[1] "2025-04-30 01:33:23 MDT" [1] "1605" "160614" "d166" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/160614a.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] "2025-04-30 01:33:27 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.952, ave o2scale2 = 0.803" [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] "2 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.952, ave o2scale2 = 0.803" [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 > 200 )" [1] "2025-04-30 01:33:27 MDT" [1] "Plotting 1-second data" [1] "2025-04-30 01:33:27 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-30 01:33:43 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-30 01:33:45 MDT" [1] "reading in recalculated plot titles" [1] "Removed 2 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1434 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-30 01:33:48 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CB08910 description: HS CO2 = 384.67 O2 = -522.7" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 406.18 O2 = -648.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.12 O2 = -572.1" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.947 co2off = 402.23 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 9.01 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 6 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 239 248 0.1665033 0.1727627 0.1703283 3 -18.866680 208.15547 3 4 249 258 0.1734581 0.1797173 0.1772830 3 3.872758 90.89433 4 3 259 268 0.1804130 0.1866758 0.1856325 3 -9.699719 191.45831 6 4 539 548 0.3752014 0.3814614 0.3790270 2 4.002258 91.29603 7 2 549 558 0.3821569 0.3884162 0.3859819 2 -18.731547 205.02934 9 2 837 846 0.5838553 0.5901144 0.5876802 3 -18.638813 210.97946 10 4 847 856 0.5908097 0.5970692 0.5946350 3 4.081563 93.50427 11 5 857 866 0.5977646 0.6040239 0.6029808 NA -8.708125 153.92276 12 3 867 876 0.6047192 0.6109782 0.6099351 3 -9.440125 193.36651 14 4 1137 1146 0.7925174 0.7987766 0.7963425 2 4.138602 90.72218 15 2 1147 1156 0.7994721 0.8057314 0.8032971 2 -18.570484 211.87524 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.042553 1.235447 0.0002146831 -1.0461599 0.0021913073 3.006839 3 1.042744 1.235690 0.0007331907 -0.6496760 0.0060039456 3.745345 4 1.043189 1.236234 0.0009078988 -1.5005411 0.0035055759 2.112467 6 1.049768 1.244250 0.0002754814 1.0313562 0.0023441220 2.925210 7 1.050081 1.244596 -0.0014071141 0.3013658 0.0067121749 4.009408 9 1.054356 1.250018 -0.0023773209 1.6980306 0.0075127124 4.725856 10 1.054407 1.250097 0.0031321932 0.2549631 0.0085836873 1.639127 11 1.054792 1.250559 -0.0007490637 -6.3025373 0.0005303301 8.218626 12 1.054886 1.250678 -0.0004636304 -0.9080339 0.0018422739 1.370401 14 1.056512 1.252701 0.0001999363 0.1546395 0.0028357054 3.060671 15 1.056668 1.252877 -0.0031528996 0.2209866 0.0084020585 2.398013 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 402.362 co2l1 = 0.946 co2l0 = -0.018" [1] "co2l0 = -136.18 co2l1 = 0.218" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "133 out of 427 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "294 out of 1292 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "294 out of 1292 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"