[1] "2025-04-29 20:37:27 MDT" [1] "1402" "140219" "d050" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140219a.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 20:37:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.808, ave o2scale2 = 0.736" [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] "1 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.808, ave o2scale2 = 0.736" [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 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:37:32 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:37:32 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:37:49 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:37:51 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1433 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:37:56 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 = -475.8" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -633.9" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.42 co2off = 378.31 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 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 4 [2,] 5 6 [3,] 7 9 [4,] 10 11 [5,] 13 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 157 166 0.1111354 0.1173948 0.1149604 3 -3.567797 294.6694 1.237706 3 4 167 176 0.1180903 0.1243496 0.1219157 3 62.198430 165.0861 1.237667 4 5 177 186 0.1250455 0.1313049 0.1302618 NA 37.010812 223.1937 1.237701 5 3 187 196 0.1320002 0.1382636 0.1372204 3 39.623086 241.4381 1.237807 7 4 457 466 0.3198381 0.3260973 0.3236634 2 62.145062 160.1497 1.239865 8 2 467 476 0.3267928 0.3330528 0.3306186 2 -3.649641 299.7568 1.240064 11 2 757 766 0.5285185 0.5347813 0.5323471 3 -3.726672 303.3565 1.239623 12 4 767 776 0.5354768 0.5417362 0.5393021 3 61.979438 158.6010 1.239486 13 3 777 786 0.5424317 0.5486947 0.5476516 3 39.448555 243.6820 1.239659 15 4 1057 1066 0.7372093 0.7434688 0.7410344 2 61.845375 159.8199 1.237909 16 2 1067 1076 0.7441644 0.7504237 0.7479895 2 -3.917281 296.3085 1.237853 17 5 1077 1086 0.7511192 0.7573819 0.7563371 NA 35.963594 219.3933 1.237895 19 2 1356 1365 0.9458935 0.9521528 0.9497186 3 -3.811719 305.1225 1.234536 20 4 1366 1375 0.9528484 0.9591074 0.9566733 3 61.621289 157.3054 1.234252 21 3 1376 1385 0.9598032 0.9660622 0.9650190 3 39.135148 243.6621 1.234168 jfcv2 co2slp o2slp co2sd o2sd 2 1.358525 -4.916591e-05 0.31013418 0.0030332514 4.7998103 3 1.358523 1.834505e-03 0.72889007 0.0082853300 6.1947975 4 1.358583 1.123549e-03 2.82399618 0.0007954951 5.9094324 5 1.358702 -5.196734e-03 -0.04368057 0.0132694407 0.8796659 7 1.360813 2.306447e-03 0.66926309 0.0103773663 3.8038445 8 1.361039 -2.702783e-03 0.44488339 0.0135985470 5.5368819 11 1.360619 -4.875623e-03 1.42682837 0.0132252021 3.7602385 12 1.360472 9.361030e-03 0.57955002 0.0251879320 3.5005911 13 1.360711 1.991324e-03 -4.19492880 0.0063171780 6.2253164 15 1.358649 4.813349e-03 0.24346083 0.0172128223 7.5051081 16 1.358581 7.474281e-03 4.64234478 0.0197006050 12.3978626 17 1.358673 9.799434e-03 -5.80245242 0.0069384853 7.7356160 19 1.354954 -4.203264e-03 0.99789450 0.0159617987 4.4774655 20 1.354657 6.401538e-03 -0.24358099 0.0258133310 1.4947586 21 1.354594 1.613094e-03 -1.71195176 0.0096705749 2.2484287 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 378.22 co2l1 = 0.421 co2l0 = 0.001" [1] "co2l0 = -150.36 co2l1 = 0.228" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "67 out of 230 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "163 out of 1224 1-min values rejected as stack air" [1] "104 out of 1165 Line 1 1-min values rejected as stack air" [1] "59 out of 59 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"