[1] "2025-04-29 21:35:18 MDT" [1] "1406" "140718" "d199" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140718a.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 21:35:23 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.729" [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 = 0.809, ave o2scale2 = 0.729" [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] "2 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:35:23 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:35:23 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:35:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:35:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:35:50 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.4" [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 = 385.65 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 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 161 170 0.1134977 0.1197569 0.1173228 3 -18.77663 281.5352 1.241505 3 4 171 180 0.1204563 0.1267153 0.1242814 3 39.69920 132.5941 1.241500 4 3 181 190 0.1274109 0.1336710 0.1326278 3 19.85013 217.1168 1.241055 6 4 461 470 0.3222696 0.3285298 0.3260957 2 39.65291 135.9306 1.240119 7 2 471 480 0.3292252 0.3354883 0.3330541 2 -18.81569 280.7191 1.240189 8 5 481 490 0.3361837 0.3424465 0.3414033 NA 17.44875 199.8284 1.240144 10 2 761 770 0.5310132 0.5372743 0.5348393 3 -18.94439 281.4750 1.236831 11 4 771 780 0.5379697 0.5442326 0.5417952 3 39.47628 135.0134 1.236746 12 3 781 790 0.5449282 0.5511910 0.5501473 3 19.64117 216.9931 1.236755 14 4 1061 1070 0.7398101 0.7460734 0.7436358 2 39.43637 134.6430 1.232330 15 2 1071 1080 0.7467696 0.7530326 0.7505959 2 -19.06880 282.7307 1.231943 17 2 1361 1370 0.9486057 0.9548690 0.9524347 3 -19.28818 279.3143 1.226002 18 4 1371 1380 0.9555648 0.9618275 0.9593935 3 39.16558 137.3929 1.225729 19 5 1381 1390 0.9625231 0.9687835 0.9677401 NA 17.01144 193.9711 1.225440 20 3 1391 1400 0.9694792 0.9757420 0.9746988 3 19.34880 213.2776 1.225403 jfcv2 co2slp o2slp co2sd o2sd 2 1.378107 0.001998699 -0.22820409 0.005051852 2.265566 3 1.378120 0.003840692 2.49601318 0.012542492 7.856945 4 1.377618 -0.002998220 -0.71978865 0.009071209 2.229309 6 1.376557 0.001394495 0.17371766 0.004637885 1.645973 7 1.376642 -0.002393691 0.16919330 0.009263624 1.466163 8 1.376554 0.008988390 7.66601425 0.006363961 10.521349 10 1.373068 -0.006444395 0.77259070 0.015946260 4.016318 11 1.372984 0.006487541 2.47009720 0.017209807 8.404447 12 1.372971 -0.006975790 0.09486329 0.018088441 1.379816 14 1.367997 -0.003423136 1.11960369 0.014571692 3.494590 15 1.367575 -0.007278081 -0.14539613 0.019901415 2.510836 17 1.360890 -0.001135923 1.54136850 0.003655267 4.885849 18 1.360580 0.005624771 1.10030436 0.017317020 3.556139 19 1.360277 -0.021840419 -3.11214372 0.015467961 4.191905 20 1.360244 -0.003476184 1.11187198 0.012573212 1.529679 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.605 co2l1 = 0.472 co2l0 = 0.087" [1] "co2l0 = -143.19 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "131 out of 705 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "574 out of 1227 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "574 out of 1227 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"