[1] "2025-04-29 16:34:51 MDT" [1] "1206" "120614" "d166" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/120614g.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85800 63 [1] 85800 [1] 85800 [1] "testing skipping spike filter" [1] 85800 [1] 85800 [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 16:34:55 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.76, ave o2scale2 = 0.764" [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] "456 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.76, ave o2scale2 = 0.764" [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] "452 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 16:34:56 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 16:34:56 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 16:35:10 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 16:35:11 MDT" [1] "reading in recalculated plot titles" [1] "Removed 452 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 976 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 16:35:22 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 = -450.5" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.95 O2 = -543.5" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.8" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.06 O2 = -572.2" [1] "position 5 cylinder CC339495 description: WT1 CO2 = 394.28 O2 = -550.6" [1] "position 6 cylinder CC339490 description: WT2 CO2 = 396.41 O2 = -582.4" [1] "Nominal linear calibrations:" [1] "co2scl = 0.997 co2off = 385.81 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 6.52 minutes" [1] "Average Cal: 5.9 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.29 minutes" [1] "Removed 6 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 9 [5,] 10 11 [6,] 12 13 [7,] 14 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 4 101 106 0.1250123 0.1284962 0.1274509 2 19.427484 -71.507691 4 2 107 111 0.1340715 0.1368579 0.1361611 2 -11.681646 91.632436 6 2 198 201 0.2496931 0.2517822 0.2514338 2 -11.591125 90.813486 8 3 205 209 0.2601429 0.2629284 0.2659467 2 9.089375 5.680072 10 4 313 318 0.3715911 0.3778620 0.3768161 2 19.556313 -63.159563 11 2 319 325 0.3785588 0.3827386 0.3813457 2 -11.555763 96.292954 14 2 433 440 0.4969784 0.5018538 0.5001123 3 -11.554844 81.005862 15 4 441 446 0.5053360 0.5102132 0.5088197 3 19.565781 -58.484792 16 3 447 451 0.5116061 0.5172652 0.5179821 3 9.136396 22.642164 18 4 559 563 0.6236984 0.6265315 0.6258147 2 19.592750 -82.431810 19 2 564 573 0.6293980 0.6358474 0.6333394 2 -11.541859 95.110604 21 2 703 709 0.7499596 0.7541404 0.7527470 2 -11.547113 84.580240 22 4 710 719 0.7548381 0.7611049 0.7586680 2 19.588625 -63.640349 25 4 829 837 0.8735815 0.8791538 0.8770643 1 19.609902 -78.062855 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.313364 1.306521 -0.0008034715 3.3887985 0.001203700 5.2431639 4 1.313382 1.306659 0.0010590857 0.4224360 0.001209231 2.4939920 6 1.315129 1.308462 0.0032389336 -18.9697023 0.002298097 13.4594350 8 1.315404 1.308863 0.0039263571 5.5490195 0.004009754 21.2084098 10 1.316731 1.310312 -0.0032868796 0.1258200 0.004606099 0.4653273 11 1.316899 1.310522 -0.0026611032 3.9279153 0.006841452 6.9410951 14 1.317355 1.310944 0.0020671651 7.6909645 0.004612102 14.6163187 15 1.317446 1.311064 0.0003381195 -5.9769798 0.002398730 15.7697190 16 1.317383 1.311173 0.0006060457 15.9833707 0.002497134 19.7648126 18 1.318152 1.311783 -0.0033006894 6.0175352 0.003478169 7.3584972 19 1.318054 1.311690 -0.0015618410 0.4212624 0.005819145 8.6935886 21 1.318286 1.311966 -0.0036504537 6.1215409 0.005884202 14.7786949 22 1.317964 1.311575 0.0016919370 0.5904373 0.005827793 6.6036495 25 1.317582 1.311192 -0.0006007747 2.7567158 0.003748412 8.2250442 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 385.844 co2l1 = 0.997 co2l0 = 0.02" [1] "co2l0 = -97.55 co2l1 = 0.23" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "36 out of 210 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "174 out of 756 1-min values rejected as stack air" [1] "174 out of 756 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"