[1] "2025-04-29 16:53:07 MDT" [1] "1210" "120921" "d265" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120921a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 16:53:11 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.78" [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] "773 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.78" [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] "773 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:53:12 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:53:12 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:53:33 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:53:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 773 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 662 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:53:51 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 = -449.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.2" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.4" [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 = -551.1" [1] "Nominal linear calibrations:" [1] "co2scl = 0.447 co2off = 374.52 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 5.01 minutes" [1] "Average Cal: 5.09 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 5 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 3 [3,] 4 4 [4,] 5 6 [5,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 41 46 0.04950978 0.05298727 0.05194396 2 43.12583 -52.27808 4 2 47 52 0.05646441 0.06272454 0.06028994 2 -26.54480 105.47574 8 4 201 207 0.26511936 0.27137847 0.26957041 1 43.07801 -46.29888 13 2 315 319 0.47556450 0.47904465 0.47811744 1 -25.94906 110.68918 16 2 426 429 0.67759586 0.67968189 0.67933414 2 -26.69959 113.32350 17 4 430 434 0.68315932 0.68665246 0.68571448 2 43.11306 -44.74373 20 4 575 580 0.88429115 0.88776852 0.88672514 2 43.16961 -45.62462 21 2 581 585 0.89124537 0.89750463 0.89565014 2 -26.96660 112.38071 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.293443 1.276134 0.0076195144 3.148390103 0.009994969 4.1816803 4 1.293577 1.276261 -0.0002875362 0.137093269 0.006022176 2.2660495 8 1.295593 1.278206 0.0047143241 1.848013664 0.016866109 8.8974228 13 1.299246 1.281794 -0.0110858338 6.500612972 0.020355148 10.5238035 16 1.303432 1.286008 -0.0068022966 2.357171813 0.004817165 1.6692723 17 1.303190 1.285761 -0.0026929159 6.813543251 0.004289795 11.1258304 20 1.305216 1.287747 -0.0061586133 0.001498654 0.009220727 0.3036676 21 1.305029 1.287590 -0.0095495769 0.863800878 0.036272963 3.3039106 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 386.109 co2l1 = 0.444 co2l0 = 0" [1] "co2l0 = -101.66 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "83 out of 250 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "167 out of 532 1-min values rejected as stack air" [1] "13 out of 243 Line 1 1-min values rejected as stack air" [1] "154 out of 289 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"