[1] "2025-04-29 18:24:32 MDT" [1] "1303" "130405" "d095" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130405a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 83750 63 [1] 83750 [1] 83750 [1] "testing skipping spike filter" [1] 83750 [1] 83750 [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 18:24:36 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.776" [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] "188 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.771, ave o2scale2 = 0.776" [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] "188 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:24:36 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:24:36 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:24:45 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:24:46 MDT" [1] "reading in recalculated plot titles" [1] "Removed 188 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 437 row(s) with variable TFCELL" [1] "TEMP: 768 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:24:51 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 = -448.2" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.97 O2 = -542.8" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.33 O2 = -625.4" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.261 co2off = 377.6 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: 9.04 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 5 [3,] 6 7 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 57 66 0.04255382 0.04881311 0.04637899 2 86.64950 45.30105 3 2 67 75 0.04950828 0.05576832 0.05368173 2 -33.04312 209.31035 5 2 346 355 0.25129282 0.25755556 0.25512093 3 -32.39648 207.04596 6 4 356 365 0.25825116 0.26451577 0.26207978 3 86.50617 49.30408 7 3 366 375 0.26521412 0.27149337 0.27045040 3 45.84583 123.66750 9 4 631 640 0.46004867 0.46630888 0.46387422 2 86.62312 50.63939 10 2 641 650 0.46700420 0.47326698 0.47083124 2 -31.96244 205.73892 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.298363 1.290930 0.016869306 0.8387102 0.04230334 2.950193 3 1.298309 1.290834 -0.013855834 -0.8337495 0.03980286 3.100603 5 1.293821 1.286133 -0.003868341 -0.2350342 0.01255522 0.821967 6 1.293404 1.285741 0.016047478 -0.8655543 0.04097778 2.797876 7 1.293279 1.285607 0.010642686 1.3521699 0.02655799 2.895083 9 1.295471 1.287926 -0.004252355 0.7243600 0.01505181 3.029997 10 1.295769 1.288215 -0.009214256 1.0147029 0.03747843 2.904568 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.792 co2l1 = 0.261 co2l0 = 0.15" [1] "co2l0 = -123.4 co2l1 = 0.226" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "20 out of 20 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "0 out of 655 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "0 out of 655 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"