[1] "2017-04-05 22:27:07 MDT"
[1] "1213A"  "121211" "d346"  
[1] "reading in high rate data from /scr/raf/stephens/GO2DAT/DIRECT/121211a.hr"
[1] "reading in hr file header"
Read 27 items
[1] "Parsing HR flags"
[1] "Doing high rate calculations (mean, sd, slope, shape)"
[1] "recalculating jog averages"
[1] "recalculating jog sds"
[1] "recalculating jog slopes"
[1] "Parsing MR flags"
[1] "Calculating derived concentration values"
[1] "2017-04-05 22:27:16 MDT"
[1] "o2scaleopt = wt, ave o2scale1 = 0.783, ave o2scale2 = 0.792"
[1] "95 MR delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.783, ave o2scale2 = 0.792"
[1] "93 RC delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "2017-04-05 22:27:18 MDT"
[1] "Plotting 1-second data"
[1] "2017-04-05 22:27:18 MDT"
[1] "reading in high-rate plot titles"
[1] "Plotting 1-minute data"
[1] "2017-04-05 22:27:23 MDT"
[1] "reading in medium-rate plot titles"
[1] "Plotting recalculated 1-minute data"
[1] "2017-04-05 22:27:25 MDT"
[1] "reading in recalculated plot titles"
[1] "Removed 93 row(s) with NAs in them ( most likely because WTDIFF > 200 )"
[1] "Removed 1 row(s) with high TFRIDGE"
[1] "Removed 8 row(s) with variable TFCELL"
[1] "TEMP: 806 0 TRUE"
[1] "Plotting O2 and CO2 concentration data"
[1] "2017-04-05 22:27:28 MDT"
[1] "Reading in cylinder log"
Read 68 records
[1] "Finding cylinder IDs"
Read 420 records
[1] "position 1 cylinder CB08910 description: HS CO2 = 374.15 O2 = -454.5"
[1] "position 2 cylinder CB08905 description: MS CO2 = 394.77 O2 = -549.6"
[1] "position 3 cylinder CB08911 description: LS CO2 = 405.13 O2 = -633.3"
[1] "position 4 cylinder CC332564 description: LT CO2 = 393.88 O2 = -579"
[1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.15 O2 = -1145.4"
[1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA"
[1] "Nominal linear calibrations:"
[1] "co2scl = 0.375  co2off = 379.25 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: 9.03 minutes"
[1] "Plotting calibration sds and slopes"
[1] "cbind(calstart,calend)"
     calstart calend
[1,]        1      2
[2,]        3      5
[1] "calperiods$grp"
[1] 2 2 3 3 3
[1] "Plotting calibration fits"
[1] "Average calibration parameters:"
[1] "co2l0 = 379.083  co2l1 = 0.375 co2l0 = 0.118"
[1] "co2l0 = -122.7  co2l1 = 0.232"
[1] "Plotting calibration parameters"
[1] "Plotting calibration data"
[1] "192 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm"
[1] "88 out of 737 1-min values rejected as stack air"
[1] "54 out of 664 Line 1 1-min values rejected as stack air"
[1] "34 out of 73 Line 2 1-min values rejected as stack air"
[1] "JGOFS data found"
[1] "LOXY data found"
[1] "making html"