[1] "2025-04-29 19:08:21 MDT" [1] "1306" "130628" "d179" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/130628a.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 19:08:25 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.774, ave o2scale2 = 0.717" [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] "34 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.774, ave o2scale2 = 0.717" [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] "34 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:08:26 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:08:26 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:08:44 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:08:46 MDT" [1] "reading in recalculated plot titles" [1] "Removed 34 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1401 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:09:01 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 = -447.6" [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 = 394.08 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 = 0.306 co2off = 383.44 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 8.63 minutes" [1] "Shortest Cal: 6.01 minutes" [1] "Longest Cal: 9.03 minutes" [1] "Removed 1 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 10 [5,] 11 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 96 105 0.06715966 0.07342245 0.07098626 2 49.29787 159.77114 3 2 106 115 0.07411800 0.08038079 0.07794538 2 -18.06815 251.82024 5 2 391 400 0.27593180 0.28219181 0.27975712 3 -18.64209 247.83442 6 4 401 410 0.28288707 0.28914621 0.28671219 3 49.02360 159.75828 7 3 411 420 0.28984149 0.29610446 0.29506137 3 84.49641 88.96486 9 4 691 698 0.48631606 0.49118417 0.48944578 2 49.31469 157.31963 10 2 699 708 0.49188299 0.49814239 0.49570843 2 -18.33530 247.38152 13 2 986 995 0.69367514 0.69993811 0.69750145 3 -17.82568 246.05796 14 4 996 1005 0.70063336 0.70689670 0.70446068 3 49.49171 160.13359 15 3 1006 1015 0.70759216 0.71385492 0.71281178 3 84.56809 85.91921 17 4 1273 1282 0.90243215 0.90870116 0.90626248 2 49.39057 158.98632 18 2 1283 1292 0.90940133 0.91567523 0.91323768 2 -18.16004 246.32394 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.290987 1.394055 0.0069466240 0.3223819 0.018854530 3.7681057 3 1.290857 1.393936 -0.0045880198 5.1634400 0.016549234 15.0820433 5 1.289858 1.392847 -0.0159632232 -0.1593769 0.040671785 0.8875365 6 1.289865 1.392845 0.0033692552 0.5109896 0.009956094 2.6719032 7 1.290262 1.393283 0.0080050781 2.8662439 0.021900113 8.7945428 9 1.290890 1.394061 -0.0189672578 -1.0226090 0.037110182 3.8536619 10 1.290936 1.394138 -0.0257779343 0.9327829 0.065465459 3.2344757 13 1.292301 1.395546 0.0085988875 0.2574967 0.021717171 2.9234141 14 1.292306 1.395532 -0.0002923488 0.8256426 0.011036462 2.6488190 15 1.292073 1.395270 -0.0080648175 -0.7613828 0.022648763 2.3955620 17 1.295747 1.399150 0.0033743873 -0.9832886 0.008715009 3.6645989 18 1.295791 1.399194 -0.0101638089 0.3734484 0.025900715 4.1758506 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 379.883 co2l1 = 0.305 co2l0 = 0.113" [1] "co2l0 = -131.99 co2l1 = 0.224" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "29 out of 65 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "36 out of 1224 1-min values rejected as stack air" [1] "36 out of 1224 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] "making html"