[1] "2025-04-29 19:44:58 MDT" [1] "1311" "131106" "d310" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131106a.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 19:45:02 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.818, ave o2scale2 = 0.744" [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] "64 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.818, ave o2scale2 = 0.744" [1] "Removing 1 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 1 RC FC 2 jog(s) with SP SD > 1000" [1] "66 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:45:03 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:45:03 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:45:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:45:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 66 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1370 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:45:30 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 = 0.442 co2off = 384.41 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.73 minutes" [1] "Shortest Cal: 7.01 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 jfcv1 2 4 150 159 0.1187142 0.1249736 0.1225396 2 32.65927 207.5023 1.218661 3 2 160 169 0.1256690 0.1319290 0.1294947 2 -14.26961 297.8242 1.218822 5 2 438 447 0.3274127 0.3336805 0.3312400 3 -14.01050 292.8220 1.218269 6 4 448 457 0.3343757 0.3406387 0.3382025 3 32.57361 209.0473 1.218061 7 5 458 467 0.3413341 0.3475937 0.3465503 NA 25.31459 184.9629 1.217839 8 3 468 477 0.3482892 0.3545484 0.3535051 3 57.04352 130.0840 1.218022 10 4 720 727 0.5361729 0.5410417 0.5393027 2 32.59892 202.9815 1.223442 11 2 728 737 0.5431283 0.5493878 0.5469533 2 -14.17592 300.1087 1.223773 13 2 1006 1015 0.7448866 0.7511463 0.7487122 3 -14.51937 295.0519 1.227377 14 4 1016 1025 0.7518418 0.7581009 0.7556669 3 32.42622 208.9949 1.227399 15 3 1026 1034 0.7587970 0.7643611 0.7636655 3 56.98018 136.3119 1.227487 17 4 1305 1314 0.9535801 0.9598392 0.9574052 2 32.38893 208.9186 1.228555 18 2 1315 1323 0.9605350 0.9660988 0.9640125 2 -14.54654 303.4253 1.228574 19 5 1324 1333 0.9674896 0.9737495 0.9727064 NA 25.61863 188.6499 1.228156 jfcv2 co2slp o2slp co2sd o2sd 2 1.339846 -4.422422e-03 0.2668422 0.013832736 4.961381 3 1.339989 4.726060e-04 1.3143543 0.020087414 4.779479 5 1.339990 -1.606568e-02 -0.4525135 0.040261935 9.996473 6 1.339777 -2.981825e-03 0.5543301 0.008443996 4.931216 7 1.339506 -6.957444e-02 -1.6490904 0.049276504 2.418984 8 1.339707 4.259002e-03 1.2060000 0.010950372 4.175800 10 1.345448 -6.988430e-03 -1.7957719 0.017866679 3.699891 11 1.345838 -1.344526e-03 -0.7825058 0.006480547 7.100074 13 1.349343 1.048246e-03 0.7365553 0.006475007 2.090147 14 1.349350 2.987268e-05 0.6561530 0.009806441 2.614639 15 1.349390 1.285818e-03 3.1676470 0.004919856 3.380039 17 1.350588 1.345607e-03 0.3018817 0.009599714 8.609726 18 1.350603 -4.014005e-04 -1.0029937 0.008573724 6.816666 19 1.350143 -8.114856e-02 -3.2562302 0.057452426 4.222981 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 380.62 co2l1 = 0.439 co2l0 = 0.14" [1] "co2l0 = -141.41 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "67 out of 315 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "248 out of 1182 1-min values rejected as stack air" [1] "248 out of 1182 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"