[1] "2025-04-29 18:09:14 MDT" [1] "1302" "130227" "d058" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130227a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85980 63 [1] 85980 [1] 85980 [1] "testing skipping spike filter" [1] 85980 [1] 85980 [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 18:09:18 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.767, ave o2scale2 = 0.774" [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] "149 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.767, ave o2scale2 = 0.774" [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] "149 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:09:18 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:09:18 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:09:38 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:09:39 MDT" [1] "reading in recalculated plot titles" [1] "Removed 149 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1152 row(s) with low FLSP" [1] "TEMP: 131 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:09:51 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 = -542.8" [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 = 0.394 co2off = 374.27 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.04 minutes" [1] "Average Cal: 28.98 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 299.07 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 4 [3,] 5 7 [4,] 8 9 [5,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 7 0.1263952 0.1312653 0.1294565 2 -11.13327 208.94125 2 4 8 17 0.1319607 0.1382259 0.1357894 2 66.85934 43.76639 4 4 25 33 0.3346269 0.3401973 0.3381091 2 66.97476 42.22778 5 2 34 43 0.3408938 0.3471598 0.3447230 2 -11.52949 205.59495 7 2 53 61 0.5430283 0.5486100 0.5465175 3 -11.93517 204.27117 8 4 62 68 0.5493069 0.5558222 0.5539603 3 67.12439 41.75319 9 3 69 77 0.5565232 0.5621021 0.5614055 3 39.90574 113.70337 10 4 78 86 0.7518230 0.7574051 0.7553127 2 67.09720 42.49653 11 2 87 104 0.7581023 0.9657907 0.8748821 2 -11.98981 203.25554 12 4 105 114 0.9664882 0.9727604 0.9703215 2 67.17827 44.83482 14 3 123 131 0.9804299 0.9860185 0.9853205 2 39.92885 112.45744 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.299948 1.289122 -0.0173814573 0.48225667 0.036418948 4.032055 2 1.300043 1.289264 0.0079589773 -0.11103245 0.024344393 9.572762 4 1.304526 1.293716 -0.0027263204 1.67608201 0.011539416 4.788820 5 1.304878 1.294070 -0.0119237159 0.24671758 0.029993776 1.507946 7 1.306355 1.295556 -0.0118275479 0.53502444 0.027101966 2.792171 8 1.306255 1.295517 0.0084841444 0.28305343 0.024921289 1.991035 9 1.306398 1.295734 0.0084677754 2.57040980 0.019026860 2.604724 10 1.305757 1.294985 0.0026073904 0.17339249 0.009401035 4.714299 11 1.304745 1.293876 -0.0009786703 -0.01709768 0.147575378 4.349509 12 1.303914 1.293013 0.0031767881 0.13656882 0.017141017 1.046869 14 1.304104 1.293156 0.0103706346 1.07567978 0.025004996 1.790669 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.096 co2l1 = 0.392 co2l0 = 0.1" [1] "co2l0 = -121.98 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"