[1] "2025-04-30 02:20:22 MDT" [1] "1701" "170128" "d028" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170128a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 49688 63 [1] 49688 [1] 49688 [1] "testing skipping spike filter" [1] 49688 [1] 49688 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 02:20:24 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.081, ave o2scale2 = 0.871" [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] "65 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.081, ave o2scale2 = 0.871" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "65 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:20:25 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:20:25 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:20:28 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:20:29 MDT" [1] "reading in recalculated plot titles" [1] "Removed 66 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 35 row(s) with low FLSP" [1] "Removed 57 row(s) with variable TFCELL" [1] "TEMP: 668 616 TRUE" [1] "Removed 616 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:20:31 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -647.9" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.953 co2off = 432.75 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.25 minutes" [1] "Average Cal: 7.29 minutes" [1] "Shortest Cal: 1.14 minutes" [1] "Longest Cal: 10.23 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 3 12 0.8600705 0.8671765 0.8644121 2 -41.18848 220.2111 0.9254666 3 4 13 22 0.8679651 0.8750706 0.8723032 2 -18.51775 113.2177 0.9255453 5 3 29 33 0.9353467 0.9396378 0.9413121 3 -32.55158 235.4990 0.9251610 6 2 34 43 0.9417875 0.9482448 0.9457406 3 -41.40345 223.2328 0.9254949 7 4 44 52 0.9489581 0.9546901 0.9525423 3 -18.81405 116.0763 0.9258047 jfcv2 co2slp o2slp co2sd o2sd 2 1.147316 0.021319382 -1.7401935 0.059538018 9.660951 3 1.146980 0.037343431 -0.2598527 0.104157928 10.240129 5 1.147658 0.003413007 -10.7943586 0.007434436 25.061549 6 1.147888 0.020381929 2.6531934 0.051558780 18.378687 7 1.148133 0.034259097 -1.3074992 0.076563141 8.403735 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 423.898 co2l1 = 0.949 co2l0 = -1.398" [1] "co2l0 = -141.48 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"