[1] "2025-04-29 17:17:47 MDT" [1] "1212" "121115" "d320" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/121115a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86160 63 [1] 86160 [1] 86160 [1] "testing skipping spike filter" [1] 86160 [1] 86160 [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 17:17:51 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.781" [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] "642 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.77, ave o2scale2 = 0.781" [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] "643 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 17:17:51 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 17:17:51 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 17:18:11 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 17:18:12 MDT" [1] "reading in recalculated plot titles" [1] "Removed 643 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 791 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 17:18:25 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 = -449.3" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.96 O2 = -543.1" [1] "position 3 cylinder CB08911 description: LS CO2 = 405.32 O2 = -626.1" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CA07554 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.42 co2off = 366.96 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 4.01 minutes" [1] "Average Cal: 4.93 minutes" [1] "Shortest Cal: 2 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 5 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 [4,] 8 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 4 4 150 154 0.1998834 0.2026655 0.2019699 2 66.893771 38.65502 5 2 155 158 0.2061461 0.2082326 0.2078849 2 -6.843344 193.85128 9 2 310 316 0.4058495 0.4121094 0.4107186 3 -6.745433 200.82195 10 4 317 321 0.4148912 0.4176765 0.4169812 3 66.964521 45.67891 11 3 322 325 0.4211539 0.4232435 0.4263795 3 41.626219 119.05940 14 4 472 476 0.6174446 0.6202306 0.6195352 2 67.141792 42.36771 15 2 477 481 0.6230127 0.6257942 0.6250988 2 -6.808688 198.69547 19 4 649 654 0.8305442 0.8368141 0.8343765 1 67.405484 40.88437 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 4 1.298040 1.280444 0.002870238 1.707249 0.003059522 1.714808 5 1.298031 1.280470 -0.003556720 -8.754510 0.002519068 6.200433 9 1.297306 1.279862 0.004201404 -1.807688 0.006821716 3.705116 10 1.297115 1.279613 0.013919828 -6.310212 0.014012039 6.802257 11 1.297011 1.279436 0.009300874 4.841780 0.006584932 15.130971 14 1.298286 1.280681 0.007146272 -3.340978 0.007657292 3.369047 15 1.298432 1.280767 0.002621505 -4.741142 0.002799972 4.756030 19 1.300958 1.283594 0.002702971 1.713333 0.017454433 6.154006 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 377.16 co2l1 = 0.42 co2l0 = 0.038" [1] "co2l0 = -122.25 co2l1 = 0.23" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "38 out of 70 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "32 out of 664 1-min values rejected as stack air" [1] "2 out of 602 Line 1 1-min values rejected as stack air" [1] "30 out of 62 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "making html"