[1] "2025-04-29 19:52:44 MDT" [1] "1312" "131125" "d329" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131125a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [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 19:52:48 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.802, ave o2scale2 = 0.729" [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] "27 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.802, ave o2scale2 = 0.729" [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] "26 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:52:48 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:52:48 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:53:11 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:53:12 MDT" [1] "reading in recalculated plot titles" [1] "Removed 26 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1409 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:53:18 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 = -446.4" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.2" [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 = 0.408 co2off = 381.99 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.18 minutes" [1] "Shortest Cal: 3 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 1 [2,] 2 4 [3,] 5 6 [4,] 8 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 1 2 1 4 0.001847946 0.003934028 0.003586285 1 -19.24162 305.6425 3 2 285 294 0.199386863 0.205646817 0.203212605 3 -18.95945 299.2294 4 4 295 304 0.206342159 0.212601794 0.210167452 3 32.06968 206.2127 5 3 305 314 0.213297135 0.219556510 0.218513252 3 58.79854 142.4262 7 4 580 589 0.408095226 0.414356481 0.411921886 2 31.91241 209.4418 8 2 590 599 0.415052083 0.421314815 0.418880046 2 -18.87479 300.4967 9 5 600 609 0.422010417 0.428269676 0.427226389 NA 23.76772 177.8505 11 2 879 887 0.617556395 0.623120457 0.621033978 3 -18.75865 298.7480 12 4 888 897 0.623816001 0.630075289 0.627641218 3 31.71123 209.9251 13 3 898 907 0.630770891 0.637030469 0.635987428 3 58.14815 135.2895 15 4 1177 1186 0.825540770 0.831800926 0.829366630 2 31.62332 203.8323 16 2 1187 1193 0.832496470 0.836669444 0.835278426 2 -18.58955 303.8791 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 1 1.252632 1.376595 0.0072391413 -24.8347880 0.005126524 17.587188 3 1.248535 1.371974 0.0060113042 -1.5659129 0.016399329 3.936300 4 1.248437 1.371916 0.0016055632 -1.7141867 0.006539837 6.708315 5 1.248372 1.371910 0.0001818967 0.5679835 0.011778695 3.655230 7 1.247876 1.373589 -0.0079148754 1.2112310 0.022914557 4.565701 8 1.247733 1.373401 -0.0062012333 0.6222433 0.020669863 7.692035 9 1.247643 1.373122 -0.0658332640 -2.0334597 0.046624853 2.635178 11 1.245809 1.370313 -0.0064763167 2.2668984 0.015660579 8.309026 12 1.245723 1.370208 0.0055531759 1.0258035 0.014803729 5.724525 13 1.245593 1.370059 0.0024909399 8.1734328 0.008587908 11.443973 15 1.244966 1.370634 -0.0019785137 -2.0353378 0.006885903 10.603474 16 1.245068 1.370961 -0.0092850468 0.1412316 0.016862750 4.086007 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.977 co2l1 = 0.404 co2l0 = 0.171" [1] "co2l0 = -142.54 co2l1 = 0.22" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "52 out of 60 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "8 out of 1249 1-min values rejected as stack air" [1] "8 out of 1249 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"