[1] "2025-04-29 19:50:25 MDT"
[1] "1311"   "131115" "d319"  
[1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131115a.hr"
[1] "reading in hr file header"
Read 27 items
[1] "Parsing HR flags"
[1] "Doing high rate calculations (mean, sd, slope, shape)"
[1] 10494    63
[1] 10494
[1] 10494
[1] "testing skipping spike filter"
[1] 10494
[1] 10494
[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 19:50:25 MDT"
[1] "o2scaleopt = wt, ave o2scale1 = 0.797, ave o2scale2 = 0.726"
[1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000"
[1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000"
[1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000"
[1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000"
[1] "17 MR delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.797, ave o2scale2 = 0.726"
[1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000"
[1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000"
[1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000"
[1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000"
[1] "17 RC delta diff NA values ( most likely because WTDIFF > 200 )"
[1] "2025-04-29 19:50:26 MDT"
[1] "Plotting 1-second data"
[1] "2025-04-29 19:50:26 MDT"
[1] "reading in high-rate plot titles"
[1] "Plotting 1-minute data"
[1] "2025-04-29 19:50:28 MDT"
[1] "reading in medium-rate plot titles"
[1] "Plotting recalculated 1-minute data"
[1] "2025-04-29 19:50:29 MDT"
[1] "reading in recalculated plot titles"
[1] "Removed 18 row(s) with NAs in them ( most likely because WTDIFF > 200 )"
[1] "TEMP: 156 0 TRUE"
[1] "Plotting O2 and CO2 concentration data"
[1] "2025-04-29 19:50:30 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 = -446.5"
[1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.3"
[1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2"
[1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2"
[1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8"
[1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5"
[1] "Nominal linear calibrations:"
[1] "co2scl = 1  co2off = 401.93 o2scla = 1  o2offa = 0"
[1] "Finding cal and sample periods"
[1] "Plotting MR jog shapes"
[1] "Median Cal: 1 minutes"
[1] "Average Cal: 1 minutes"
[1] "Shortest Cal: 1 minutes"
[1] "Longest Cal: 1 minutes"
[1] "Removed 1 calibration row(s) with high SD"
[1] "NO CALIBRATION PERIODS"
[1] "JGOFS data found"
[1] "LOXY data found"
[1] "making html"