[1] "2025-04-29 19:46:42 MDT" [1] "1311" "131109" "d313" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131109a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85433 63 [1] 85433 [1] 85433 [1] "testing skipping spike filter" [1] 85433 [1] 85433 [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 19:46:46 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.736" [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] "35 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.809, ave o2scale2 = 0.736" [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 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "34 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:46:47 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:46:47 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:46:56 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:46:58 MDT" [1] "reading in recalculated plot titles" [1] "Removed 34 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1388 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:47:02 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 = -446.6" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.3" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.2" [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 = 0.44 co2off = 377.48 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.08 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 3 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,] 8 10 [5,] 12 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 56 65 0.04077740 0.04703704 0.04460254 2 31.84141 209.1874 3 2 66 75 0.04773232 0.05399126 0.05155722 2 -15.39509 300.4127 5 2 356 365 0.24944444 0.25570749 0.25327004 3 -15.07743 295.3861 6 4 366 375 0.25640286 0.26266212 0.26022799 3 31.93303 212.5799 7 3 376 385 0.26335813 0.26963177 0.26858823 3 56.48744 132.0872 9 4 653 661 0.45725480 0.46281869 0.46073238 2 31.91478 210.2783 10 2 662 670 0.46351406 0.46907870 0.46699216 2 -14.90565 298.2379 13 2 953 962 0.66593866 0.67219818 0.66976403 3 -15.01788 297.9941 14 4 963 972 0.67289352 0.67915347 0.67671899 3 31.83780 209.4224 15 3 973 982 0.67984881 0.68611215 0.68506759 3 56.45191 131.5135 19 5 1090 1099 0.79181212 0.79807523 0.79703187 NA 24.19672 185.7598 21 4 1360 1369 0.97962937 0.98589236 0.98345541 2 31.87231 202.7446 22 2 1370 1379 0.98658791 0.99284679 0.99041266 2 -14.96231 294.6789 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.240334 1.363509 -0.0012747143 -0.21759776 0.006104009 3.382048 3 1.240467 1.363663 -0.0081070318 -0.27619955 0.021437877 1.502773 5 1.238523 1.361666 0.0020695724 0.66610730 0.007119393 2.645154 6 1.238335 1.361479 0.0025826604 -2.04528139 0.009630738 6.839843 7 1.238213 1.361369 0.0009829964 3.10012687 0.006075511 4.039527 9 1.236723 1.359898 0.0030107404 -0.76797389 0.015631951 2.359746 10 1.236861 1.359954 0.0059467695 0.02824557 0.015845234 3.068030 13 1.234538 1.357526 -0.0106224839 -0.15346150 0.026513263 2.437268 14 1.234385 1.357352 0.0039158209 1.96371486 0.012729256 5.647884 15 1.234324 1.357276 0.0015287035 -1.04995090 0.007476451 1.990159 19 1.233767 1.357020 -0.0600898540 3.15591189 0.042558989 14.935516 21 1.232054 1.355037 -0.0013877463 -0.59534543 0.009574834 2.791231 22 1.232099 1.355094 -0.0076296250 -0.34196393 0.023808996 2.581758 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.94 co2l1 = 0.438 co2l0 = 0.146" [1] "co2l0 = -142.2 co2l1 = 0.221" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "29 out of 45 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "16 out of 1171 1-min values rejected as stack air" [1] "16 out of 1171 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"