[1] "2025-04-29 21:31:56 MDT" [1] "1406" "140712" "d193" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/140712a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 85475 63 [1] 85475 [1] 85475 [1] "testing skipping spike filter" [1] 85475 [1] 85475 [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 21:32:00 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.743" [1] "Removing 2 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 1 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] "7 MR delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.825, ave o2scale2 = 0.743" [1] "Removing 2 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "9 RC delta diff NA values ( most likely because WTDIFF > 1000 )" [1] "2025-04-29 21:32:01 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 21:32:01 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 21:32:22 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 21:32:23 MDT" [1] "reading in recalculated plot titles" [1] "Removed 9 row(s) with NAs in them ( most likely because WTDIFF > 1000 )" [1] "TEMP: 1414 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 21:32:26 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 = -476.6" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.7" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -634.4" [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 = 0.472 co2off = 384.84 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: 9.02 minutes" [1] "Longest Cal: 9.04 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [5,] 13 14 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 82 91 0.05840984 0.06467520 0.06223917 2 42.14817 138.2405 3 2 92 101 0.06537257 0.07163542 0.06919837 2 -16.51904 282.0144 4 5 102 111 0.07233102 0.07859375 0.07755051 NA 19.66431 199.7644 6 2 382 391 0.26716947 0.27344618 0.27101003 3 -16.67802 278.7925 7 4 392 401 0.27414158 0.28040454 0.27797014 3 41.96727 134.4091 8 3 402 411 0.28109983 0.28736305 0.28631991 3 22.07326 213.6467 10 4 682 691 0.47599870 0.48226322 0.47982580 2 41.72126 136.9692 11 2 692 701 0.48295859 0.48922173 0.48678526 2 -16.92418 279.1703 13 2 965 974 0.68440313 0.69066594 0.68823171 3 -18.84229 270.1167 14 4 975 984 0.69136236 0.69762833 0.69519085 3 39.65718 126.1188 15 5 985 994 0.69832376 0.70458681 0.70354230 NA 16.65581 191.8267 16 3 995 1004 0.70528244 0.71154517 0.71050198 3 19.82218 203.7720 18 4 1265 1274 0.89314144 0.89940440 0.89696948 2 39.49919 130.9748 19 2 1275 1284 0.90009983 0.90636293 0.90392831 2 -18.99387 275.2502 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.226902 1.362771 0.0006341399 0.38799004 0.004326227 2.017049 3 1.226828 1.362673 -0.0084270570 0.33339726 0.023635767 3.280839 4 1.226387 1.362230 -0.0131042516 2.98537839 0.009280777 5.267313 6 1.218902 1.354072 -0.0005343187 0.01071844 0.002473732 3.084646 7 1.218436 1.353560 0.0059079076 0.69442956 0.018716033 5.547718 8 1.217619 1.352692 -0.0080556297 -1.76305851 0.021865851 2.366158 10 1.209964 1.344233 -0.0068901129 2.96163879 0.017435258 10.271221 11 1.210003 1.344268 -0.0050693096 0.26611930 0.016194667 3.211781 13 1.206512 1.340484 -0.0051458301 0.49183460 0.013835608 5.768847 14 1.206054 1.339973 0.0053326398 0.29947241 0.015878495 2.261894 15 1.205929 1.339809 -0.0036189684 -6.47096431 0.002563262 8.578651 16 1.205822 1.339702 0.0027082052 -0.83956770 0.009605177 1.355663 18 1.200969 1.334360 -0.0035844418 1.34412172 0.010476270 3.666683 19 1.200917 1.334286 -0.0061274422 0.97636046 0.016324999 5.110880 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 384.924 co2l1 = 0.471 co2l0 = 0.07" [1] "co2l0 = -143.2 co2l1 = 0.222" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "264 out of 497 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "233 out of 1222 1-min values rejected as stack air" [1] "0 out of 0 Line 1 1-min values rejected as stack air" [1] "233 out of 1222 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"