[1] "2025-04-29 18:42:05 MDT" [1] "1305" "130514" "d134" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130514a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 18:42:09 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.76, ave o2scale2 = 0.762" [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] "94 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.76, ave o2scale2 = 0.762" [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] "94 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:42:10 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:42:10 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:42:30 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:42:32 MDT" [1] "reading in recalculated plot titles" [1] "Removed 94 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1341 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:42:48 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 = -447.9" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.7" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.359 co2off = 387.28 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.45 minutes" [1] "Shortest Cal: 5.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 30 38 0.02248964 0.02805683 0.02597008 2 64.12571 83.40922 3 2 39 47 0.02944792 0.03501505 0.03292869 2 -21.86063 245.49042 4 5 48 57 0.03571120 0.04197650 0.04093076 NA 27.62472 134.82989 6 2 287 295 0.23056806 0.23613368 0.23404730 3 -21.88138 236.73428 7 4 296 302 0.23752448 0.24378730 0.24156188 3 64.24960 83.28764 8 3 303 308 0.24448264 0.24796409 0.25005033 3 34.74886 163.47748 10 4 549 557 0.43956019 0.44582037 0.44323662 2 64.39176 83.77262 11 2 558 567 0.44651620 0.45277517 0.45034097 2 -21.71461 240.48933 13 2 841 849 0.64835584 0.65462269 0.65203822 3 -22.08600 246.29654 14 4 850 859 0.65531843 0.66158206 0.65914671 3 64.57088 80.51124 16 3 869 878 0.66923724 0.67550000 0.67445666 3 34.69454 148.63217 18 4 1139 1148 0.85713397 0.86339722 0.86096237 2 64.75246 80.52019 19 2 1149 1158 0.86409366 0.87035312 0.86791915 2 -22.93288 239.67382 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.306122 1.303136 -0.0087633110 0.51504164 0.02365154 1.6829588 3 1.306386 1.303436 -0.0088044058 0.46393769 0.02294143 1.8885921 4 1.306462 1.303492 0.0410593010 -1.54374127 0.02921235 2.7307192 6 1.309382 1.306578 -0.0093363884 -1.33629863 0.02374147 4.3108133 7 1.309060 1.306306 0.0110024977 -0.06424757 0.03621917 0.4817333 8 1.309215 1.306670 0.0071014855 5.53333002 0.01094070 23.5086996 10 1.310796 1.308034 0.0030301441 1.29636948 0.00863879 5.8513446 11 1.311249 1.308546 0.0001728441 -0.83211986 0.02872943 3.9670189 13 1.318256 1.315853 -0.0077215222 1.49275870 0.03230817 6.6197791 14 1.318458 1.316161 0.0012144663 1.35504785 0.02035498 4.4227640 16 1.319026 1.316818 0.0057403897 -2.69186922 0.01618134 3.6665962 18 1.326665 1.324997 -0.0026697147 0.88471423 0.01122343 3.0598044 19 1.326880 1.325196 -0.0121277161 -0.45637084 0.03490255 4.4473178 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.267 co2l1 = 0.359 co2l0 = 0.169" [1] "co2l0 = -130.91 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "25 out of 30 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "5 out of 1162 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "5 out of 1162 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"