[1] "2025-04-29 18:22:15 MDT"
[1] "1303"   "130330" "d089"  
[1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130330a.hr"
[1] "reading in hr file header"
Read 27 items
[1] "Parsing HR flags"
[1] "Doing high rate calculations (mean, sd, slope, shape)"
[1] 22620    63
[1] 22620
[1] 22620
[1] "testing skipping spike filter"
[1] 22620
[1] 22620
[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 18:22:16 MDT"
[1] "o2scaleopt = wt, ave o2scale1 = 0.748, ave o2scale2 = 0.761"
[1] "Removing 6 MR FC 1 jog(s) with WT SD > 1000"
[1] "Removing 7 MR FC 2 jog(s) with WT SD > 1000"
[1] "Removing 6 MR FC 1 jog(s) with SP SD > 1000"
[1] "Removing 6 MR FC 2 jog(s) with SP SD > 1000"
[1] "130 MR delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.748, ave o2scale2 = 0.761"
[1] "Removing 6 RC FC 1 jog(s) with WT SD > 1000"
[1] "Removing 7 RC FC 2 jog(s) with WT SD > 1000"
[1] "Removing 6 RC FC 1 jog(s) with SP SD > 1000"
[1] "Removing 6 RC FC 2 jog(s) with SP SD > 1000"
[1] "130 RC delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "2025-04-29 18:22:16 MDT"
[1] "Plotting 1-second data"
[1] "2025-04-29 18:22:16 MDT"
[1] "reading in high-rate plot titles"
[1] "Plotting 1-minute data"
[1] "2025-04-29 18:22:19 MDT"
[1] "reading in medium-rate plot titles"
[1] "Plotting recalculated 1-minute data"
[1] "2025-04-29 18:22:19 MDT"
[1] "reading in recalculated plot titles"
[1] "Removed 130 row(s) with NAs in them ( most likely because WTDIFF > 200 )"
[1] "TEMP: 246 0 TRUE"
[1] "Plotting O2 and CO2 concentration data"
[1] "2025-04-29 18:22:20 MDT"
[1] "Reading in cylinder log"
Read 78 records
[1] "Finding cylinder IDs"
Read 536 records
[1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -448.3"
[1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8"
[1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.4"
[1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2"
[1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA"
[1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA"
[1] "Nominal linear calibrations:"
[1] "co2scl = 0.454  co2off = 359.95 o2scla = 1  o2offa = 0"
[1] "Finding cal and sample periods"
[1] "Plotting MR jog shapes"
[1] "Median Cal: 8.52 minutes"
[1] "Average Cal: 8.52 minutes"
[1] "Shortest Cal: 8.02 minutes"
[1] "Longest Cal: 9.02 minutes"
[1] "Plotting calibration sds and slopes"
[1] "cbind(calstart,calend)"
     calstart calend
[1,]        1      2
[1] "calperiods"
  type posi pose     timei     timee     timea grp    co2sig     o2sig    jfcv1
2    4  182  191 0.9545116 0.9607771 0.9583409   2 68.853789  50.96043 1.346596
3    2  192  200 0.9621694 0.9677368 0.9656479   2  0.427625 206.63634 1.346531
     jfcv2       co2slp     o2slp      co2sd     o2sd
2 1.326181 -0.007186984 -0.515570 0.01816102 3.206353
3 1.326067 -0.013698408  1.337325 0.03033831 4.845656
[1] "Plotting calibration fits"
[1] "Average calibration parameters:"
[1] "co2l0 = 374.119  co2l1 = 0.453 co2l0 = 0"
[1] "co2l0 = -124.07  co2l1 = 0.23"
[1] "Plotting calibration parameters"
[1] "Plotting calibration data"
[1] "20 out of 85 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm"
[1] "65 out of 220 1-min values rejected as stack air"
[1] "0 out of 0 Line 1 1-min values rejected as stack air"
[1] "65 out of 220 Line 2 1-min values rejected as stack air"
[1] "JGOFS data found"
[1] "making html"