[1] "2025-04-29 20:01:18 MDT" [1] "1312" "131210" "d344" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131210a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:01:22 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.808, ave o2scale2 = 0.735" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "241 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.808, ave o2scale2 = 0.735" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "241 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:01:23 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:01:23 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:01:35 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:01:37 MDT" [1] "reading in recalculated plot titles" [1] "Removed 241 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1101 row(s) with low FLSP" [1] "Removed 10 row(s) with variable TFCELL" [1] "TEMP: 84 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:01:40 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 = -446.3" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.1" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.464 co2off = 390.55 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 64.91 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 299.52 minutes" [1] "Removed 3 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 3 4 20 27 0.3345364 0.3407953 0.3381295 2 30.92757 207.0084 1.241697 4 3 28 36 0.3414908 0.3470546 0.3463592 2 54.01414 139.7297 1.241921 6 2 39 50 0.5453738 0.7512797 0.7283940 3 -13.11158 296.8813 1.233576 7 4 51 57 0.7519752 0.7582350 0.7564264 3 31.01047 211.3840 1.235103 8 3 58 66 0.7589304 0.7644947 0.7637990 3 54.01898 138.9901 1.235536 9 4 67 75 0.9543948 0.9599587 0.9578724 2 30.95006 208.3665 1.235313 10 2 76 84 0.9606540 0.9662188 0.9641318 2 -13.89793 301.4899 1.235409 jfcv2 co2slp o2slp co2sd o2sd 3 1.365518 0.003905384 -0.118316709 0.014386323 2.661732 4 1.365653 0.003183143 3.981377834 0.007979198 4.011151 6 1.354608 0.006126591 -0.001426975 0.587727708 4.263645 7 1.357716 -0.004485448 0.611647576 0.018609567 5.300453 8 1.358644 0.006090008 2.008157578 0.015631778 2.077978 9 1.358635 -0.004945983 -0.139692552 0.011398328 1.588429 10 1.358667 -0.009904957 0.592368277 0.025133871 2.237560 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.765 co2l1 = 0.457 co2l0 = 0.118" [1] "co2l0 = -143.46 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"