[1] "2025-04-29 22:09:32 MDT" [1] "1409" "141008" "d281" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141008a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 22:09:36 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.832, ave o2scale2 = 0.749" [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] "73 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.832, ave o2scale2 = 0.749" [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] "73 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:09:36 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:09:36 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:09:57 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:09:58 MDT" [1] "reading in recalculated plot titles" [1] "Removed 73 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1271 row(s) with low FLSP" [1] "TEMP: 92 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:10:04 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.1" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.5" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.479 co2off = 387.26 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.02 minutes" [1] "Average Cal: 40.63 minutes" [1] "Shortest Cal: 8.01 minutes" [1] "Longest Cal: 299.51 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 7 [4,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 2 1 9 0.1716764 0.1772486 0.1751621 3 -32.621625 273.4649 1.215505 2 4 10 19 0.1779442 0.1842037 0.1817691 3 25.059750 141.1726 1.215351 3 3 20 28 0.1848993 0.1904630 0.1897674 3 5.531741 201.0651 1.215250 4 4 29 37 0.3804468 0.3860148 0.3839273 2 24.890429 147.8848 1.210094 5 2 38 55 0.3867100 0.5947001 0.5036610 2 -32.901461 279.3241 1.204876 6 4 56 65 0.5953954 0.6016545 0.5992204 2 24.660141 141.9499 1.200304 7 3 66 74 0.6023499 0.6079143 0.6072186 2 5.142241 217.0177 1.200039 8 4 75 83 0.7978080 0.8033756 0.8012891 2 24.324830 139.4707 1.190275 9 2 84 92 0.8040709 0.8096385 0.8075515 2 -33.296732 282.8765 1.189883 jfcv2 co2slp o2slp co2sd o2sd 1 1.348228 0.0133541479 6.147688640 0.034233649 14.388863 2 1.348048 0.0179649267 6.082029200 0.049968025 19.554962 3 1.348041 0.0016896258 -0.955101523 0.005759438 1.527881 4 1.342703 0.0061853882 -1.120619601 0.014487127 12.259890 5 1.337998 -0.0008345389 0.003661551 0.126011362 10.358780 6 1.333827 0.0079806803 -2.514956867 0.020198064 7.164132 7 1.333662 -0.0001470559 -2.318452248 0.001447622 2.551830 8 1.322488 0.0039482024 0.131504529 0.009609140 3.583148 9 1.322117 -0.0064941632 1.682655380 0.014807652 5.175046 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 392.438 co2l1 = 0.478 co2l0 = 0.079" [1] "co2l0 = -146.65 co2l1 = 0.234" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"