[1] "2025-04-29 18:06:16 MDT" [1] "1302" "130222" "d053" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130222a.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 18:06:20 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.754, ave o2scale2 = 0.76" [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] "98 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.754, ave o2scale2 = 0.76" [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] "95 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:06:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:06:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:06:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:06:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 95 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1216 row(s) with low FLSP" [1] "TEMP: 124 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:06:51 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 = -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 = 0.385 co2off = 363.73 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.52 minutes" [1] "Average Cal: 56.45 minutes" [1] "Shortest Cal: 3.01 minutes" [1] "Longest Cal: 299.63 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 4 0.001605266 0.00369213 0.003344329 3 -12.28547 203.71371 2 4 5 14 0.004387703 0.01064832 0.008212764 3 68.04388 46.10187 3 3 15 22 0.011346065 0.01621412 0.015866348 3 40.43503 112.88198 4 4 23 31 0.206871209 0.21243866 0.210352137 2 68.02221 44.73219 5 2 32 49 0.213134201 0.42119178 0.330124595 2 -12.53532 207.74687 6 4 50 59 0.421887037 0.42814977 0.425715629 2 67.96049 43.76483 7 5 60 69 0.428845168 0.43510532 0.434061827 NA 21.21441 98.12787 8 3 70 78 0.435800810 0.44136450 0.440668953 2 40.28927 117.77674 9 4 79 87 0.624353009 0.62992028 0.627833594 2 67.93854 40.29096 10 2 88 105 0.630615741 0.83869334 0.747617490 2 -12.72818 203.86447 11 4 106 115 0.839388715 0.84564818 0.843214272 2 67.96263 44.15652 12 3 116 124 0.846343750 0.85191531 0.851219840 2 40.21070 110.68200 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.324192 1.313973 -0.0015599002 -0.004311733 0.001104854 0.003053937 2 1.324018 1.313784 0.0003549259 -0.500310418 0.012122975 2.368531618 3 1.323957 1.313733 0.0028513178 -1.535864739 0.010728813 1.087739904 4 1.325428 1.315299 0.0039049886 -0.758087506 0.009482970 2.667402272 5 1.326290 1.316180 -0.0001199593 0.007332143 0.022817736 6.562030480 6 1.326744 1.316655 0.0004453545 0.050045648 0.008518326 2.273812568 7 1.326812 1.316730 0.2332986689 -0.836594935 0.165242016 1.745978051 8 1.327080 1.317011 0.0045710643 14.041393165 0.012570256 14.211854645 9 1.328479 1.318386 0.0016765839 -0.528559022 0.006464532 1.787735513 10 1.328589 1.318537 -0.0007756560 0.003126214 0.122187340 3.837495587 11 1.328765 1.318752 0.0053218434 0.150298117 0.021151162 1.885235856 12 1.328712 1.318738 0.0008480170 0.164027581 0.008996486 0.993877728 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.458 co2l1 = 0.381 co2l0 = 0.096" [1] "co2l0 = -122.15 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"