[1] "2025-04-29 23:54:04 MDT" [1] "1504" "150509" "d129" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150509a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85834 63 [1] 85834 [1] 85834 [1] "testing skipping spike filter" [1] 85834 [1] 85834 [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 23:54:08 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.827, ave o2scale2 = 0.743" [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 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "124 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.827, ave o2scale2 = 0.743" [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] "122 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:54:08 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:54:08 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:54:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:54:24 MDT" [1] "reading in recalculated plot titles" [1] "Removed 122 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1306 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:54:27 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 = -478.2" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.959 co2off = 415.4 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.68 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 257 266 0.1819097 0.1881725 0.1857355 3 -35.702188 397.5031 3 4 267 276 0.1888681 0.1951284 0.1926930 3 -6.850844 250.9130 4 3 277 286 0.1958237 0.2020824 0.2010394 3 -18.285234 341.5630 6 4 541 550 0.3906123 0.3968723 0.3944379 2 -6.851195 254.8771 7 2 551 560 0.3975677 0.4038275 0.4013930 2 -35.711289 396.5504 8 5 561 570 0.4045231 0.4107870 0.4097432 NA -17.707875 318.5488 10 2 779 788 0.5993657 0.6056250 0.6031909 3 -35.720375 410.6153 11 4 789 793 0.6063206 0.6111894 0.6104938 3 -6.859567 229.7962 12 3 794 801 0.6139711 0.6195389 0.6191912 3 -18.266900 353.0456 14 3 834 843 0.6566840 0.6629429 0.6618998 3 -18.281383 353.3659 15 2 844 851 0.6650297 0.6698981 0.6681592 3 -35.718052 398.9681 16 4 852 861 0.6705936 0.6768565 0.6744209 3 -6.860508 265.9488 19 4 1122 1131 0.8653793 0.8716388 0.8692045 2 -6.854945 250.2545 20 2 1132 1141 0.8723341 0.8785972 0.8761629 2 -35.702477 401.2296 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.209846 1.345462 -0.0010390273 -0.446368611 0.003017434 2.520224 3 1.209880 1.345500 0.0003950842 0.617613064 0.004190231 1.855312 4 1.209716 1.345311 0.0004593058 0.035376656 0.006126617 1.341719 6 1.208944 1.344479 0.0007243609 0.005143736 0.003879237 1.436774 7 1.208912 1.344468 -0.0032277044 0.373593399 0.008462888 2.663370 8 1.208921 1.344515 -0.0024960479 1.592586854 0.001767767 2.844639 10 1.209176 1.350615 0.0005735602 4.873570072 0.003367054 18.884370 11 1.209160 1.349922 0.0082105627 -20.783492315 0.009126415 20.823763 12 1.209184 1.349840 0.0027059760 18.861282508 0.006793973 13.355279 14 1.208780 1.348178 0.0021269612 -8.038606975 0.007140056 11.490534 15 1.209044 1.348250 -0.0004688922 -0.336884670 0.001376372 1.633562 16 1.209055 1.348161 0.0035005942 -7.321065101 0.009153297 21.708132 19 1.209557 1.346730 -0.0001419284 -2.600905303 0.001414781 9.186801 20 1.209526 1.346657 -0.0023350767 -0.797049895 0.006870123 6.935280 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 410.801 co2l1 = 0.957 co2l0 = 0.022" [1] "co2l0 = -167.03 co2l1 = 0.212" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "15 out of 15 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 1099 1-min values rejected as stack air" [1] "0 out of 1099 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"