[1] "2025-04-30 03:26:41 MDT" [1] "1707" "170828" "d240" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170828a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 77220 63 [1] 77220 [1] 77220 [1] "testing skipping spike filter" [1] 77220 [1] 77220 [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 03:26:45 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 1.034" [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] "57 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.869, ave o2scale2 = 1.034" [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] "59 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:26:45 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:26:45 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:27:03 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:27:04 MDT" [1] "reading in recalculated plot titles" [1] "Removed 59 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1141 row(s) with low FLSP" [1] "TEMP: 86 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:27:07 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 396.87 O2 = -495.4" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 409.04 O2 = -699.1" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.466 co2off = 411.04 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.21 minutes" [1] "Average Cal: 65.23 minutes" [1] "Shortest Cal: 6.83 minutes" [1] "Longest Cal: 298.79 minutes" [1] "Removed 2 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 5 [4,] 6 6 [5,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 4 1 7 0.1497447 0.1544881 0.1529081 2 -1.494475 150.3992 1.151286 2 2 8 21 0.1552758 0.3627673 0.2762386 2 -4.229318 337.5375 1.149753 3 4 22 29 0.3635550 0.3690688 0.3670995 1 -1.501479 153.6780 1.148546 5 4 37 43 0.5661823 0.5709345 0.5693504 2 -1.479050 160.1341 1.148640 6 2 44 55 0.5717265 0.7771457 0.6752346 2 -4.215831 306.8529 1.150525 7 4 56 63 0.7795218 0.7850832 0.7830988 1 -1.483875 166.7421 1.152660 9 4 71 78 0.9823740 0.9873767 0.9855902 2 -1.472771 178.0571 1.157306 10 2 79 86 0.9880914 0.9931011 0.9913081 2 -4.201073 328.1021 1.157542 jfcv2 co2slp o2slp co2sd o2sd 1 0.9715689 1.360294e-03 0.79868187 0.0024990623 28.222176 2 0.9688462 -5.183787e-05 -0.04651481 0.0082346387 27.399620 3 0.9668357 -4.723018e-04 2.05684034 0.0013804815 13.635035 5 0.9650468 -1.556290e-03 -4.39691426 0.0028924065 16.725768 6 0.9653880 -5.994817e-06 -0.05816758 0.0016353968 21.015586 7 0.9661181 9.457323e-04 0.29714037 0.0022830900 15.786537 9 0.9670481 3.574924e-04 4.71074435 0.0009426249 14.435233 10 0.9671109 9.626269e-05 0.29539040 0.0012564936 6.390857 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 415.66 co2l1 = 4.453 co2l0 = 0" [1] "co2l0 = -162.52 co2l1 = 0.227" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "making html"