[1] "2025-04-30 00:35:10 MDT" [1] "1509" "151108" "d312" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/151108a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85980 63 [1] 85980 [1] 85980 [1] "testing skipping spike filter" [1] 85980 [1] 85980 [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 00:35:14 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.88, ave o2scale2 = 0.782" [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] "54 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.88, ave o2scale2 = 0.782" [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] "54 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 00:35:15 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 00:35:15 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 00:35:32 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 00:35:34 MDT" [1] "reading in recalculated plot titles" [1] "Removed 54 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 1272 row(s) with low FLSP" [1] "TEMP: 106 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 00:35:36 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.68 O2 = -522.3" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.11 O2 = -572.1" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.945 co2off = 395.44 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.01 minutes" [1] "Average Cal: 66.13 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 299.67 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 8 [5,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 4 1 9 0.09321415 0.09878142 0.09669277 2 7.389420 374.2972 2 2 10 27 0.09947894 0.30758145 0.21649509 2 -15.391441 484.9883 3 4 28 37 0.30827688 0.31453634 0.31210213 2 7.414625 369.0330 4 3 38 46 0.31523174 0.32079569 0.32010022 2 -6.201911 476.1516 5 4 47 55 0.51074540 0.51631319 0.51422562 2 7.381116 373.7898 6 2 56 73 0.51700859 0.72503267 0.63397952 2 -15.419250 488.1126 7 4 74 82 0.72572810 0.73129248 0.72920586 2 7.341750 371.0656 8 3 83 90 0.74033712 0.74520602 0.74485810 2 -6.274667 473.2064 9 4 91 99 0.92816209 0.93372601 0.93163981 2 7.253027 369.9991 10 2 100 106 0.93442144 0.93859494 0.93720391 2 -15.544025 485.6444 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.135119 1.277132 0.0005765349 0.5286630323 0.002439026 4.6958895 2 1.137421 1.279745 0.0000781762 -0.0041238943 0.013984226 4.7088496 3 1.139180 1.281799 0.0026048438 0.2991080892 0.008599146 1.8044437 4 1.139494 1.281889 -0.0005237827 -1.4442058327 0.002100923 1.7301361 5 1.140337 1.283246 0.0019185062 0.4706883093 0.006881193 4.4133883 6 1.139233 1.281942 -0.0001387640 -0.0005595384 0.021344874 4.1649562 7 1.138067 1.280594 0.0024269111 0.3215544858 0.007310363 1.9831200 8 1.137247 1.279810 0.0031020551 -0.2655893720 0.005951584 0.1881756 9 1.132123 1.274063 0.0020640593 -0.4074287457 0.005677401 2.8517261 10 1.131781 1.273499 -0.0055230353 3.4864633967 0.008855017 5.5799221 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 399.236 co2l1 = 0.945 co2l0 = 0" [1] "co2l0 = -198.46 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "NO SAMPLE PERIODS" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"