[1] "2025-04-29 19:28:46 MDT" [1] "1310" "131005" "d278" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/131005a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 44280 63 [1] 44280 [1] 44280 [1] "testing skipping spike filter" [1] 44280 [1] 44280 [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 19:28:49 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.783, ave o2scale2 = 0.713" [1] "Removing 1 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 MR FC 2 jog(s) with SP SD > 1000" [1] "45 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.783, ave o2scale2 = 0.713" [1] "Removing 1 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 2 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 1 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 1 RC FC 2 jog(s) with SP SD > 1000" [1] "45 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 19:28:49 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 19:28:49 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 19:28:54 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 19:28:55 MDT" [1] "reading in recalculated plot titles" [1] "Removed 45 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 692 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 19:28:57 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 = 394.97 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 = 0.417 co2off = 382.84 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 2 3 [2,] 4 6 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig jfcv1 1 5 1 10 0.5149072 0.5211661 0.5201230 NA 25.04897 188.7244 1.278580 3 4 269 278 0.7027384 0.7090012 0.7065667 2 29.35267 194.6861 1.277720 4 2 279 288 0.7096968 0.7159595 0.7135245 2 -20.06463 288.8544 1.277646 7 2 566 575 0.9115081 0.9177742 0.9153398 3 -20.27540 298.0198 1.275713 8 4 576 585 0.9184696 0.9247288 0.9222946 3 29.41630 201.9189 1.275671 9 3 586 595 0.9254247 0.9316840 0.9306407 3 55.36209 128.7715 1.275494 jfcv2 co2slp o2slp co2sd o2sd 1 1.404293 0.0053056469 -12.896687 0.003756505 17.256550 3 1.404167 0.0215650614 -3.597052 0.059749596 11.991319 4 1.404141 0.0044776169 -2.313139 0.013859927 9.912120 7 1.402072 0.0130126577 -0.162129 0.032925951 2.018047 8 1.402057 0.0087487974 2.459878 0.031292247 7.222149 9 1.401872 -0.0001628621 1.339825 0.009118267 1.970699 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 382.705 co2l1 = 0.414 co2l0 = 0.17" [1] "co2l0 = -138.76 co2l1 = 0.213" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "95 out of 165 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "70 out of 595 1-min values rejected as stack air" [1] "67 out of 389 Line 1 1-min values rejected as stack air" [1] "3 out of 206 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"