[1] "2025-04-30 00:23:41 MDT"
[1] "1508"   "151011" "d284"  
[1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/151011a.hr"
[1] "reading in hr file header"
Read 27 items
[1] "Parsing HR flags"
[1] "Doing high rate calculations (mean, sd, slope, shape)"
[1] 10860    63
[1] 10860
[1] 10860
[1] "testing skipping spike filter"
[1] 10860
[1] 10860
[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 00:23:42 MDT"
[1] "o2scaleopt = wt, ave o2scale1 = 0.865, ave o2scale2 = 0.771"
[1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000"
[1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000"
[1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000"
[1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000"
[1] "43 MR delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.865, ave o2scale2 = 0.771"
[1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000"
[1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000"
[1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000"
[1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000"
[1] "42 RC delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "2025-04-30 00:23:42 MDT"
[1] "Plotting 1-second data"
[1] "2025-04-30 00:23:42 MDT"
[1] "reading in high-rate plot titles"
[1] "Plotting 1-minute data"
[1] "2025-04-30 00:23:43 MDT"
[1] "reading in medium-rate plot titles"
[1] "Plotting recalculated 1-minute data"
[1] "2025-04-30 00:23:43 MDT"
[1] "reading in recalculated plot titles"
[1] "Removed 42 row(s) with NAs in them ( most likely because WTDIFF > 200 )"
[1] "Removed 125 row(s) with low FLSP"
[1] "Removed 2 row(s) with variable TFCELL"
[1] "TEMP: 11 0 TRUE"
[1] "Plotting O2 and CO2 concentration data"
[1] "2025-04-30 00:23:44 MDT"
[1] "Reading in cylinder log"
Read 78 records
[1] "Finding cylinder IDs"
Read 536 records
[1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.3"
[1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1"
[1] "position 3 cylinder CB08911 description: LS CO2 = 406.19 O2 = -648.5"
[1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.1"
[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 = 0.941  co2off = 396.37 o2scla = 1  o2offa = 0"
[1] "Finding cal and sample periods"
[1] "Plotting MR jog shapes"
[1] "Median Cal: 4.52 minutes"
[1] "Average Cal: 4.52 minutes"
[1] "Shortest Cal: 4.02 minutes"
[1] "Longest Cal: 5.01 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
1    2    1    6 0.8858091 0.8892912 0.8882470   2 -1.058672 507.0593 1.158301
2    4    7   11 0.8913884 0.8941786 0.8934823   2 21.866042 368.0149 1.158100
     jfcv2       co2slp      o2slp       co2sd      o2sd
1 1.298086 -0.004331128 -16.018795 0.005826791 21.061703
2 1.297737  0.003334845  -5.347126 0.003879198  5.377191
[1] "Plotting calibration fits"
[1] "Average calibration parameters:"
[1] "co2l0 = 385.669  co2l1 = 0.938 co2l0 = 0"
[1] "co2l0 = -183.55  co2l1 = 0.183"
[1] "Plotting calibration parameters"
[1] "Plotting calibration data"
[1] "NO SAMPLE PERIODS"
[1] "JGOFS data found"
[1] "making html"