[1] "2025-04-29 18:56:57 MDT" [1] "1306" "130611" "d162" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130611a.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 18:57:01 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.724" [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] "556 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.779, ave o2scale2 = 0.724" [1] "Removing 0 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 0 RC FC 2 jog(s) with SP SD > 1000" [1] "556 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 18:57:01 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 18:57:01 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 18:57:18 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 18:57:20 MDT" [1] "reading in recalculated plot titles" [1] "Removed 556 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 880 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 18:57:32 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 = -447.7" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -625" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.97 O2 = -542.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.07 O2 = -572.2" [1] "position 5 cylinder CB10023 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.3 co2off = 371.49 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 4.01 minutes" [1] "Average Cal: 5.09 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.01 minutes" [1] "Removed 4 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 3 4 [3,] 5 6 [4,] 7 8 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 18 22 0.02173264 0.02451467 0.02381926 2 44.01987 153.5257 3 2 23 27 0.02799560 0.03077775 0.03008217 2 -25.26969 240.7733 5 2 202 206 0.23257775 0.23536293 0.23466742 2 -24.86842 241.1639 6 4 207 211 0.23884016 0.24162309 0.24092652 2 44.11160 160.7404 9 4 382 387 0.44065038 0.44413125 0.44308826 2 44.43819 153.8044 10 2 388 393 0.44691667 0.45039398 0.44935095 2 -24.49297 245.6936 18 4 730 739 0.85536939 0.86162922 0.85919483 2 44.41955 158.1662 19 2 740 745 0.86232488 0.86858521 0.86754193 2 -24.59995 242.8525 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.288141 1.387090 -0.023810516 3.2364530 0.023844303 3.2493147 3 1.288093 1.387220 -0.017596062 -1.3256173 0.017720817 1.3650935 5 1.287351 1.386394 -0.010764418 2.6012031 0.011175156 2.9978112 6 1.287206 1.386088 -0.001310218 -6.2779976 0.002231113 6.6795248 9 1.283369 1.382127 -0.018625630 0.1085968 0.024573550 1.2418051 10 1.283391 1.382156 -0.007814843 2.7443263 0.011905498 3.6956263 18 1.279946 1.378612 -0.004577825 0.4575310 0.012965517 3.2201734 19 1.279993 1.378703 -0.032019162 0.2542092 0.046921765 0.3321341 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 381.734 co2l1 = 0.299 co2l0 = 0" [1] "co2l0 = -133.02 co2l1 = 0.233" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "65 out of 275 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "210 out of 759 1-min values rejected as stack air" [1] "157 out of 684 Line 1 1-min values rejected as stack air" [1] "53 out of 75 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"