[1] "2025-04-29 22:53:25 MDT" [1] "1501" "150115" "d015" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150115a.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 22:53:29 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.843, ave o2scale2 = 0.76" [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] "93 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.843, ave o2scale2 = 0.76" [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] "95 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:53:30 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:53:30 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:53:46 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:53:47 MDT" [1] "reading in recalculated plot titles" [1] "Removed 95 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1341 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:53:53 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.2" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.2" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.937 co2off = 386.65 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.66 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.04 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 [5,] 12 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 72 81 0.05018921 0.05644861 0.05401442 3 -16.158531 277.5949 3 4 82 91 0.05714395 0.06340347 0.06096931 3 13.342312 132.3782 4 3 92 96 0.06618924 0.06897106 0.07059396 3 3.446979 225.7197 6 4 357 366 0.25886473 0.26512497 0.26269030 2 13.349148 130.6662 7 2 367 376 0.26582052 0.27207986 0.26964546 2 -16.143188 286.6325 9 2 649 658 0.46761247 0.47388984 0.47144862 3 -16.059258 278.5576 10 4 659 668 0.47458521 0.48084476 0.47841056 3 13.428508 130.4341 11 5 669 678 0.48154010 0.48780304 0.48675978 NA 2.323313 191.5193 12 3 679 688 0.48849850 0.49476160 0.49371846 3 3.549852 207.9429 14 4 928 937 0.67633119 0.68259491 0.68015751 2 13.441547 130.7617 15 2 938 946 0.68329036 0.68955344 0.68716546 2 -16.042156 278.9283 17 2 1195 1204 0.88506560 0.89132870 0.88889451 3 -15.997344 276.4518 18 4 1205 1214 0.89202428 0.89828429 0.89584992 3 13.476469 132.2588 19 3 1215 1224 0.89897934 0.90523903 0.90419596 3 3.604922 209.4727 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.177789 1.307603 -0.0011500279 1.0275840 0.003062409 2.8275807 3 1.177706 1.307508 0.0008677011 0.6341648 0.005620733 2.8397408 4 1.177600 1.307501 -0.0056163825 7.5725007 0.005696879 15.8265146 6 1.181342 1.311549 -0.0009501017 0.9839001 0.003150067 3.8665662 7 1.181571 1.311761 -0.0020460076 6.5193193 0.005377699 18.9660734 9 1.186420 1.316783 0.0005159993 0.4479960 0.001713405 3.0664029 10 1.186415 1.316788 0.0018712349 -0.4851548 0.010456940 3.1206652 11 1.186621 1.317010 -0.0023716402 0.2337418 0.001679379 0.5632301 12 1.186839 1.317270 -0.0017822328 -0.9366131 0.005143036 1.3858182 14 1.189216 1.320314 0.0001988614 -1.6172059 0.001547517 4.3828040 15 1.189334 1.320395 -0.0012255334 -0.7927825 0.006316132 2.7881000 17 1.193341 1.324360 -0.0025736714 1.3223782 0.007154622 4.1830571 18 1.193440 1.324481 0.0026342542 0.5265678 0.008304138 2.2587952 19 1.193545 1.324592 -0.0006730253 -0.4655220 0.005837719 2.7286684 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 391.686 co2l1 = 0.936 co2l0 = 0.008" [1] "co2l0 = -141.93 co2l1 = 0.214" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "99 out of 200 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "101 out of 1165 1-min values rejected as stack air" [1] "101 out of 1165 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"