[1] "2025-04-29 18:05:34 MDT" [1] "1302" "130221" "d052" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130221a.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 18:05:38 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.757, ave o2scale2 = 0.763" [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] "43 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.757, ave o2scale2 = 0.763" [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] "42 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:05:38 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:05:38 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:05:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:05:59 MDT" [1] "reading in recalculated plot titles" [1] "Removed 42 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1285 row(s) with low FLSP" [1] "TEMP: 108 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:06:13 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 = -448.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.9" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.6" [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 = 0.388 co2off = 374.22 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 34.62 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 299.63 minutes" [1] "Removed 2 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 7 [4,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 9 0.1630030 0.1685706 0.1664843 3 -11.65533 207.42468 2 4 10 19 0.1692662 0.1755289 0.1730943 3 68.23166 43.55613 4 3 29 36 0.1838785 0.1887500 0.1884022 3 40.75693 111.10027 5 4 37 45 0.3718448 0.3774120 0.3753234 2 68.17371 45.44829 6 2 46 63 0.3781076 0.5861864 0.4951085 2 -11.91195 200.89156 7 4 64 73 0.5868819 0.5931448 0.5907079 2 68.07299 45.28329 8 3 74 82 0.5938403 0.5994039 0.5987084 2 40.59665 111.22705 9 4 83 91 0.7893525 0.7949164 0.7928298 2 68.06814 50.82268 10 2 92 99 0.7970035 0.8018715 0.8001327 2 -12.29245 200.05101 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.320082 1.309073 -0.0019190632 5.24607810 0.010016699 12.587719 2 1.319926 1.309000 0.0029523447 0.56984317 0.013974107 14.525258 4 1.319893 1.309060 0.0042397075 3.83368366 0.009804608 2.715116 5 1.321101 1.310355 0.0024064287 -0.02875443 0.005449784 7.460978 6 1.321497 1.310895 0.0002609019 -0.01331165 0.040844196 4.534995 7 1.321627 1.311099 0.0050695423 -1.42519571 0.015887630 4.386764 8 1.321681 1.311184 0.0095293665 -1.99030686 0.021217096 1.993686 9 1.323132 1.312736 0.0027902146 1.73612209 0.010688762 5.914339 10 1.323011 1.312567 -0.0050802938 1.71531843 0.010513415 6.252748 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.135 co2l1 = 0.385 co2l0 = 0.092" [1] "co2l0 = -123.02 co2l1 = 0.232" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"