[1] "2025-04-30 03:28:15 MDT" [1] "1707" "170831" "d243" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170831a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84060 63 [1] 84060 [1] 84060 [1] "testing skipping spike filter" [1] 84060 [1] 84060 [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 03:28:19 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.871, ave o2scale2 = 1.089" [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] "37 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.871, ave o2scale2 = 1.089" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "39 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:28:20 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:28:20 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:28:39 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:28:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 39 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1265 row(s) with low FLSP" [1] "TEMP: 96 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:28:45 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 = 4.465 co2off = 412.55 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.21 minutes" [1] "Average Cal: 65.43 minutes" [1] "Shortest Cal: 6.17 minutes" [1] "Longest Cal: 298.47 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 7 [5,] 8 9 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 8 0.06180877 0.06679346 0.06501536 2 -1.305656 172.8676 2 2 9 24 0.06750495 0.27465854 0.18582493 2 -4.051330 326.4796 3 4 25 33 0.27536999 0.28106140 0.27892686 2 -1.331821 168.6960 4 3 34 41 0.28177303 0.28676212 0.28640652 2 -4.862104 308.6930 5 4 42 49 0.47751545 0.48252546 0.48073080 2 -1.342760 181.1345 6 2 50 65 0.48323953 0.69051360 0.60163062 2 -4.050542 328.9821 7 4 66 73 0.69122792 0.69623487 0.69444977 1 -1.294490 176.9675 9 4 81 88 0.89350414 0.89850289 0.89671742 2 -1.296167 171.4552 10 2 89 96 0.89921704 0.90422017 0.90243266 2 -4.028490 324.4374 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.150852 0.9269053 -6.800215e-05 0.06740364 0.0002523329 6.625084 2 1.149090 0.9240071 -8.733118e-05 -0.04038590 0.0134309449 13.158373 3 1.147503 0.9215768 9.607236e-04 -0.63296991 0.0022425887 5.051548 4 1.147342 0.9212954 -1.847995e-04 1.50140685 0.0012460354 1.087267 5 1.144861 0.9165923 -4.665845e-04 -2.56950160 0.0013225311 6.321744 6 1.145978 0.9155453 1.390480e-04 -0.03779519 0.0211788308 9.975263 7 1.146671 0.9145755 7.589658e-04 -1.64380832 0.0017380919 19.131945 9 1.153357 0.9163262 -1.170273e-03 2.20073839 0.0028711024 5.052245 10 1.153612 0.9164240 -5.255096e-04 1.60705285 0.0010806658 5.033110 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 414.892 co2l1 = 4.459 co2l0 = 0" [1] "co2l0 = -166.48 co2l1 = 0.237" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"