[1] "2025-04-29 21:40:49 MDT" [1] "1406" "140727" "d208" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140727a.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 21:40:53 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.811, ave o2scale2 = 0.73" [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 = 0.811, ave o2scale2 = 0.73" [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 21:40:54 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:40:54 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:41:14 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:41:16 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 21:41:22 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 = -476.7" [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 = 0.473 co2off = 385.94 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: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 131 140 0.09211623 0.09837616 0.09594153 2 38.89295 135.3057 3 2 141 150 0.09907176 0.10533478 0.10289826 2 -19.53939 281.2026 4 5 151 160 0.10603012 0.11229285 0.11124983 NA 16.68481 200.4334 6 2 431 440 0.30088203 0.30714517 0.30471114 3 -19.48799 278.5318 7 4 441 450 0.30784054 0.31410052 0.31166619 3 38.93383 138.7009 8 3 451 460 0.31479578 0.32105862 0.32001547 3 19.10270 210.0505 10 4 731 740 0.50963935 0.51590738 0.51346792 2 38.91677 138.3409 11 2 741 750 0.51660284 0.52286551 0.52043061 2 -19.51615 279.9177 13 2 1031 1040 0.71839800 0.72466085 0.72222567 3 -19.54509 282.4633 14 4 1041 1050 0.72535625 0.73161921 0.72918504 3 38.87671 134.2216 15 5 1051 1060 0.73231693 0.73858151 0.73753552 NA 16.69278 199.3967 16 3 1061 1070 0.73927682 0.74553608 0.74449306 3 19.06898 212.1474 18 4 1331 1340 0.92716108 0.93342442 0.93098686 2 38.87097 135.7379 19 2 1341 1350 0.93411982 0.94037899 0.93794488 2 -19.56134 283.0633 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.231707 1.367651 0.0021125671 1.582725987 0.007746885 5.243439 3 1.231840 1.367798 -0.0036993552 -0.287703481 0.014737917 7.060974 4 1.231886 1.367829 -0.0146061337 -1.715895751 0.010341437 2.219029 6 1.232985 1.369027 0.0006456945 -0.277596564 0.004865311 3.244335 7 1.232536 1.368562 0.0018990347 0.896104555 0.012334383 2.609160 8 1.232846 1.368886 -0.0011352206 -1.436026168 0.004555554 2.745125 10 1.234637 1.370915 0.0001717829 0.253337790 0.003605048 2.470510 11 1.234883 1.371194 -0.0061991764 -0.327277626 0.017350379 2.856551 13 1.234705 1.370934 -0.0015945329 1.482253818 0.004647868 4.553551 14 1.234526 1.370750 0.0079700040 0.842818204 0.022293996 3.765548 15 1.234639 1.370880 -0.0157214466 -2.099571780 0.011181126 2.869063 16 1.234954 1.371245 -0.0031115555 -1.734270189 0.009294220 2.981577 18 1.234309 1.370518 -0.0009688002 0.001508141 0.005346477 1.740608 19 1.234368 1.370592 -0.0051953229 1.299633007 0.014896928 4.244747 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.864 co2l1 = 0.473 co2l0 = 0.088" [1] "co2l0 = -143.65 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "142 out of 375 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "233 out of 1243 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "233 out of 1243 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"