[1] "2025-04-29 20:21:23 MDT" [1] "1401" "140124" "d024" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140124a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86280 63 [1] 86280 [1] 86280 [1] "testing skipping spike filter" [1] 86280 [1] 86280 [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 20:21:27 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.741" [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] "16 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.815, ave o2scale2 = 0.741" [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] "16 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:21:27 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:21:27 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:21:42 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:21:44 MDT" [1] "reading in recalculated plot titles" [1] "Removed 16 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1420 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:21:52 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -475.7" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -542.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.21 O2 = -633.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 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 = 0.459 co2off = 379.27 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 6 [3,] 7 8 [4,] 9 11 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 72 81 0.05086820 0.05712801 0.05469385 2 54.710805 164.5999 3 2 82 91 0.05782347 0.06408330 0.06164887 2 -5.896422 298.5171 5 2 367 376 0.25954207 0.26581536 0.26338007 3 -5.816320 302.3433 6 4 377 386 0.26651076 0.27277049 0.27033619 3 54.598953 157.1183 7 5 387 396 0.27346583 0.27972569 0.27868226 NA 29.186312 221.9181 8 3 397 406 0.28042133 0.28668108 0.28563749 3 33.965758 246.3414 10 4 667 676 0.46823093 0.47449074 0.47205627 2 54.617719 161.9376 11 2 677 686 0.47518634 0.48144907 0.47901398 2 -5.541359 301.0410 13 2 966 975 0.67694586 0.68320923 0.68077183 3 -5.324477 304.0194 14 4 976 985 0.68390457 0.69016751 0.68773129 3 54.531117 161.3549 15 3 986 995 0.69086291 0.69712234 0.69607902 3 34.045734 245.4941 17 4 1256 1265 0.88562523 0.89188455 0.88945060 2 54.632102 164.4410 18 2 1266 1275 0.89257989 0.89883915 0.89640531 2 -5.213523 299.4030 19 5 1276 1285 0.89953472 0.90579407 0.90475107 NA 29.611031 227.7107 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.232222 1.354909 -0.0048030322 2.1155303 0.013910806 5.881833 3 1.232006 1.354702 0.0133001758 1.4272544 0.033797235 4.680914 5 1.228758 1.351168 0.0112987797 2.7320189 0.030609625 7.138090 6 1.228647 1.351041 0.0030546996 1.1261132 0.009405590 8.115961 7 1.228659 1.351064 -0.0380631474 0.3159152 0.026958446 1.938720 8 1.228641 1.351062 -0.0003853508 0.1157143 0.007302033 1.780990 10 1.227652 1.350180 -0.0016862859 2.6116436 0.007226872 7.572393 11 1.227666 1.350189 -0.0058285174 2.4383319 0.015139152 6.828729 13 1.226462 1.348844 -0.0044003508 0.9646519 0.012705671 3.847992 14 1.226266 1.348600 0.0024153025 1.4102106 0.008596254 6.623016 15 1.226204 1.348507 -0.0077513255 0.7918663 0.022023596 1.277047 17 1.225488 1.347547 -0.0018121357 3.5189879 0.004910577 10.984169 18 1.225581 1.347653 -0.0079021032 2.8366273 0.021050639 8.178782 19 1.225352 1.347416 -0.0517478152 1.7890193 0.036636970 2.409460 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.183 co2l1 = 0.459 co2l0 = 0.027" [1] "co2l0 = -150.8 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "104 out of 185 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "81 out of 1228 1-min values rejected as stack air" [1] "81 out of 1228 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"