[1] "2025-04-30 02:55:38 MDT" [1] "1704" "170514" "d134" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/170514a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 84300 63 [1] 84300 [1] 84300 [1] "testing skipping spike filter" [1] 84300 [1] 84300 [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 02:55:42 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.863, ave o2scale2 = 0.888" [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] "408 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.863, ave o2scale2 = 0.888" [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] "409 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 02:55:42 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 02:55:42 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 02:55:58 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 02:56:00 MDT" [1] "reading in recalculated plot titles" [1] "Removed 409 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 995 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 02:56:02 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 CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10100 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 4.524 co2off = 376.97 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 6.15 minutes" [1] "Average Cal: 5.36 minutes" [1] "Shortest Cal: 1.02 minutes" [1] "Longest Cal: 8.21 minutes" [1] "Removed 5 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 4 [3,] 5 5 [4,] 6 6 [5,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 194 202 0.1417100 0.1474065 0.1452719 3 5.625857 336.5743 1.165765 3 4 203 211 0.1481179 0.1538199 0.1516791 3 8.333920 169.5236 1.165789 4 3 212 220 0.1545316 0.1602220 0.1595106 3 4.831580 319.0937 1.165634 7 2 475 482 0.3567403 0.3617189 0.3599408 1 5.617479 336.2170 1.162448 9 2 687 695 0.5575706 0.5632731 0.5611310 1 5.683777 334.7928 1.158336 14 4 863 868 0.7654742 0.7711658 0.7690312 1 8.371365 172.6959 1.152838 16 2 981 986 0.9754922 0.9790485 0.9779814 2 5.746063 338.8239 1.147917 17 4 987 990 0.9826138 0.9847477 0.9843921 2 8.465094 173.3778 1.147337 jfcv2 co2slp o2slp co2sd o2sd 2 1.133467 0.0008169907 2.9651229 0.0020151491 6.963455 3 1.133407 0.0006182357 3.0727588 0.0019269587 7.092058 4 1.133382 -0.0006101937 -0.6301550 0.0023991954 0.683500 7 1.129750 -0.0009136492 1.9047346 0.0020941386 3.674443 9 1.125370 0.0005603141 2.3309116 0.0012716137 6.267422 14 1.119427 0.0018204632 -0.3172535 0.0062434703 2.772227 16 1.114511 -0.0002928374 3.4435768 0.0005077524 4.691934 17 1.113925 -0.0011594321 -5.7888892 0.0008396893 4.192456 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 371.45 co2l1 = 4.486 co2l0 = 0.083" [1] "co2l0 = -162.37 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "137 out of 674 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "537 out of 884 1-min values rejected as stack air" [1] "537 out of 884 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] "making html"