[1] "2025-04-30 01:46:39 MDT" [1] "1610" "161027" "d301" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/161027a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 82320 63 [1] 82320 [1] 82320 [1] "testing skipping spike filter" [1] 82320 [1] 82320 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 01:46:43 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.002, ave o2scale2 = 0.824" [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] "11 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.002, ave o2scale2 = 0.824" [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] "11 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:46:44 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:46:44 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:46:59 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:47:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 11 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1360 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:47:05 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.9" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.964 co2off = 418.86 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.42 minutes" [1] "Average Cal: 8.41 minutes" [1] "Shortest Cal: 8.34 minutes" [1] "Longest Cal: 8.5 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 160 168 0.1194571 0.1252794 0.1230919 3 -31.011366 61.44354 3 4 169 177 0.1260148 0.1318267 0.1296465 3 -8.632741 -54.64282 4 3 178 186 0.1325593 0.1384239 0.1376859 3 -22.005866 46.47171 6 4 445 453 0.3280596 0.3338502 0.3316825 2 -8.736438 -58.10282 7 2 454 462 0.3345825 0.3404261 0.3382337 2 -31.130768 62.28545 9 2 731 739 0.5360724 0.5419268 0.5397297 3 -31.237170 58.11550 10 4 740 748 0.5426666 0.5485727 0.5463527 3 -8.857411 -57.25192 12 3 758 766 0.5558566 0.5617050 0.5609770 3 -22.240929 46.27725 14 4 1013 1021 0.7447308 0.7505900 0.7483785 2 -8.938661 -56.69139 15 2 1022 1030 0.7513126 0.7571370 0.7549504 2 -31.336679 65.56480 17 2 1299 1307 0.9532591 0.9590797 0.9568957 3 -31.439884 51.24300 18 4 1308 1315 0.9598390 0.9657086 0.9637478 3 -9.059746 -54.31484 19 3 1316 1324 0.9664299 0.9722758 0.9715369 3 -22.435304 46.57320 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.0006195 1.217881 -0.0010840903 -0.86567766 0.003453830 2.769659 3 1.0004825 1.217679 0.0043882223 -0.86957481 0.011636611 2.177275 4 1.0005288 1.217705 -0.0015152160 0.24803200 0.004556421 1.002094 6 0.9985301 1.214869 0.0001074124 -0.04972256 0.003953835 2.865562 7 0.9984940 1.214832 -0.0043117979 0.25943227 0.010195275 2.705413 9 0.9973262 1.213272 -0.0016713464 0.56647392 0.005027750 2.453396 10 0.9972501 1.213166 0.0009776375 0.17243448 0.003031917 2.470241 12 0.9972941 1.213275 -0.0006129871 -0.31755438 0.001949368 0.492438 14 0.9964443 1.212314 -0.0010314018 -1.60182635 0.004933128 5.007606 15 0.9965213 1.212407 -0.0052004885 1.22685510 0.011929995 3.327266 17 0.9955931 1.210999 -0.0026931410 -8.07243255 0.006587791 20.992873 18 0.9953656 1.211056 0.0029785245 3.81433714 0.007168047 11.516313 19 0.9953320 1.211025 -0.0041927918 4.43421959 0.009718862 4.704155 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 414.668 co2l1 = 0.961 co2l0 = 0.06" [1] "co2l0 = -104.02 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "89 out of 723 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "634 out of 1193 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "634 out of 1193 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"