[1] "2025-04-29 20:00:18 MDT" [1] "1312" "131208" "d342" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131208a.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 20:00:22 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.802, ave o2scale2 = 0.729" [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] "82 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.802, ave o2scale2 = 0.729" [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] "86 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:00:23 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:00:23 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:00:37 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:00:38 MDT" [1] "reading in recalculated plot titles" [1] "Removed 86 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1242 row(s) with low FLSP" [1] "TEMP: 108 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:00:46 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 = -624.2" [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 = 0.461 co2off = 377.93 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 66.32 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 299.57 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 8 [5,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.03242245 0.03798666 0.03590017 2 29.76121 205.0533 2 2 10 27 0.03868194 0.24665764 0.15562509 2 -15.58211 304.4080 3 4 28 37 0.24735347 0.25361675 0.25118252 2 29.81774 206.7919 4 3 38 46 0.25431207 0.25987946 0.25918396 2 53.46931 131.6252 5 4 47 55 0.44992917 0.45550327 0.45340918 2 30.19935 205.4262 6 2 56 73 0.45619867 0.66423090 0.57317159 2 -14.44965 300.7113 7 4 74 82 0.66492616 0.67049407 0.66840549 2 30.21507 209.8876 8 3 83 90 0.67953912 0.68440747 0.68405978 2 53.50597 144.7641 9 4 91 99 0.86736927 0.87293403 0.87084755 2 30.19003 209.2529 10 2 100 108 0.87362966 0.87919366 0.87710736 2 -14.78199 286.4450 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.244303 1.368500 -0.0050320539 -1.389480931 0.011001640 3.082659 2 1.245127 1.369290 -0.0006083244 0.018542054 0.092631054 11.501050 3 1.245850 1.370008 0.0071878845 -2.906099071 0.019943431 8.702908 4 1.245906 1.370005 -0.0012193080 -4.025443471 0.006027714 4.159139 5 1.248606 1.372895 0.0009108647 -1.807628400 0.006030722 7.676927 6 1.249862 1.374144 -0.0009605285 -0.006949241 0.149298479 4.536561 7 1.250782 1.375074 0.0031561824 -0.391200559 0.007928672 1.665262 8 1.250540 1.374830 -0.0022091157 2.887156248 0.004926610 2.044250 9 1.250282 1.374624 0.0107164260 -0.409032432 0.023752436 6.679351 10 1.250436 1.374676 0.0019524501 -0.343912082 0.005829101 8.567182 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.408 co2l1 = 0.452 co2l0 = 0" [1] "co2l0 = -143.31 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"