[1] "2025-04-30 01:58:27 MDT" [1] "1611" "161125" "d330" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/161125a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 82080 63 [1] 82080 [1] 82080 [1] "testing skipping spike filter" [1] 82080 [1] 82080 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-30 01:58:31 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 1.034, ave o2scale2 = 0.845" [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] "3 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 1.034, ave o2scale2 = 0.845" [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] "3 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-30 01:58:31 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:58:31 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:58:48 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:58:49 MDT" [1] "reading in recalculated plot titles" [1] "Removed 3 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1363 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:58:55 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -523" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.17 O2 = -648" [1] "position 4 cylinder CB08905 description: LT CO2 = 404.34 O2 = -653.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = 398.16 O2 = -1524.9" [1] "Nominal linear calibrations:" [1] "co2scl = 0.962 co2off = 413.24 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 8.38 minutes" [1] "Average Cal: 8.19 minutes" [1] "Shortest Cal: 7.31 minutes" [1] "Longest Cal: 8.48 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 2 2 27 34 0.02110926 0.02622300 0.02441057 3 -34.42845 61.82119 3 4 35 43 0.02695897 0.03282193 0.03062398 3 -12.06250 -52.85843 4 3 44 52 0.03355576 0.03937830 0.03865528 3 -25.42896 51.94903 6 4 312 320 0.22905480 0.23490003 0.23271291 2 -12.06946 -61.13127 7 2 321 329 0.23561166 0.24142407 0.23925837 2 -34.43980 57.98781 10 2 598 606 0.43766866 0.44349789 0.44129446 3 -34.45368 62.10002 11 4 607 615 0.44422627 0.45003235 0.44785037 3 -12.07796 -54.32324 12 3 616 623 0.45076337 0.45583889 0.45547151 3 -25.45796 48.22702 14 4 882 890 0.64586372 0.65167251 0.64949496 2 -12.00371 -54.40782 15 2 891 898 0.65239094 0.65749334 0.65568342 2 -34.39419 60.63614 17 2 1165 1173 0.85412691 0.85994294 0.85776150 3 -34.33034 61.06096 18 4 1174 1182 0.86066030 0.86654175 0.86434142 3 -11.94954 -57.94899 20 3 1192 1200 0.87386918 0.87975605 0.87901118 3 -25.33615 39.72760 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 0.9668561 1.183633 0.0031641689 0.2001500 0.006744838 0.9932068 3 0.9666178 1.183331 0.0019675628 -0.4191347 0.005042011 1.0828480 4 0.9666113 1.183304 -0.0006319225 2.4103364 0.003659269 2.5410700 6 0.9663320 1.182743 0.0003610066 0.8570403 0.003956093 2.6741979 7 0.9663741 1.182800 0.0008297484 0.4626442 0.004775620 2.2706442 10 0.9659168 1.182224 -0.0026492089 -0.5611523 0.006133649 3.1482287 11 0.9659243 1.182228 -0.0002257409 -1.6926230 0.006945178 5.0261092 12 0.9660491 1.182358 -0.0013290660 -4.0228263 0.004293466 3.0096712 14 0.9674500 1.183774 0.0001763506 0.4058252 0.005925191 2.3036123 15 0.9675516 1.183893 -0.0021409732 -0.4208043 0.005071058 3.0196683 17 0.9689252 1.185361 0.0007821631 0.4047835 0.003498113 2.9916810 18 0.9687738 1.185197 0.0006250682 1.4582442 0.004847910 3.7266759 20 0.9688716 1.185289 -0.0024647350 -4.3796948 0.006274624 4.7104923 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 417.734 co2l1 = 0.961 co2l0 = 0.05" [1] "co2l0 = -104.01 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "121 out of 295 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "174 out of 1174 1-min values rejected as stack air" [1] "174 out of 1174 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"