[1] "2025-04-29 17:26:39 MDT" [1] "1213" "121205" "d340" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121205a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 58882 63 [1] 58882 [1] 58882 [1] "testing skipping spike filter" [1] 58882 [1] 58882 [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 17:26:42 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.776, ave o2scale2 = 0.785" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "175 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.776, ave o2scale2 = 0.785" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 3 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "172 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:26:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:26:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:26:47 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:26:48 MDT" [1] "reading in recalculated plot titles" [1] "Removed 172 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 6 row(s) with variable TFCELL" [1] "TEMP: 794 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:26:51 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 = -449.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.382 co2off = 362.25 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.88 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 22.57 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 4 5 [3,] 6 6 [4,] 7 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 7 0.08392054 0.08814158 0.08671708 1 72.412900 42.55537 2 5 8 17 0.08883689 0.09509676 0.09405318 NA 35.249625 94.32233 4 5 44 66 0.11712173 0.13279835 0.12706789 NA 35.640292 97.53610 7 4 268 277 0.27673273 0.28299213 0.28055818 2 72.552883 45.10715 8 2 278 285 0.28368750 0.28994685 0.28797630 2 -8.574667 203.32249 11 2 559 568 0.48559152 0.49187636 0.48943732 1 -8.771273 202.53324 15 4 753 758 0.94618817 0.95105651 0.95001325 1 75.838000 42.45814 16 5 759 768 0.95175177 0.95801079 0.95696781 NA 31.522469 98.04363 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.286728 1.271661 0.002504887 0.1749870 0.00550614 7.175076 2 1.286898 1.271799 -0.001496384 -1.9551526 0.00106066 3.358954 4 1.287828 1.272562 -0.061887341 0.2955538 0.28584704 3.361769 7 1.288905 1.273607 0.018322183 0.3327142 0.04568686 1.712214 8 1.289755 1.274526 0.022363657 -0.5886867 0.05687188 1.791767 11 1.289515 1.274031 -0.036078414 0.9039692 0.09050333 2.919839 15 1.288699 1.272337 -0.002134057 9.3829391 0.00357035 12.348220 16 1.288714 1.272403 -0.027651783 2.1736720 0.01957802 3.732794 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.311 co2l1 = 0.382 co2l0 = 0" [1] "co2l0 = -122.58 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "65 out of 275 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "210 out of 615 1-min values rejected as stack air" [1] "185 out of 559 Line 1 1-min values rejected as stack air" [1] "25 out of 56 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"