[1] "2025-04-29 20:53:31 MDT" [1] "1403" "140322" "d081" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140322a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 71040 63 [1] 71040 [1] 71040 [1] "testing skipping spike filter" [1] 71040 [1] 71040 [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 20:53:35 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.822, ave o2scale2 = 0.749" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "161 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.822, ave o2scale2 = 0.749" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "162 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 20:53:35 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 20:53:35 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 20:53:40 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 20:53:41 MDT" [1] "reading in recalculated plot titles" [1] "Removed 162 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "Removed 5 row(s) with variable TFCELL" [1] "TEMP: 1016 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 20:53:43 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.62 O2 = -476" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.98 O2 = -541.9" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.22 O2 = -634" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.09 O2 = -572.2" [1] "position 5 cylinder CA07554 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CA07556 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.395 co2off = 361.1 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.76 minutes" [1] "Shortest Cal: 7.01 minutes" [1] "Longest Cal: 9.02 minutes" [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 jfcv1 2 4 212 221 0.3931586 0.3994217 0.3969847 2 86.77684 106.4252 1.222456 3 2 222 229 0.4001171 0.4049853 0.4032468 2 16.44566 224.1238 1.222399 5 2 484 493 0.6018356 0.6080984 0.6056643 3 17.69396 261.3436 1.216439 6 4 494 503 0.6087940 0.6150534 0.6126191 3 87.82713 123.7859 1.216083 7 3 504 513 0.6157488 0.6220082 0.6209649 3 63.82501 204.2455 1.215964 10 4 770 779 0.8105076 0.8167664 0.8143325 2 87.89291 131.1731 1.211504 11 2 780 789 0.8174618 0.8237249 0.8212908 2 19.69210 265.5829 1.211352 12 5 790 799 0.8244203 0.8306797 0.8296367 NA 61.71144 194.2853 1.211496 jfcv2 co2slp o2slp co2sd o2sd 2 1.340491 0.026575990 10.0368356 0.065857174 26.706374 3 1.340447 0.033394198 13.2070186 0.063753146 25.109636 5 1.334580 0.015411003 5.0954524 0.038640671 13.292440 6 1.334233 0.013804999 2.5317363 0.039362972 8.160306 7 1.334175 0.003807842 -1.3891747 0.009730202 2.007928 10 1.331806 0.001265456 -1.4826149 0.010412740 7.165078 11 1.331604 0.002963416 2.3583052 0.008149341 8.412170 12 1.331731 0.001872737 -0.8856834 0.001325825 2.198484 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 369.497 co2l1 = 0.397 co2l0 = -0.346" [1] "co2l0 = -143.25 co2l1 = 0.247" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "51 out of 85 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "34 out of 899 1-min values rejected as stack air" [1] "10 out of 249 Line 1 1-min values rejected as stack air" [1] "24 out of 650 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"