[1] "2025-04-29 19:29:38 MDT" [1] "1310" "131007" "d280" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131007a.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 19:29:42 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.796, 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] "1 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.796, ave o2scale2 = 0.724" [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] "1 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:29:43 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:29:43 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:30:05 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:30:06 MDT" [1] "reading in recalculated plot titles" [1] "Removed 1 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1435 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:30:17 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 = -446.8" [1] "position 2 cylinder CB08911 description: MS CO2 = 405.33 O2 = -624.5" [1] "position 3 cylinder CB08905 description: LS CO2 = 394.98 O2 = -542.3" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.08 O2 = -572.2" [1] "position 5 cylinder CB09982 description: WT1 CO2 = 479.38 O2 = -1131.8" [1] "position 6 cylinder CB10019 description: WT2 CO2 = 407.52 O2 = -753.5" [1] "Nominal linear calibrations:" [1] "co2scl = 0.425 co2off = 385.96 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.35 minutes" [1] "Shortest Cal: 1 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Removed 1 calibration row(s) with high SD" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 2 2 234 243 0.1637547 0.1700180 0.1675833 3 -18.42113 302.2353 1.254200 3 4 244 253 0.1707133 0.1769767 0.1745423 3 29.74063 204.2195 1.254266 4 3 254 263 0.1776720 0.1839317 0.1828884 3 54.96609 133.5956 1.254078 6 4 534 543 0.3724484 0.3787076 0.3762735 2 29.67342 208.5028 1.254801 7 2 544 553 0.3794038 0.3856630 0.3832287 2 -18.82149 295.4687 1.254945 8 5 554 563 0.3863584 0.3926215 0.3915781 NA 25.53191 192.6556 1.254732 10 2 834 843 0.5811424 0.5874019 0.5849674 3 -19.05552 295.4949 1.257168 11 4 844 853 0.5880972 0.5943565 0.5919224 3 29.54609 208.6462 1.257223 12 3 854 863 0.5950526 0.6013160 0.6002696 3 54.99342 132.6359 1.257128 14 4 1134 1143 0.7898305 0.7960900 0.7936558 2 29.54268 206.4261 1.257490 15 2 1144 1153 0.7967859 0.8030524 0.8006153 2 -19.22320 294.5039 1.257768 jfcv2 co2slp o2slp co2sd o2sd 2 1.380882 -0.0029871682 0.6263019 0.011878007 3.8121523 3 1.380846 -0.0007286452 0.5634955 0.010606362 2.1715548 4 1.380576 0.0056067574 0.2586062 0.015878372 0.5790278 6 1.381367 -0.0053388609 1.3697737 0.014650647 4.0018986 7 1.381517 -0.0030999758 -0.5470053 0.018532261 1.9229295 8 1.381292 0.0019342762 6.0148008 0.001370019 8.0471585 10 1.383704 -0.0002591749 0.9012904 0.006382780 3.3205692 11 1.383693 0.0046698409 0.4374379 0.011969546 2.7705933 12 1.383597 0.0006082198 0.1328569 0.010605642 2.1699155 14 1.384025 -0.0011538883 0.1479026 0.004341381 1.3816365 15 1.384293 0.0015642481 0.9951299 0.006831881 3.3017820 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.339 co2l1 = 0.423 co2l0 = 0.174" [1] "co2l0 = -142.6 co2l1 = 0.223" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "151 out of 254 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "103 out of 1274 1-min values rejected as stack air" [1] "52 out of 1215 Line 1 1-min values rejected as stack air" [1] "51 out of 59 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"