 1.304765 2.307724e-04 -0.6333956 0.0011514439 6.9512767 11 1.174246 1.304701 3.264473e-03 -1.3890069 0.0086216633 7.4878543 12 1.174401 1.304869 -6.532683e-05 -1.0656557 0.0013278370 0.7544743 14 1.173714 1.304054 -7.231170e-04 -0.7097675 0.0021527951 5.8638824 15 1.174002 1.304343 -4.468676e-03 -3.5521984 0.0109114094 7.1750867 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 401.243 co2l1 = 0.944 co2l0 = 0" [1] "co2l0 = -198.94 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "151 out of 264 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "113 out of 1024 1-min values rejected as stack air" [1] "113 out of 1024 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] "LOXY data found" [1] "making html"