[1] "2025-04-30 03:21:42 MDT" [1] "1707" "170819" "d231" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170819a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84240 63 [1] 84240 [1] 84240 [1] "testing skipping spike filter" [1] 84240 [1] 84240 [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 03:21:46 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.857, ave o2scale2 = 0.997" [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] "30 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.857, ave o2scale2 = 0.997" [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] "30 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:21:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:21:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:22:08 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:22:10 MDT" [1] "reading in recalculated plot titles" [1] "Removed 30 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1373 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:22:14 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [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 CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.473 co2off = 416.18 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.2 minutes" [1] "Average Cal: 8.2 minutes" [1] "Shortest Cal: 8.19 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Removed 2 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 jfcv1 2 2 177 182 0.1349952 0.1406920 0.1396255 3 -4.845470 324.6831 1.167187 3 4 183 191 0.1414030 0.1470906 0.1449574 3 -2.114000 170.3288 1.167059 4 3 192 200 0.1478017 0.1534925 0.1527815 3 -5.641937 303.4699 1.167263 6 4 467 475 0.3434997 0.3492012 0.3470583 2 -2.131536 170.9508 1.167849 7 2 476 484 0.3499124 0.3555994 0.3534668 2 -4.863036 361.6986 1.167980 10 2 754 762 0.5513883 0.5570782 0.5549441 3 -4.833411 334.3091 1.167676 11 4 763 771 0.5577895 0.5634892 0.5613557 3 -2.106920 159.6476 1.167589 12 3 772 780 0.5642007 0.5698957 0.5691828 3 -5.627161 317.2131 1.167625 14 4 1046 1054 0.7592504 0.7649393 0.7628057 2 -2.101304 164.9595 1.166522 15 2 1055 1063 0.7656505 0.7713424 0.7692084 2 -4.827687 335.0319 1.166619 17 2 1333 1339 0.9670719 0.9727707 0.9704943 3 -4.791162 325.2402 1.163574 18 4 1340 1348 0.9734820 0.9791828 0.9770409 3 -2.063152 158.3211 1.163396 20 3 1355 1363 0.9862946 0.9919961 0.9912849 3 -5.594330 312.8017 1.163455 jfcv2 co2slp o2slp co2sd o2sd 2 1.0044163 0.0014546239 -10.37702842 0.0019285774 14.3037960 3 1.0042858 0.0014693322 -0.06910546 0.0032842744 0.9631979 4 1.0043959 -0.0006410785 -1.10317885 0.0018701326 1.1524837 6 1.0046118 -0.0011789996 -0.60630830 0.0027295301 4.4038262 7 1.0046261 -0.0002311365 -0.72708873 0.0005715216 29.7100349 10 1.0037182 -0.0003509049 1.10777496 0.0019565119 5.6285948 11 1.0035538 0.0007345207 -8.71666897 0.0020401932 25.9896503 12 1.0037230 -0.0001091126 -6.87362937 0.0008903835 7.0747976 14 1.0015889 -0.0008544136 1.47940686 0.0021303329 7.1901870 15 1.0015549 0.0015330764 0.56868074 0.0036820228 7.5579192 17 0.9980296 -0.0006365607 2.22361406 0.0016890040 7.9860421 18 0.9978340 0.0009479414 -3.21462178 0.0021484179 13.5878263 20 0.9976895 -0.0005144459 3.39821162 0.0023465162 3.6065130 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 418.42 co2l1 = 4.461 co2l0 = -0.02" [1] "co2l0 = -160.19 co2l1 = 0.212" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "56 out of 475 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "419 out of 1189 1-min values rejected as stack air" [1] "419 out of 1189 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"