[1] "2025-04-29 23:44:06 MDT" [1] "1504" "150422" "d112" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150422a.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 23:44:10 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.87, ave o2scale2 = 0.783" [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] "59 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.87, ave o2scale2 = 0.783" [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] "59 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:44:10 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:44:10 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:44:31 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:44:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 59 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1377 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:44:37 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 = -478.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.5" [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 = 0.953 co2off = 403.01 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.82 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,] 6 8 [4,] 9 10 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 63 70 0.04592595 0.05218895 0.05021808 3 -33.668063 272.1814 3 4 71 80 0.05288435 0.05914450 0.05671005 3 -4.647102 122.9367 5 3 90 97 0.06818553 0.07305431 0.07270644 3 -16.115604 228.4267 7 4 330 339 0.25467723 0.26093657 0.25850258 2 -4.548422 123.7522 8 2 340 349 0.26163197 0.26789227 0.26545787 2 -33.585914 268.2107 10 2 618 627 0.46339129 0.46965625 0.46722148 3 -33.380703 267.1545 11 4 628 637 0.47035185 0.47661175 0.47417692 3 -4.371188 122.0810 12 3 638 647 0.47730770 0.48356696 0.48252372 3 -15.861063 217.7733 14 4 917 926 0.67208105 0.67834109 0.67590665 2 -4.333203 124.8451 15 2 927 936 0.67903643 0.68529580 0.68286161 2 -33.343195 267.8137 16 5 937 946 0.68599123 0.69225133 0.69120804 NA -15.194281 188.2262 18 2 1212 1221 0.88079745 0.88706019 0.88462537 3 -33.367094 267.0754 19 4 1222 1231 0.88775579 0.89401508 0.89158075 3 -4.371570 121.9003 20 3 1232 1241 0.89471065 0.90097341 0.89992875 3 -15.856664 208.1760 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.137136 1.261865 -2.863588e-03 3.2090073 0.007434716 12.9140834 3 1.136864 1.261590 1.005025e-03 -0.5110335 0.005604620 3.2049896 5 1.137056 1.261811 4.146916e-03 0.2183151 0.008383826 0.1546615 7 1.142959 1.268362 -6.730674e-04 0.8220611 0.003135829 2.5628988 8 1.143247 1.268697 -4.349511e-03 -0.7330541 0.011594523 3.0350118 10 1.154564 1.282104 -9.840496e-04 1.8981528 0.003323642 5.8415041 11 1.154478 1.282025 2.498938e-03 -1.0233753 0.007796018 2.6483619 12 1.154734 1.282324 3.713902e-04 1.0264840 0.003441637 1.6240052 14 1.156253 1.284173 2.517017e-05 -2.1807056 0.004369608 7.4626846 15 1.156340 1.284266 5.831158e-04 -0.4499291 0.006048210 2.6892852 16 1.156288 1.284210 -5.430486e-03 1.9647317 0.003844893 3.1277195 18 1.155070 1.282931 -1.204247e-03 0.5422446 0.003467805 6.6100030 19 1.154992 1.282839 -1.790694e-04 0.3320712 0.004763542 2.4565442 20 1.154977 1.282839 4.303633e-04 0.2501612 0.005180442 0.8020788 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 408.479 co2l1 = 0.952 co2l0 = 0.011" [1] "co2l0 = -140.71 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "18 out of 60 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "42 out of 1175 1-min values rejected as stack air" [1] "42 out of 1175 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"