[1] "2025-04-29 19:04:40 MDT" [1] "1306" "130622" "d173" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130622a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85640 63 [1] 85640 [1] 85640 [1] "testing skipping spike filter" [1] 85640 [1] 85640 [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 19:04:44 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.793, ave o2scale2 = 0.734" [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] "115 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.793, ave o2scale2 = 0.734" [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] "119 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:04:45 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:04:45 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:04:53 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:04:55 MDT" [1] "reading in recalculated plot titles" [1] "Removed 119 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1306 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:04:57 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 = -447.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.31 co2off = 369.77 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.93 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 263 272 0.1969432 0.2032060 0.2007709 3 -18.70389 249.83111 3 4 273 282 0.2039016 0.2101644 0.2077303 3 48.07961 155.64690 4 3 283 292 0.2108600 0.2171273 0.2160809 3 82.92587 83.86892 6 4 544 553 0.4057048 0.4119676 0.4095328 2 48.34513 160.67025 7 2 554 563 0.4126631 0.4189259 0.4164917 2 -18.22781 243.66966 8 5 564 573 0.4196216 0.4258809 0.4248380 NA 38.43706 139.64245 10 2 832 841 0.6144537 0.6207165 0.6182812 3 -17.75417 245.16808 11 4 842 851 0.6214121 0.6276748 0.6252405 3 48.61334 155.74974 12 3 852 861 0.6283704 0.6346330 0.6335897 3 83.16609 82.90465 15 4 1116 1125 0.8231921 0.8294514 0.8270172 1 49.28342 153.95395 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.269292 1.370464 0.006913314 1.3875730 0.021186058 3.899599 3 1.269162 1.370314 -0.002334558 0.9797862 0.016372060 2.645000 4 1.269098 1.370246 -0.001847511 1.1375653 0.009445535 2.186990 6 1.267043 1.368412 -0.014126284 0.5168000 0.035515738 4.327974 7 1.266907 1.368274 -0.024600224 -0.1652705 0.064146900 2.427855 8 1.266350 1.367690 -0.077784252 3.4954391 0.055065941 4.986174 10 1.260282 1.361192 0.004355298 -0.4351473 0.015295590 2.262742 11 1.259956 1.360859 0.009780622 0.4899485 0.026661422 2.625649 12 1.259137 1.360010 0.003711077 -1.6676329 0.009542547 2.775959 15 1.250185 1.350174 0.005885575 -1.6374556 0.015429337 5.157420 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.924 co2l1 = 0.308 co2l0 = 0.106" [1] "co2l0 = -131.72 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "40 out of 145 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "105 out of 1138 1-min values rejected as stack air" [1] "97 out of 868 Line 1 1-min values rejected as stack air" [1] "8 out of 270 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"