[1] "2017-04-06 11:35:39 MDT"
[1] "1406"   "140815" "d227"  
[1] "reading in high rate data from /scr/raf/stephens/GO2DAT/DIRECT/140815a.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] "2017-04-06 11:35:50 MDT"
[1] "o2scaleopt = wt, ave o2scale1 = 0.838, ave o2scale2 = 0.756"
[1] "1 MR delta diff NA values ( most likely because WTDIFF > 1000 )"
[1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.838, ave o2scale2 = 0.756"
[1] "3 RC delta diff NA values ( most likely because WTDIFF > 1000 )"
[1] "2017-04-06 11:35:52 MDT"
[1] "Plotting 1-second data"
[1] "2017-04-06 11:35:52 MDT"
[1] "reading in high-rate plot titles"
[1] "Plotting 1-minute data"
[1] "2017-04-06 11:36:11 MDT"
[1] "reading in medium-rate plot titles"
[1] "Plotting recalculated 1-minute data"
[1] "2017-04-06 11:36:13 MDT"
[1] "reading in recalculated plot titles"
[1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 1000 )"
[1] "TEMP: 1429 0 TRUE"
[1] "Plotting O2 and CO2 concentration data"
[1] "2017-04-06 11:36:18 MDT"
[1] "Reading in cylinder log"
Read 68 records
[1] "Finding cylinder IDs"
Read 420 records
[1] "position 1 cylinder CC339495 description: HS CO2 = 376.45 O2 = -482.7"
[1] "position 2 cylinder CB08905 description: MS CO2 = 394.8 O2 = -548.4"
[1] "position 3 cylinder CC339490 description: LS CO2 = 404.03 O2 = -642.2"
[1] "position 4 cylinder CC332564 description: LT CO2 = 393.91 O2 = -579.2"
[1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA"
[1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA"
[1] "Nominal linear calibrations:"
[1] "co2scl = 0.472  co2off = 385.97 o2scla = 1  o2offa = 0"
[1] "Finding cal and sample periods"
[1] "Plotting MR jog shapes"
[1] "Median Cal: 9.01 minutes"
[1] "Average Cal: 8.73 minutes"
[1] "Shortest Cal: 8.01 minutes"
[1] "Longest Cal: 9.02 minutes"
[1] "Removed 1 calibration row(s) with high SD"
[1] "Plotting calibration sds and slopes"
[1] "cbind(calstart,calend)"
     calstart calend
[1,]        1      2
[2,]        4      6
[3,]        7      8
[4,]        9     11
[5,]       12     13
[1] "calperiods$grp"
 [1]  2  2 NA  3  3  3  2  2  3  3  3  2  2
[1] "Plotting calibration fits"
[1] "Average calibration parameters:"
[1] "co2l0 = 386.045  co2l1 = 0.472 co2l0 = 0.09"
[1] "co2l0 = -145.25  co2l1 = 0.223"
[1] "Plotting calibration parameters"
[1] "Plotting calibration data"
[1] "145 out of 345 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm"
[1] "200 out of 1241 1-min values rejected as stack air"
[1] "0 out of 0 Line 1 1-min values rejected as stack air"
[1] "200 out of 1241 Line 2 1-min values rejected as stack air"
[1] "JGOFS data found"
[1] "making html"