[1] "2025-04-29 21:35:55 MDT" [1] "1406" "140719" "d200" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140719a.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 21:36:00 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.732" [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] "1 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.813, ave o2scale2 = 0.732" [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] "2 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:36:00 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:36:00 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:36:21 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:36:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1433 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:36:28 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.6" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.5" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.473 co2off = 372.45 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [4,] 9 11 [5,] 12 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 4 224 233 0.1575092 0.1637685 0.1613341 2 39.15755 135.4699 1.226433 3 2 234 243 0.1644641 0.1707269 0.1682902 2 -19.33748 279.4668 1.226490 5 2 524 533 0.3663148 0.3725776 0.3701432 3 -19.33021 277.2945 1.230786 6 4 534 543 0.3732732 0.3795359 0.3771019 3 39.14850 135.2939 1.230975 7 3 544 553 0.3802315 0.3864911 0.3854481 3 19.31580 213.0379 1.231248 9 4 824 833 0.5750698 0.5813380 0.5789018 2 39.16345 131.6532 1.232899 10 2 834 843 0.5820335 0.5882929 0.5858585 2 -19.32543 277.4422 1.233025 11 5 844 853 0.5889884 0.5952481 0.5942045 NA 16.95809 193.7117 1.233149 13 2 1124 1133 0.7838623 0.7901254 0.7876894 3 -19.31207 277.8452 1.234506 14 4 1134 1143 0.7908208 0.7970840 0.7946488 3 39.15745 137.1203 1.234880 15 3 1144 1153 0.7977794 0.8040509 0.8030075 3 19.36417 221.1511 1.234660 17 4 1424 1433 0.9925952 0.9988588 0.9964210 1 39.18284 134.5185 1.235329 jfcv2 co2slp o2slp co2sd o2sd 2 1.361361 -0.004365985 0.6908751 0.012019814 2.603999 3 1.361426 -0.005837046 1.0822529 0.016214933 2.782543 5 1.366246 -0.001005873 0.1225298 0.005246485 2.443716 6 1.366453 0.002789342 1.3783870 0.011868560 3.710393 7 1.366729 -0.001005487 -2.9569364 0.009086602 4.097464 9 1.368449 -0.005211198 1.7827329 0.013622204 4.900277 10 1.368599 -0.005946523 -0.1161495 0.016800445 1.608895 11 1.368727 -0.016157877 -2.8016709 0.011446291 4.258067 13 1.370198 0.001425619 -0.7967841 0.008125717 2.440868 14 1.370605 0.005302023 0.7340852 0.013624772 2.889932 15 1.370374 -0.002548090 -0.5965380 0.006847327 3.048050 17 1.371047 -0.001170326 0.3148568 0.008187121 2.117063 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.751 co2l1 = 0.472 co2l0 = 0.08" [1] "co2l0 = -144 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "19 out of 866 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "847 out of 1266 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "847 out of 1266 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"