[1] "2025-04-30 02:47:29 MDT"
[1] "1704"   "170426" "d116"  
[1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170426a.hr"
[1] "reading in hr file header"
Read 27 items
[1] "Parsing HR flags"
[1] "Doing high rate calculations (mean, sd, slope, shape)"
[1] 84240    63
[1] 84240
[1] 84240
[1] "testing skipping spike filter"
[1] 84240
[1] 84240
[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 02:47:33 MDT"
[1] "o2scaleopt = wt, ave o2scale1 = 1.111, ave o2scale2 = 0.882"
[1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000"
[1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000"
[1] "Removing 2 MR FC 1 jog(s) with SP SD > 1000"
[1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000"
[1] "308 MR delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.111, ave o2scale2 = 0.882"
[1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000"
[1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000"
[1] "Removing 2 RC FC 1 jog(s) with SP SD > 1000"
[1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000"
[1] "308 RC delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "2025-04-30 02:47:33 MDT"
[1] "Plotting 1-second data"
[1] "2025-04-30 02:47:33 MDT"
[1] "reading in high-rate plot titles"
[1] "Plotting 1-minute data"
[1] "2025-04-30 02:47:54 MDT"
[1] "reading in medium-rate plot titles"
[1] "Plotting recalculated 1-minute data"
[1] "2025-04-30 02:47:55 MDT"
[1] "reading in recalculated plot titles"
[1] "Removed 308 row(s) with NAs in them ( most likely because WTDIFF > 200 )"
[1] "TEMP: 1095 0 TRUE"
[1] "Plotting O2 and CO2 concentration data"
[1] "2025-04-30 02:47:58 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 = 4.462  co2off = 380.57 o2scla = 1  o2offa = 0"
[1] "Finding cal and sample periods"
[1] "Plotting MR jog shapes"
[1] "Median Cal: 7.18 minutes"
[1] "Average Cal: 6 minutes"
[1] "Shortest Cal: 1.02 minutes"
[1] "Longest Cal: 8.21 minutes"
[1] "Removed 13 calibration row(s) with high SD"
[1] "Plotting calibration sds and slopes"
[1] "cbind(calstart,calend)"
     calstart calend
[1,]        1      1
[1] "calperiods"
  type posi pose     timei     timee     timea grp   co2sig    o2sig     jfcv1
7    2  327  335 0.3064552 0.3121438 0.3100105   1 4.923446 323.7849 0.9002071
     jfcv2       co2slp   o2slp       co2sd     o2sd
7 1.136128 0.0003313714 3.21081 0.002197723 25.62655
[1] "Plotting calibration fits"
[1] "Average calibration parameters:"
[1] "co2l0 = 396.866  co2l1 = 0 co2l0 = 0"
[1] "co2l0 = -89.05  co2l1 = 0"
[1] "Plotting calibration parameters"
[1] "Plotting calibration data"
[1] "0 out of 0 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm"
[1] "0 out of 962 1-min values rejected as stack air"
[1] "0 out of 962 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"