[1] "2025-04-29 22:54:35 MDT" [1] "1501" "150118" "d018" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150118a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 60682 63 [1] 60682 [1] 60682 [1] "testing skipping spike filter" [1] 60682 [1] 60682 [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 22:54:38 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.835, ave o2scale2 = 0.754" [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] "38 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.835, ave o2scale2 = 0.754" [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] "38 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:54:38 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:54:38 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:54:44 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:54:45 MDT" [1] "reading in recalculated plot titles" [1] "Removed 38 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 4 row(s) with variable TFCELL" [1] "TEMP: 967 0 TRUE" [1] "Removed 429 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:54:47 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 395 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.938 co2off = 378.04 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.52 minutes" [1] "Shortest Cal: 7.02 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 3 4 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 4 1 8 0.6195035 0.6243760 0.6226371 1 13.25865 140.3866 1.195880 2 5 9 18 0.6250714 0.6313383 0.6302923 NA 2.16250 207.8172 1.196475 4 4 273 282 0.8129400 0.8192028 0.8167685 2 13.28173 125.3962 1.197704 5 2 283 292 0.8198992 0.8261650 0.8237277 2 -16.19743 280.2938 1.197705 jfcv2 co2slp o2slp co2sd o2sd 1 1.324056 0.0005527066 -2.6185835 0.002355070 13.911929 2 1.324509 -0.0047189337 -10.6147832 0.003358757 18.315986 4 1.325881 0.0001587008 0.1187195 0.001535208 1.774086 5 1.325873 -0.0022652638 -0.2815592 0.007592395 3.505491 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 391.81 co2l1 = 0.937 co2l0 = 0" [1] "co2l0 = -139.52 co2l1 = 0.206" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "40 out of 50 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "10 out of 475 1-min values rejected as stack air" [1] "10 out of 475 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"