[1] "2025-04-30 03:31:17 MDT" [1] "1708" "170911" "d254" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170911a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 76080 63 [1] 76080 [1] 76080 [1] "testing skipping spike filter" [1] 76080 [1] 76080 [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 03:31:21 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.858, ave o2scale2 = 1.467" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "77 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.858, ave o2scale2 = 1.467" [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] "77 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 03:31:21 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 03:31:21 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 03:31:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 03:31:42 MDT" [1] "reading in recalculated plot titles" [1] "Removed 77 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1189 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 03:31:44 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 = 4.472 co2off = 411.18 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 7.94 minutes" [1] "Average Cal: 7.22 minutes" [1] "Shortest Cal: 4.54 minutes" [1] "Longest Cal: 7.96 minutes" [1] "Removed 3 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 8 [5,] 9 10 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 50 57 0.04015764 0.04568828 0.04371087 2 -1.201292 164.4742 3 2 58 62 0.04647601 0.04963180 0.04884063 2 -3.921000 326.5111 5 2 300 306 0.24838738 0.25390955 0.25217674 2 -3.968443 318.8812 6 4 307 314 0.25469719 0.26021490 0.25824225 2 -1.240083 164.7042 10 4 536 543 0.45666082 0.46218293 0.46021096 2 -1.221865 174.3351 11 2 544 550 0.46297054 0.46849262 0.46643872 2 -3.941018 337.5698 13 2 781 785 0.66728015 0.67044797 0.66965160 2 -3.971521 326.6232 14 4 786 792 0.67123556 0.67674902 0.67501623 2 -1.260280 161.5953 17 4 1029 1036 0.87316534 0.87867876 0.87670966 2 -1.245427 169.4982 18 2 1037 1044 0.87946641 0.88498843 0.88301722 2 -3.971375 332.6144 19 5 1045 1052 0.88577607 0.89129821 0.89090380 NA -2.306687 207.8992 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.165134 0.6900613 -0.0004168849 0.76246020 0.0013466780 4.7762575 3 1.165273 0.6900194 -0.0003835199 12.09826225 0.0006959705 13.7888884 5 1.160670 0.6855761 0.0010267025 4.11972727 0.0026548039 18.3076447 6 1.160693 0.6855614 -0.0001008910 1.16199328 0.0008260095 8.2488549 10 1.166602 0.6820401 -0.0003444060 0.05502862 0.0011894173 14.7452133 11 1.166846 0.6820578 0.0001412043 11.85220046 0.0005863870 28.5507304 13 1.166965 0.6788308 -0.0017713801 10.85925935 0.0020975556 12.4519587 14 1.166636 0.6784506 0.0004220428 -1.87964564 0.0010775597 13.8991446 17 1.168212 0.6764983 -0.0008895518 0.82021052 0.0018983614 7.4578825 18 1.168327 0.6765089 -0.0010377541 0.08501130 0.0024366986 7.3286196 19 1.168076 0.6762582 -0.0481648848 -1.13126421 0.0386257079 0.9086143 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 414.557 co2l1 = 4.474 co2l0 = 0" [1] "co2l0 = -162.8 co2l1 = 0.225" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "103 out of 259 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "156 out of 1039 1-min values rejected as stack air" [1] "156 out of 1039 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"