[1] "2025-04-29 17:00:35 MDT" [1] "1210" "121003" "d277" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121003a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 71024 63 [1] 71024 [1] 71024 [1] "testing skipping spike filter" [1] 71024 [1] 71024 [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 17:00:38 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.782" [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] "59 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.782" [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] "59 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:00:38 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:00:38 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:00:56 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:00:57 MDT" [1] "reading in recalculated plot titles" [1] "Removed 60 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1045 row(s) with low FLSP" [1] "TEMP: 78 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:01:05 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 = -449.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.2" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339490 description: WT1 CO2 = 396.43 O2 = -582.3" [1] "position 6 cylinder CC339495 description: WT2 CO2 = 394.29 O2 = -551.2" [1] "Nominal linear calibrations:" [1] "co2scl = 0.442 co2off = 389.03 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.05 minutes" [1] "Average Cal: 90.9 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 299.98 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 9 0.01988573 0.02545367 0.02336541 3 -21.62246 119.79693 2 4 10 19 0.02614922 0.03240865 0.02997423 3 48.58486 -35.88137 3 3 20 28 0.03310420 0.03867141 0.03797592 3 24.58696 24.85539 4 4 29 35 0.23003472 0.23421117 0.23281746 2 48.60644 -36.59858 5 2 36 53 0.23490674 0.44322341 0.35203328 2 -21.10162 118.62731 6 4 54 69 0.44392274 0.65034025 0.54783067 2 48.86639 -39.25057 7 2 70 78 0.65243660 0.65802627 0.65593010 2 -21.64083 122.13995 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.302505 1.284150 0.0045873900 0.8440437781 0.01067584 2.8897997 2 1.302186 1.283846 0.0049813868 0.2803878375 0.01411432 1.7632514 3 1.301724 1.283385 0.0074919090 -0.7857346091 0.01798613 0.7986607 4 1.297174 1.278652 -0.0087604170 1.6906837277 0.01430636 4.6105448 5 1.296297 1.277759 -0.0016978981 0.0065457312 0.25659572 6.9556045 6 1.297553 1.279097 0.0003541859 -0.0007273576 0.05531513 2.2638657 7 1.298641 1.280250 -0.0068373183 -0.3315640649 0.02014594 1.5964519 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 383.817 co2l1 = 0.442 co2l0 = 0.158" [1] "co2l0 = -103.75 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"