[1] "2025-04-29 21:49:37 MDT" [1] "1406" "140813" "d225" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140813a.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 21:49:41 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.83, ave o2scale2 = 0.749" [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 = 0.83, ave o2scale2 = 0.749" [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] "0 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:49:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:49:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:50:01 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:50:02 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1436 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:50:06 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 = -634.5" [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 = 0.474 co2off = 386.02 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: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 7 16 0.004896991 0.01115642 0.008722201 2 38.04888 138.5155 3 2 17 26 0.011851968 0.01811183 0.015677358 2 -20.36099 281.7547 5 2 307 316 0.213597280 0.21985648 0.217422530 3 -20.33167 282.1201 6 4 317 326 0.220552083 0.22681134 0.224377253 3 38.06498 133.6072 7 5 327 336 0.227506944 0.23376620 0.232722909 NA 15.80784 201.1765 8 3 337 346 0.234461806 0.24072454 0.239681149 3 18.22568 217.3234 10 4 607 616 0.422341493 0.42860408 0.426169672 2 38.17637 136.1201 11 2 617 626 0.429299537 0.43556591 0.433127843 2 -20.22046 281.2347 13 2 907 916 0.631081019 0.63734378 0.634909733 3 -20.03543 284.4302 14 4 917 926 0.638039381 0.64429861 0.641864395 3 38.33269 137.2719 15 3 927 936 0.644994068 0.65125694 0.650213585 3 18.52170 216.2900 17 4 1207 1216 0.839781279 0.84604410 0.843608908 2 38.51120 138.8853 18 2 1217 1226 0.846739612 0.85300231 0.850566862 2 -19.88647 282.2586 19 5 1227 1236 0.853697888 0.85996065 0.858916363 NA 16.33084 198.2254 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.195600 1.325792 3.840179e-03 1.4296175 0.010964148 3.8155706 3 1.195612 1.325806 -1.003466e-02 0.3029984 0.025111458 2.5038719 5 1.197149 1.327528 -1.159075e-03 0.4119773 0.004236553 2.0337601 6 1.197153 1.327541 -1.639158e-04 -0.5797106 0.012870229 1.7583543 7 1.197230 1.327631 -8.673045e-03 0.4547524 0.006142990 0.7214650 8 1.197303 1.327717 -4.676518e-03 0.3814873 0.012660375 0.9312631 10 1.201579 1.332437 -7.109882e-04 -0.7495329 0.005634460 2.4698553 11 1.201918 1.332808 -3.321430e-03 0.4473677 0.009497059 2.0539669 13 1.208386 1.339941 1.493175e-04 1.6318095 0.001686156 4.1846440 14 1.208547 1.340106 3.561648e-03 0.8365008 0.014084328 2.7319385 15 1.209335 1.340967 2.911617e-03 1.1903280 0.008925582 1.8364213 17 1.213713 1.345722 -5.903494e-04 -0.0826592 0.006727761 2.0009264 18 1.213939 1.345957 8.562111e-05 0.4394165 0.011126455 2.0038451 19 1.214160 1.346225 -7.675347e-03 -1.9498008 0.005435883 2.5825963 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.172 co2l1 = 0.473 co2l0 = 0.098" [1] "co2l0 = -143.67 co2l1 = 0.219" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "65 out of 284 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "219 out of 1244 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "219 out of 1244 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"