[1] "2025-04-29 18:09:54 MDT" [1] "1302" "130228" "d059" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130228a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 18:09:58 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.765, ave o2scale2 = 0.772" [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] "76 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.765, ave o2scale2 = 0.772" [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] "76 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:09:59 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:09:59 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:10:19 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:10:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 76 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1265 row(s) with low FLSP" [1] "TEMP: 95 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:10:32 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 = -448.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -625.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.391 co2off = 379.29 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 36.98 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 299.7 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.1690652 0.1746333 0.1725439 2 67.15862 46.86572 2 2 10 27 0.1753289 0.3834550 0.2923558 2 -11.83054 205.08036 3 4 28 37 0.3841505 0.3904111 0.3879768 2 67.12749 43.36639 4 3 38 46 0.3911065 0.3966712 0.3959757 2 39.99293 116.91370 5 4 47 54 0.5866197 0.5921924 0.5902185 2 67.29428 43.33603 6 2 55 61 0.5949745 0.5991506 0.5977599 2 -12.23802 207.66504 8 2 71 79 0.7953993 0.8009672 0.7988782 3 -12.52275 204.06580 9 4 80 86 0.8016628 0.8065306 0.8050008 3 67.29886 42.52304 10 3 87 95 0.8086209 0.8141844 0.8134891 3 39.81960 118.31050 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.304095 1.293259 2.666072e-03 1.746104506 0.007389941 4.111832 2 1.303340 1.292500 5.777891e-04 0.005071565 0.090428269 2.730634 3 1.302426 1.291590 2.934061e-03 -0.488463671 0.013664076 1.414191 4 1.302361 1.291483 2.457671e-05 1.906035907 0.004995887 1.926260 5 1.307235 1.296745 2.442090e-03 -1.658506958 0.007485516 4.511350 6 1.307574 1.297130 3.819841e-03 -0.085452862 0.008052998 1.917740 8 1.311415 1.301172 -1.634340e-02 -0.477013392 0.037311348 1.422560 9 1.311198 1.300921 1.038890e-02 0.645337980 0.021498022 3.840545 10 1.311591 1.301335 7.950652e-03 -1.614538297 0.017903418 1.868501 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.25 co2l1 = 0.388 co2l0 = 0.105" [1] "co2l0 = -122.09 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"