[1] "2025-04-29 23:46:25 MDT" [1] "1504" "150426" "d116" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/150426a.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 23:46:29 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] "85 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] "85 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 23:46:30 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 23:46:30 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 23:46:51 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 23:46:53 MDT" [1] "reading in recalculated plot titles" [1] "Removed 85 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1351 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 23:46:55 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 = -478.1" [1] "position 2 cylinder CA07671 description: MS CO2 = 393.3 O2 = -526.1" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.24 O2 = -635.6" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 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 = 0.954 co2off = 413.03 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.01 minutes" [1] "Average Cal: 8.68 minutes" [1] "Shortest Cal: 4.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 3 [2,] 4 5 [3,] 7 9 [4,] 10 11 [5,] 12 15 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 2 3 12 0.002223409 0.008486574 0.006051736 3 -32.948266 267.1794 3 4 13 22 0.009181858 0.015441811 0.013007281 3 -3.974031 123.3571 4 3 23 32 0.016137095 0.022395978 0.021352980 3 -15.441531 217.1060 6 4 299 308 0.210995312 0.217254803 0.214820385 2 -3.982375 113.6865 7 2 309 318 0.217950289 0.224213513 0.221777593 2 -32.964000 267.9148 8 5 319 328 0.224908854 0.231172541 0.230129116 NA -14.893031 174.1489 10 2 584 592 0.419703067 0.425962413 0.423677286 3 -33.002148 261.3239 11 4 593 602 0.426657784 0.432921007 0.430486762 3 -4.013609 118.1422 12 3 603 612 0.433616464 0.439876157 0.438832812 3 -15.484852 196.0054 14 4 838 842 0.628386198 0.631168547 0.630473139 2 -4.092313 113.1329 15 2 843 849 0.635344444 0.641608854 0.640214566 2 -33.062910 279.1030 17 2 1118 1127 0.837076331 0.843336487 0.840901317 3 -32.945563 268.9510 18 4 1128 1137 0.844034722 0.850293808 0.847859621 3 -3.985469 122.1262 19 5 1138 1147 0.850991898 0.857252083 0.856208840 NA -14.853344 185.0548 20 3 1148 1157 0.857947367 0.864207176 0.863164034 3 -15.432578 221.4453 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.185320 1.317939 -0.0009398137 0.41765647 0.002600599 5.7747187 3 1.185441 1.317999 0.0038210629 1.76626839 0.012053962 14.9854266 4 1.185309 1.317933 0.0008143408 0.12345006 0.003869235 0.5113109 6 1.184688 1.316642 -0.0026253741 2.05206670 0.007608736 6.9486340 7 1.184737 1.316701 -0.0048992547 -1.94734678 0.012851009 5.4750455 8 1.184691 1.316539 -0.0054277752 -1.47215214 0.003844893 11.4305144 10 1.185972 1.315328 0.0012764985 1.88514687 0.004253576 8.0436110 11 1.185957 1.315280 0.0021915178 -0.18329113 0.006576452 10.2135656 12 1.186332 1.315253 0.0017895014 -0.19704211 0.006404339 2.8753929 14 1.180153 1.309592 0.0022468702 -6.03028152 0.002314189 6.0960704 15 1.181231 1.310739 -0.0033305357 5.43217459 0.005462749 9.5777008 17 1.188495 1.320182 0.0007149927 0.97149932 0.006403560 2.9349876 18 1.188610 1.320320 0.0011589284 -0.07773351 0.004161232 3.1707509 19 1.189035 1.320792 -0.0028085213 1.88708480 0.001988738 3.7350558 20 1.189376 1.321123 0.0018229960 2.41322299 0.007914777 3.2559979 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 408.06 co2l1 = 0.953 co2l0 = 0.019" [1] "co2l0 = -138.7 co2l1 = 0.212" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "90 out of 280 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "190 out of 1153 1-min values rejected as stack air" [1] "190 out of 1153 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"