[1] "2025-04-29 17:19:07 MDT" [1] "1212" "121117" "d322" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121117a.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 17:19:12 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.775, ave o2scale2 = 0.786" [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] "481 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.775, ave o2scale2 = 0.786" [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] "481 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:19:12 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:19:12 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:19:31 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:19:33 MDT" [1] "reading in recalculated plot titles" [1] "Removed 481 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 955 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:19:48 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 = -449.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.421 co2off = 377 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 7.35 minutes" [1] "Shortest Cal: 3.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 2 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 8 [4,] 9 10 [5,] 11 13 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 3 2 66 70 0.07735775 0.08014022 0.07944484 3 -5.824396 195.60633 4 4 71 77 0.08361959 0.08988426 0.08723882 3 67.395473 36.75522 6 3 84 88 0.10101771 0.10380095 0.10588749 3 42.277313 120.46677 9 4 232 238 0.28540388 0.29166299 0.28943745 2 67.568540 39.07103 10 2 239 243 0.29236224 0.29862141 0.29792589 2 -5.861488 199.65528 13 2 400 406 0.49413519 0.50040020 0.49817163 3 -5.891448 200.98765 14 4 407 413 0.50109580 0.50735854 0.50596535 3 67.786095 39.99398 15 3 414 417 0.51083568 0.51292575 0.51605599 3 42.484875 116.93890 18 4 584 589 0.70287500 0.70635234 0.70530928 2 68.052406 41.91777 19 2 590 599 0.70982986 0.71608961 0.71365512 2 -6.513578 205.62210 23 2 841 850 0.91163313 0.91789647 0.91545994 3 -6.700023 199.19092 24 4 851 860 0.91859265 0.92485208 0.92241813 3 68.021594 43.19347 25 3 861 869 0.92555075 0.93111554 0.93041968 3 42.319580 112.22180 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 3 1.288029 1.269875 -0.006772203 2.9396775 0.006821477 3.024722 4 1.287935 1.269794 0.001799212 0.5254691 0.009472483 2.433712 6 1.288091 1.269898 -0.002652496 3.3331056 0.002656801 8.954654 9 1.290180 1.272062 -0.001589963 0.3869512 0.006690980 1.407211 10 1.290463 1.272635 -0.009566067 1.8706501 0.013905318 1.873612 13 1.292110 1.274420 0.009443191 0.2455309 0.029811357 4.180919 14 1.292038 1.274475 0.008267829 -1.7190784 0.019266426 2.889924 15 1.291941 1.274307 0.004240812 0.8326377 0.003005204 5.285251 18 1.291521 1.274327 0.005667227 -1.5894097 0.007338983 5.789302 19 1.291741 1.274531 -0.007436366 0.6965047 0.022595377 5.542838 23 1.288149 1.270716 -0.008011723 -0.4179313 0.020553391 2.078974 24 1.287834 1.270393 0.007975002 0.5813920 0.021440116 2.697170 25 1.287471 1.270060 0.001729390 0.6264520 0.009794019 1.103744 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 376.937 co2l1 = 0.42 co2l0 = 0.029" [1] "co2l0 = -121.69 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "134 out of 439 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "305 out of 784 1-min values rejected as stack air" [1] "284 out of 700 Line 1 1-min values rejected as stack air" [1] "21 out of 84 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"