[1] "2025-04-29 16:36:57 MDT" [1] "1206" "120617" "d169" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120617a.hr" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120617b.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 76623 63 [1] 76623 [1] 76623 [1] "testing skipping spike filter" [1] 76623 [1] 76623 [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 16:37:01 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.788, ave o2scale2 = 0.796" [1] "Removing 1 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 1 MR FC 2 jog(s) with SP SD > 1000" [1] "140 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.788, ave o2scale2 = 0.796" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "140 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:37:01 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:37:01 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:37:09 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:37:11 MDT" [1] "reading in recalculated plot titles" [1] "Removed 140 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 3 row(s) with high TFRIDGE" [1] "TEMP: 1133 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:37:14 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 374.31 O2 = -450.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.95 O2 = -543.4" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339495 description: WT1 CO2 = 394.28 O2 = -550.7" [1] "position 6 cylinder CC339490 description: WT2 CO2 = 396.42 O2 = -582.4" [1] "Nominal linear calibrations:" [1] "co2scl = 0.968 co2off = 373.97 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.03 minutes" [1] "Average Cal: 8.35 minutes" [1] "Shortest Cal: 5.02 minutes" [1] "Longest Cal: 9.32 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 13 [6,] 14 15 [7,] 17 18 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 112 120 0.1680251 0.1744656 0.1718038 2 17.436639 -64.104119 3 2 121 127 0.1773316 0.1816305 0.1801975 2 -14.880150 91.495164 5 2 257 266 0.2933779 0.2996473 0.2972098 3 -14.605109 91.623088 6 4 267 276 0.3003442 0.3066157 0.3041771 3 17.661148 -59.477639 7 3 277 286 0.3073127 0.3135883 0.3125424 3 6.884625 2.833099 9 4 437 446 0.4188393 0.4251115 0.4226718 2 17.793305 -64.951620 10 2 447 456 0.4258079 0.4320796 0.4296414 2 -14.373937 96.596596 11 5 457 466 0.4327762 0.4390482 0.4380028 NA 4.560125 -17.214951 13 2 617 626 0.5445075 0.5507836 0.5483429 3 -14.234063 86.821238 14 4 627 636 0.5514806 0.5577501 0.5553120 3 17.905703 -65.348117 15 3 637 646 0.5584467 0.5647209 0.5636751 3 7.175734 -1.567118 17 4 796 805 0.6699790 0.6762558 0.6738154 2 18.017539 -67.042631 18 2 806 815 0.6769525 0.6832247 0.6807848 2 -14.081539 90.542234 21 2 861 866 0.7839322 0.7881424 0.7869117 2 -13.949569 93.006794 22 4 867 876 0.7888536 0.7953257 0.7928084 2 18.139344 -70.604684 23 5 877 886 0.7960448 0.8024894 0.8014146 NA 5.051719 -17.359010 25 4 1011 1019 0.8997962 0.9053948 0.9033037 2 18.195313 -68.926722 26 2 1020 1025 0.9060917 0.9095762 0.9085311 2 -13.837078 82.408470 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.261652 1.249430 3.795435e-05 0.3641645 0.000867801 2.591666 3 1.260642 1.248360 -5.173241e-03 -0.8863482 0.008840337 1.447736 5 1.267898 1.255973 3.024914e-03 0.3509713 0.008469862 1.739530 6 1.268100 1.256162 -1.194781e-03 -0.8492030 0.006222165 5.401843 7 1.268316 1.256383 4.711404e-03 1.6056982 0.011811437 3.042217 9 1.269172 1.257330 -7.909541e-05 0.8866209 0.004118019 2.737648 10 1.269305 1.257492 -2.361457e-03 3.5924982 0.008586222 10.241901 11 1.269324 1.257517 -2.814913e-02 0.5946980 0.019975767 1.126962 13 1.269620 1.257697 1.718436e-04 0.1153517 0.001571226 3.288994 14 1.269493 1.257560 8.268794e-04 -0.6620079 0.005392905 3.000543 15 1.269667 1.257730 1.084748e-03 4.2204408 0.002914279 6.088818 17 1.270098 1.258269 4.289713e-04 0.2831494 0.001626352 2.042483 18 1.270129 1.258287 -2.695417e-03 0.9812584 0.010009534 3.407736 21 1.270369 1.258544 4.004778e-03 -1.6757474 0.007109263 8.779777 22 1.270245 1.258475 3.321838e-03 -0.6184672 0.008684513 4.277294 23 1.270174 1.258385 -2.417498e-02 2.6947781 0.017633475 3.711075 25 1.271347 1.259467 2.668813e-03 1.3258989 0.006950064 3.898186 26 1.271536 1.259694 -4.304086e-03 -0.2472594 0.006308554 6.152168 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 388.079 co2l1 = 0.964 co2l0 = -0.003" [1] "co2l0 = -97.43 co2l1 = 0.229" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "71 out of 718 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "647 out of 883 1-min values rejected as stack air" [1] "647 out of 883 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"