[1] "2025-04-30 01:15:11 MDT" [1] "1601" "160210" "d041" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160210a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 75480 63 [1] 75480 [1] 75480 [1] "testing skipping spike filter" [1] 75480 [1] 75480 [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 01:15:15 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.908, ave o2scale2 = 0.799" [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 = 0.908, ave o2scale2 = 0.799" [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] "1 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:15:15 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:15:15 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:15:30 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:15:31 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 38 row(s) with low FLSP" [1] "Removed 12 row(s) with high TFRIDGE" [1] "TEMP: 1205 0 TRUE" [1] "Removed 111 row(s) with -999.99 for a Licor jog SD" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:15:35 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 = -522.5" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [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 = 0.945 co2off = 402 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.05 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 245 254 0.1722106 0.1784740 0.1760385 3 -18.328109 -156.2907 3 4 255 264 0.1791693 0.1854324 0.1829960 3 4.459828 -271.5003 4 3 265 274 0.1861277 0.1923907 0.1913467 3 -9.155602 -167.9310 6 4 545 554 0.3809781 0.3872520 0.3848067 2 4.540133 -270.9768 7 2 555 564 0.3879471 0.3942100 0.3917753 2 -18.238195 -155.4212 9 2 845 854 0.5898044 0.5960639 0.5936297 3 -18.206859 -155.2328 10 4 855 864 0.5967593 0.6030189 0.6005845 3 4.574813 -268.6299 11 3 865 874 0.6037165 0.6100046 0.6089613 3 -9.019344 -170.0440 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.097159 1.246511 5.714468e-04 -0.3051010 0.002907762 3.221496 3 1.097234 1.246595 3.473719e-04 -0.2100767 0.004613130 2.000227 4 1.097384 1.246791 -1.044540e-04 1.9376883 0.001553703 2.715395 6 1.102020 1.252472 3.229630e-03 0.4153193 0.007979426 1.879632 7 1.102384 1.252888 -4.361594e-05 0.3668547 0.001571026 1.551213 9 1.105229 1.256195 -1.456108e-03 0.7584197 0.004072001 2.626645 10 1.105408 1.256375 3.625777e-03 0.4164234 0.009637862 2.851369 11 1.105562 1.256540 1.446695e-03 -1.2908317 0.003743149 1.669892 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 401.903 co2l1 = 0.944 co2l0 = -0.013" [1] "co2l0 = -56.22 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "75 out of 205 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "130 out of 987 1-min values rejected as stack air" [1] "130 out of 987 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"