[1] "2025-04-29 21:52:53 MDT" [1] "1406" "140819" "d231" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140819a.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 21:52:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.819, ave o2scale2 = 0.738" [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] "0 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.819, ave o2scale2 = 0.738" [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] "1 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:52:57 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:52:57 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:53:17 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:53:18 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:53:23 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.473 co2off = 386.16 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 12 21 0.009268634 0.01552946 0.01309437 3 -19.90091 282.9294 3 4 22 31 0.016225029 0.02248727 0.02005135 3 38.53441 143.0666 4 5 32 41 0.023182870 0.02944534 0.02840204 NA 16.44747 188.6883 5 3 42 51 0.030141175 0.03640446 0.03536081 3 18.75906 213.9698 7 4 312 321 0.217971412 0.22423469 0.22179992 2 38.50968 139.1572 8 2 322 331 0.224930035 0.23119323 0.22875792 2 -19.91148 281.6236 10 2 612 621 0.426723061 0.43299135 0.43055356 3 -19.92023 278.8058 11 4 622 631 0.433686690 0.43997112 0.43752347 3 38.51147 137.1430 12 3 632 641 0.440667130 0.44692616 0.44588321 3 18.71289 209.8269 14 4 912 921 0.635455266 0.64171852 0.63928074 2 38.54113 140.4134 15 2 922 931 0.642413715 0.64867283 0.64623874 2 -19.90170 284.0816 16 5 932 941 0.649368142 0.65562847 0.65458514 NA 16.27019 200.4030 18 2 1212 1221 0.844162182 0.85042523 0.84799102 3 -19.84555 283.7288 19 4 1222 1231 0.851120602 0.85738053 0.85494618 3 38.58741 131.9104 20 3 1232 1241 0.858075955 0.86433883 0.86329565 3 18.79723 215.3747 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.215929 1.349705 -0.003473170 -3.043224556 0.009682516 8.467052 3 1.216105 1.349794 0.003890790 0.109051383 0.013294229 6.488892 4 1.216346 1.350018 0.003556424 -6.401941360 0.002519068 12.603289 5 1.216331 1.349948 -0.002347665 0.708083562 0.006753223 1.447887 7 1.217100 1.350540 -0.001697735 0.844783438 0.007304784 3.159733 8 1.217293 1.350728 -0.001765407 -0.002376659 0.008161658 5.264082 10 1.218252 1.352122 -0.005001383 2.311889897 0.016158594 6.333981 11 1.218135 1.352010 0.006124378 0.478486776 0.016366649 4.485189 12 1.218183 1.352179 -0.001110194 -5.617612859 0.009217471 7.652972 14 1.221390 1.355900 -0.001610908 -0.317912741 0.007076590 4.225313 15 1.221698 1.356283 -0.003134776 0.620940246 0.012541157 5.670496 16 1.222284 1.356893 -0.026580699 3.310042725 0.018826718 4.563464 18 1.227611 1.363003 -0.004669384 2.230969571 0.011580982 8.706516 19 1.227785 1.363189 0.004829404 1.730738315 0.015291364 4.987132 20 1.228255 1.363643 -0.002350721 1.765668699 0.006477807 3.544086 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.041 co2l1 = 0.473 co2l0 = 0.078" [1] "co2l0 = -144.19 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "207 out of 358 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "151 out of 1228 1-min values rejected as stack air" [1] "151 out of 1228 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"