[1] "2025-04-30 03:07:24 MDT" [1] "1706" "170722" "d203" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170722a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83576 63 [1] 83576 [1] 83576 [1] "testing skipping spike filter" [1] 83576 [1] 83576 [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 03:07:28 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.943" [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] "9 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.845, ave o2scale2 = 0.943" [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] "9 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:07:28 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:07:28 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:07:42 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:07:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 256 row(s) with variable TFCELL" [1] "TEMP: 1125 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:07:46 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 CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.501 co2off = 419.6 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.21 minutes" [1] "Average Cal: 7.93 minutes" [1] "Shortest Cal: 6.15 minutes" [1] "Longest Cal: 8.36 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 209 217 0.1498445 0.1556482 0.1534931 2 -2.912286 181.9793 1.186954 3 2 218 226 0.1563596 0.1620621 0.1599192 2 -5.611241 343.6134 1.187017 5 2 501 509 0.3579428 0.3636409 0.3615043 3 -5.659179 344.2158 1.185356 6 4 510 518 0.3643526 0.3700469 0.3679111 3 -2.961491 180.3207 1.185238 8 3 528 536 0.3771679 0.3828679 0.3821537 3 -6.468929 326.6034 1.185203 10 4 730 738 0.5660275 0.5717636 0.5696154 2 -2.393705 185.0378 1.182956 11 2 739 745 0.5724770 0.5767505 0.5753268 2 -5.116400 342.1200 1.182824 13 2 817 825 0.7742795 0.7799742 0.7778385 3 -5.041384 339.6607 1.180150 14 4 826 834 0.7806863 0.7863903 0.7842548 3 -2.355777 180.4916 1.179980 15 3 835 843 0.7871024 0.7928077 0.7920928 3 -5.844509 321.8367 1.179949 17 4 1101 1109 0.9823834 0.9880789 0.9859428 2 -2.383437 177.7813 1.177500 18 2 1110 1118 0.9887914 0.9944969 0.9923582 2 -5.072500 338.4292 1.177578 jfcv2 co2slp o2slp co2sd o2sd 2 1.063405 -5.624438e-04 0.3262581 0.001577782 2.043107 3 1.063378 -3.565610e-05 3.3576897 0.002309522 7.622904 5 1.062262 -1.492283e-03 1.7186191 0.003601835 4.893574 6 1.062099 6.792535e-04 -0.8272981 0.001579255 2.040605 8 1.062013 -9.304166e-04 -4.3848559 0.002093028 4.684535 10 1.059739 -3.461576e-03 -0.7299094 0.007845241 7.491859 11 1.059471 -2.938919e-03 3.4009763 0.004863287 5.787348 13 1.057904 -9.972645e-04 2.2951611 0.002282300 5.847600 14 1.057682 -5.659826e-05 0.2166636 0.001122020 2.256032 15 1.057802 -6.910735e-04 2.5837813 0.002692444 2.677880 17 1.055919 9.970942e-04 -0.7364570 0.002479342 2.871981 18 1.055921 8.995108e-04 0.1546029 0.002064078 3.252460 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 420.727 co2l1 = 4.499 co2l0 = 0.988" [1] "co2l0 = -166.19 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "82 out of 325 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "243 out of 971 1-min values rejected as stack air" [1] "243 out of 971 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] "making html"